https://launchpad.net/~edd/+archive/ubuntu/misc/+build/24106401 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lgw01-amd64-020 5.4.0-120-generic #136-Ubuntu SMP Fri Jun 10 13:40:48 UTC 2022 x86_64 Buildd toolchain package versions: launchpad-buildd_215~563~ubuntu20.04.1 python3-lpbuildd_215~563~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.4 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 23 Jun 11:12:41 ntpdate[1821]: adjust time server 10.211.37.1 offset -0.000487 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-24106401 --image-type chroot /home/buildd/filecache-default/7f6882774d93a6ce12d34cd2f4e4b83a707bcc6e Creating target for build PACKAGEBUILD-24106401 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-24106401 Starting target for build PACKAGEBUILD-24106401 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-24106401 'deb http://ppa.launchpadcontent.net/edd/misc/ubuntu focal main' 'deb http://ppa.launchpadcontent.net/ubuntugis/ubuntugis-unstable/ubuntu focal main' 'deb http://ftpmaster.internal/ubuntu focal main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu focal-security main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu focal-updates main restricted universe multiverse' Overriding sources.list in build-PACKAGEBUILD-24106401 RUN: /usr/share/launchpad-buildd/bin/in-target add-trusted-keys --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-24106401 Adding trusted keys to build-PACKAGEBUILD-24106401 pub rsa4096/67C2D66C4B1D4339 2015-02-11 [SC] Key fingerprint = 39A9 0F2E 6D5D CC5D FB39 462B 67C2 D66C 4B1D 4339 uid Launchpad PPA for Dirk Eddelbuettel pub rsa1024/089EBE08314DF160 2009-05-10 [SC] Key fingerprint = 6B82 7C12 C2D4 25E2 27ED CA75 089E BE08 314D F160 uid Launchpad ubuntugis-stable RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-24106401 Updating target for build PACKAGEBUILD-24106401 Get:1 http://ftpmaster.internal/ubuntu focal InRelease [265 kB] Get:2 http://ppa.launchpadcontent.net/edd/misc/ubuntu focal InRelease [18.1 kB] Get:3 http://ppa.launchpadcontent.net/ubuntugis/ubuntugis-unstable/ubuntu focal InRelease [23.8 kB] Get:4 http://ftpmaster.internal/ubuntu focal-security InRelease [114 kB] Get:5 http://ftpmaster.internal/ubuntu focal-updates InRelease [114 kB] Get:6 http://ppa.launchpadcontent.net/edd/misc/ubuntu focal/main amd64 Packages [14.9 kB] Get:7 http://ppa.launchpadcontent.net/edd/misc/ubuntu focal/main Translation-en [7832 B] Get:8 http://ppa.launchpadcontent.net/ubuntugis/ubuntugis-unstable/ubuntu focal/main amd64 Packages [55.8 kB] Get:9 http://ppa.launchpadcontent.net/ubuntugis/ubuntugis-unstable/ubuntu focal/main Translation-en [24.7 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main amd64 Packages [970 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main Translation-en [506 kB] Get:12 http://ftpmaster.internal/ubuntu focal/universe amd64 Packages [8628 kB] Get:13 http://ftpmaster.internal/ubuntu focal/universe Translation-en [5124 kB] Get:14 http://ftpmaster.internal/ubuntu focal-security/main amd64 Packages [1583 kB] Get:15 http://ftpmaster.internal/ubuntu focal-security/main Translation-en [268 kB] Get:16 http://ftpmaster.internal/ubuntu focal-security/restricted amd64 Packages [1036 kB] Get:17 http://ftpmaster.internal/ubuntu focal-security/restricted Translation-en [147 kB] Get:18 http://ftpmaster.internal/ubuntu focal-security/universe amd64 Packages [708 kB] Get:19 http://ftpmaster.internal/ubuntu focal-security/universe Translation-en [127 kB] Get:20 http://ftpmaster.internal/ubuntu focal-security/multiverse amd64 Packages [22.2 kB] Get:21 http://ftpmaster.internal/ubuntu focal-security/multiverse Translation-en [5376 B] Get:22 http://ftpmaster.internal/ubuntu focal-updates/main amd64 Packages [1935 kB] Get:23 http://ftpmaster.internal/ubuntu focal-updates/main Translation-en [350 kB] Get:24 http://ftpmaster.internal/ubuntu focal-updates/restricted amd64 Packages [1099 kB] Get:25 http://ftpmaster.internal/ubuntu focal-updates/restricted Translation-en [156 kB] Get:26 http://ftpmaster.internal/ubuntu focal-updates/universe amd64 Packages [924 kB] Get:27 http://ftpmaster.internal/ubuntu focal-updates/universe Translation-en [208 kB] Get:28 http://ftpmaster.internal/ubuntu focal-updates/multiverse amd64 Packages [24.4 kB] Get:29 http://ftpmaster.internal/ubuntu focal-updates/multiverse Translation-en [7336 B] Fetched 24.5 MB in 8s (3054 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt base-files bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils build-essential ca-certificates cpp-9 dpkg dpkg-dev e2fsprogs fdisk g++-9 gcc-10-base gcc-9 gcc-9-base gpg gpg-agent gpgconf gpgv gzip libapparmor1 libapt-pkg6.0 libasan5 libatomic1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcc1-0 libcom-err2 libcryptsetup12 libctf-nobfd0 libctf0 libdpkg-perl libext2fs2 libfdisk1 libgcc-9-dev libgcc-s1 libgcrypt20 libgnutls30 libgomp1 libhogweed5 libitm1 libjson-c4 libkmod2 liblsan0 liblz4-1 liblzma5 libmount1 libnettle7 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre3 libperl5.30 libprocps8 libquadmath0 libseccomp2 libsepol1 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-9-dev libstdc++6 libsystemd0 libtsan0 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev login logsave mount openssl passwd perl perl-base perl-modules-5.30 procps systemd systemd-sysv systemd-timesyncd tar tzdata ubuntu-keyring util-linux xz-utils zlib1g 97 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 74.2 MB of archives. After this operation, 27.9 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libc6-dev amd64 2.31-0ubuntu9.9 [2519 kB] Get:2 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libc-dev-bin amd64 2.31-0ubuntu9.9 [71.8 kB] Get:3 http://ftpmaster.internal/ubuntu focal-security/main amd64 linux-libc-dev amd64 5.4.0-121.137 [1099 kB] Get:4 http://ftpmaster.internal/ubuntu focal-security/main amd64 libubsan1 amd64 10.3.0-1ubuntu1~20.04 [784 kB] Get:5 http://ftpmaster.internal/ubuntu focal-security/main amd64 libtsan0 amd64 10.3.0-1ubuntu1~20.04 [2009 kB] Get:6 http://ftpmaster.internal/ubuntu focal-security/main amd64 libquadmath0 amd64 10.3.0-1ubuntu1~20.04 [146 kB] Get:7 http://ftpmaster.internal/ubuntu focal-security/main amd64 liblsan0 amd64 10.3.0-1ubuntu1~20.04 [835 kB] Get:8 http://ftpmaster.internal/ubuntu focal-security/main amd64 libitm1 amd64 10.3.0-1ubuntu1~20.04 [26.2 kB] Get:9 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgomp1 amd64 10.3.0-1ubuntu1~20.04 [102 kB] Get:10 http://ftpmaster.internal/ubuntu focal-security/main amd64 gcc-10-base amd64 10.3.0-1ubuntu1~20.04 [20.2 kB] Get:11 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgcc-s1 amd64 10.3.0-1ubuntu1~20.04 [41.8 kB] Get:12 http://ftpmaster.internal/ubuntu focal-security/main amd64 libcc1-0 amd64 10.3.0-1ubuntu1~20.04 [48.8 kB] Get:13 http://ftpmaster.internal/ubuntu focal-security/main amd64 libatomic1 amd64 10.3.0-1ubuntu1~20.04 [9284 B] Get:14 http://ftpmaster.internal/ubuntu focal-security/main amd64 libstdc++6 amd64 10.3.0-1ubuntu1~20.04 [501 kB] Get:15 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libc6 amd64 2.31-0ubuntu9.9 [2722 kB] Get:16 http://ftpmaster.internal/ubuntu focal-updates/main amd64 base-files amd64 11ubuntu5.5 [60.5 kB] Get:17 http://ftpmaster.internal/ubuntu focal-security/main amd64 bash amd64 5.0-6ubuntu1.2 [639 kB] Get:18 http://ftpmaster.internal/ubuntu focal-security/main amd64 bsdutils amd64 1:2.34-0.1ubuntu9.3 [63.0 kB] Get:19 http://ftpmaster.internal/ubuntu focal-security/main amd64 tar amd64 1.30+dfsg-7ubuntu0.20.04.2 [240 kB] Get:20 http://ftpmaster.internal/ubuntu focal-security/main amd64 dpkg amd64 1.19.7ubuntu3.2 [1128 kB] Get:21 http://ftpmaster.internal/ubuntu focal-security/main amd64 gzip amd64 1.10-0ubuntu4.1 [95.2 kB] Get:22 http://ftpmaster.internal/ubuntu focal-updates/main amd64 login amd64 1:4.8.1-1ubuntu5.20.04.2 [220 kB] Get:23 http://ftpmaster.internal/ubuntu focal-security/main amd64 libperl5.30 amd64 5.30.0-9ubuntu0.2 [3952 kB] Get:24 http://ftpmaster.internal/ubuntu focal-security/main amd64 perl amd64 5.30.0-9ubuntu0.2 [224 kB] Get:25 http://ftpmaster.internal/ubuntu focal-security/main amd64 perl-base amd64 5.30.0-9ubuntu0.2 [1513 kB] Get:26 http://ftpmaster.internal/ubuntu focal-security/main amd64 perl-modules-5.30 all 5.30.0-9ubuntu0.2 [2738 kB] Get:27 http://ftpmaster.internal/ubuntu focal-security/main amd64 zlib1g amd64 1:1.2.11.dfsg-2ubuntu1.3 [53.8 kB] Get:28 http://ftpmaster.internal/ubuntu focal-security/main amd64 libblkid1 amd64 2.34-0.1ubuntu9.3 [136 kB] Get:29 http://ftpmaster.internal/ubuntu focal-security/main amd64 libuuid1 amd64 2.34-0.1ubuntu9.3 [19.9 kB] Get:30 http://ftpmaster.internal/ubuntu focal-security/main amd64 libfdisk1 amd64 2.34-0.1ubuntu9.3 [175 kB] Get:31 http://ftpmaster.internal/ubuntu focal-security/main amd64 libmount1 amd64 2.34-0.1ubuntu9.3 [149 kB] Get:32 http://ftpmaster.internal/ubuntu focal-security/main amd64 libsmartcols1 amd64 2.34-0.1ubuntu9.3 [100 kB] Get:33 http://ftpmaster.internal/ubuntu focal-security/main amd64 fdisk amd64 2.34-0.1ubuntu9.3 [120 kB] Get:34 http://ftpmaster.internal/ubuntu focal-security/main amd64 util-linux amd64 2.34-0.1ubuntu9.3 [1021 kB] Get:35 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libc-bin amd64 2.31-0ubuntu9.9 [633 kB] Get:36 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgcrypt20 amd64 1.8.5-5ubuntu1.1 [420 kB] Get:37 http://ftpmaster.internal/ubuntu focal-security/main amd64 liblz4-1 amd64 1.9.2-2ubuntu0.20.04.1 [56.1 kB] Get:38 http://ftpmaster.internal/ubuntu focal-security/main amd64 liblzma5 amd64 5.2.4-1ubuntu1.1 [91.8 kB] Get:39 http://ftpmaster.internal/ubuntu focal-updates/main amd64 systemd-timesyncd amd64 245.4-4ubuntu3.17 [28.1 kB] Get:40 http://ftpmaster.internal/ubuntu focal-updates/main amd64 systemd-sysv amd64 245.4-4ubuntu3.17 [10.3 kB] Get:41 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libapparmor1 amd64 2.13.3-7ubuntu5.1 [34.1 kB] Get:42 http://ftpmaster.internal/ubuntu focal-security/main amd64 libjson-c4 amd64 0.13.1+dfsg-7ubuntu0.3 [29.3 kB] Get:43 http://ftpmaster.internal/ubuntu focal-security/main amd64 libssl1.1 amd64 1.1.1f-1ubuntu2.15 [1321 kB] Get:44 http://ftpmaster.internal/ubuntu focal-security/main amd64 libcryptsetup12 amd64 2:2.2.2-3ubuntu2.4 [166 kB] Get:45 http://ftpmaster.internal/ubuntu focal-security/main amd64 libnettle7 amd64 3.5.1+really3.5.1-2ubuntu0.2 [115 kB] Get:46 http://ftpmaster.internal/ubuntu focal-security/main amd64 libhogweed5 amd64 3.5.1+really3.5.1-2ubuntu0.2 [138 kB] Get:47 http://ftpmaster.internal/ubuntu focal-security/main amd64 libp11-kit0 amd64 0.23.20-1ubuntu0.1 [188 kB] Get:48 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgnutls30 amd64 3.6.13-2ubuntu1.6 [828 kB] Get:49 http://ftpmaster.internal/ubuntu focal-security/main amd64 libzstd1 amd64 1.4.4+dfsg-3ubuntu0.1 [237 kB] Get:50 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libkmod2 amd64 27-1ubuntu2.1 [45.3 kB] Get:51 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libpam0g amd64 1.3.1-5ubuntu4.3 [55.4 kB] Get:52 http://ftpmaster.internal/ubuntu focal-security/main amd64 libseccomp2 amd64 2.5.1-1ubuntu1~20.04.2 [42.5 kB] Get:53 http://ftpmaster.internal/ubuntu focal-security/main amd64 mount amd64 2.34-0.1ubuntu9.3 [115 kB] Get:54 http://ftpmaster.internal/ubuntu focal-updates/main amd64 systemd amd64 245.4-4ubuntu3.17 [3809 kB] Get:55 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libsystemd0 amd64 245.4-4ubuntu3.17 [269 kB] Get:56 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libudev1 amd64 245.4-4ubuntu3.17 [76.5 kB] Get:57 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libapt-pkg6.0 amd64 2.0.9 [839 kB] Get:58 http://ftpmaster.internal/ubuntu focal-updates/main amd64 gpgv amd64 2.2.19-3ubuntu2.1 [199 kB] Get:59 http://ftpmaster.internal/ubuntu focal-updates/main amd64 ubuntu-keyring all 2020.02.11.4 [22.1 kB] Get:60 http://ftpmaster.internal/ubuntu focal-updates/main amd64 apt amd64 2.0.9 [1294 kB] Get:61 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libpam-modules-bin amd64 1.3.1-5ubuntu4.3 [41.2 kB] Get:62 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libpam-modules amd64 1.3.1-5ubuntu4.3 [260 kB] Get:63 http://ftpmaster.internal/ubuntu focal-security/main amd64 logsave amd64 1.45.5-2ubuntu1.1 [10.2 kB] Get:64 http://ftpmaster.internal/ubuntu focal-security/main amd64 libext2fs2 amd64 1.45.5-2ubuntu1.1 [183 kB] Get:65 http://ftpmaster.internal/ubuntu focal-security/main amd64 e2fsprogs amd64 1.45.5-2ubuntu1.1 [527 kB] Get:66 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libpam-runtime all 1.3.1-5ubuntu4.3 [37.3 kB] Get:67 http://ftpmaster.internal/ubuntu focal-security/main amd64 libpcre3 amd64 2:8.39-12ubuntu0.1 [232 kB] Get:68 http://ftpmaster.internal/ubuntu focal-security/main amd64 libsepol1 amd64 3.0-1ubuntu0.1 [252 kB] Get:69 http://ftpmaster.internal/ubuntu focal-updates/main amd64 passwd amd64 1:4.8.1-1ubuntu5.20.04.2 [797 kB] Get:70 http://ftpmaster.internal/ubuntu focal-security/main amd64 libcom-err2 amd64 1.45.5-2ubuntu1.1 [9548 B] Get:71 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libprocps8 amd64 2:3.3.16-1ubuntu2.3 [33.0 kB] Get:72 http://ftpmaster.internal/ubuntu focal-security/main amd64 libss2 amd64 1.45.5-2ubuntu1.1 [11.3 kB] Get:73 http://ftpmaster.internal/ubuntu focal-updates/main amd64 procps amd64 2:3.3.16-1ubuntu2.3 [233 kB] Get:74 http://ftpmaster.internal/ubuntu focal-security/main amd64 openssl amd64 1.1.1f-1ubuntu2.15 [623 kB] Get:75 http://ftpmaster.internal/ubuntu focal-security/main amd64 ca-certificates all 20211016~20.04.1 [144 kB] Get:76 http://ftpmaster.internal/ubuntu focal-security/main amd64 libsqlite3-0 amd64 3.31.1-4ubuntu0.3 [549 kB] Get:77 http://ftpmaster.internal/ubuntu focal-security/main amd64 tzdata all 2022a-0ubuntu0.20.04 [294 kB] Get:78 http://ftpmaster.internal/ubuntu focal-security/main amd64 xz-utils amd64 5.2.4-1ubuntu1.1 [82.6 kB] Get:79 http://ftpmaster.internal/ubuntu focal-security/main amd64 libctf0 amd64 2.34-6ubuntu1.3 [46.6 kB] Get:80 http://ftpmaster.internal/ubuntu focal-security/main amd64 binutils-x86-64-linux-gnu amd64 2.34-6ubuntu1.3 [1613 kB] Get:81 http://ftpmaster.internal/ubuntu focal-security/main amd64 libbinutils amd64 2.34-6ubuntu1.3 [474 kB] Get:82 http://ftpmaster.internal/ubuntu focal-security/main amd64 binutils amd64 2.34-6ubuntu1.3 [3380 B] Get:83 http://ftpmaster.internal/ubuntu focal-security/main amd64 binutils-common amd64 2.34-6ubuntu1.3 [207 kB] Get:84 http://ftpmaster.internal/ubuntu focal-security/main amd64 libctf-nobfd0 amd64 2.34-6ubuntu1.3 [47.4 kB] Get:85 http://ftpmaster.internal/ubuntu focal-security/main amd64 dpkg-dev all 1.19.7ubuntu3.2 [679 kB] Get:86 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdpkg-perl all 1.19.7ubuntu3.2 [231 kB] Get:87 http://ftpmaster.internal/ubuntu focal-updates/main amd64 build-essential amd64 12.8ubuntu1.1 [4664 B] Get:88 http://ftpmaster.internal/ubuntu focal-security/main amd64 libasan5 amd64 9.4.0-1ubuntu1~20.04.1 [2751 kB] Get:89 http://ftpmaster.internal/ubuntu focal-security/main amd64 g++-9 amd64 9.4.0-1ubuntu1~20.04.1 [8420 kB] Get:90 http://ftpmaster.internal/ubuntu focal-security/main amd64 gcc-9 amd64 9.4.0-1ubuntu1~20.04.1 [8274 kB] Get:91 http://ftpmaster.internal/ubuntu focal-security/main amd64 libstdc++-9-dev amd64 9.4.0-1ubuntu1~20.04.1 [1722 kB] Get:92 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgcc-9-dev amd64 9.4.0-1ubuntu1~20.04.1 [2359 kB] Get:93 http://ftpmaster.internal/ubuntu focal-security/main amd64 cpp-9 amd64 9.4.0-1ubuntu1~20.04.1 [7500 kB] Get:94 http://ftpmaster.internal/ubuntu focal-security/main amd64 gcc-9-base amd64 9.4.0-1ubuntu1~20.04.1 [19.4 kB] Get:95 http://ftpmaster.internal/ubuntu focal-updates/main amd64 gpg amd64 2.2.19-3ubuntu2.1 [483 kB] Get:96 http://ftpmaster.internal/ubuntu focal-updates/main amd64 gpgconf amd64 2.2.19-3ubuntu2.1 [124 kB] Get:97 http://ftpmaster.internal/ubuntu focal-updates/main amd64 gpg-agent amd64 2.2.19-3ubuntu2.1 [232 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 74.2 MB in 4s (16.6 MB/s) (Reading database ... 12816 files and directories currently installed.) Preparing to unpack .../0-libc6-dev_2.31-0ubuntu9.9_amd64.deb ... Unpacking libc6-dev:amd64 (2.31-0ubuntu9.9) over (2.31-0ubuntu9) ... Preparing to unpack .../1-libc-dev-bin_2.31-0ubuntu9.9_amd64.deb ... Unpacking libc-dev-bin (2.31-0ubuntu9.9) over (2.31-0ubuntu9) ... Preparing to unpack .../2-linux-libc-dev_5.4.0-121.137_amd64.deb ... Unpacking linux-libc-dev:amd64 (5.4.0-121.137) over (5.4.0-26.30) ... Preparing to unpack .../3-libubsan1_10.3.0-1ubuntu1~20.04_amd64.deb ... Unpacking libubsan1:amd64 (10.3.0-1ubuntu1~20.04) over (10-20200411-0ubuntu1) ... Preparing to unpack .../4-libtsan0_10.3.0-1ubuntu1~20.04_amd64.deb ... Unpacking libtsan0:amd64 (10.3.0-1ubuntu1~20.04) over (10-20200411-0ubuntu1) ... Preparing to unpack .../5-libquadmath0_10.3.0-1ubuntu1~20.04_amd64.deb ... Unpacking libquadmath0:amd64 (10.3.0-1ubuntu1~20.04) over (10-20200411-0ubuntu1) ... Preparing to unpack .../6-liblsan0_10.3.0-1ubuntu1~20.04_amd64.deb ... 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Setting up linux-libc-dev:amd64 (5.4.0-121.137) ... Setting up libctf-nobfd0:amd64 (2.34-6ubuntu1.3) ... Setting up libcom-err2:amd64 (1.45.5-2ubuntu1.1) ... Setting up libgomp1:amd64 (10.3.0-1ubuntu1~20.04) ... Setting up tzdata (2022a-0ubuntu0.20.04) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Jun 23 11:13:46 UTC 2022. Universal Time is now: Thu Jun 23 11:13:46 UTC 2022. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up xz-utils (5.2.4-1ubuntu1.1) ... Setting up libquadmath0:amd64 (10.3.0-1ubuntu1~20.04) ... Setting up libatomic1:amd64 (10.3.0-1ubuntu1~20.04) ... Setting up libss2:amd64 (1.45.5-2ubuntu1.1) ... Setting up logsave (1.45.5-2ubuntu1.1) ... Setting up libfdisk1:amd64 (2.34-0.1ubuntu9.3) ... Setting up libubsan1:amd64 (10.3.0-1ubuntu1~20.04) ... Setting up mount (2.34-0.1ubuntu9.3) ... Setting up gpgconf (2.2.19-3ubuntu2.1) ... Setting up libperl5.30:amd64 (5.30.0-9ubuntu0.2) ... Setting up libjson-c4:amd64 (0.13.1+dfsg-7ubuntu0.3) ... 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Setting up libasan5:amd64 (9.4.0-1ubuntu1~20.04.1) ... Setting up perl (5.30.0-9ubuntu0.2) ... Setting up libdpkg-perl (1.19.7ubuntu3.2) ... Setting up procps (2:3.3.16-1ubuntu2.3) ... Setting up cpp-9 (9.4.0-1ubuntu1~20.04.1) ... Setting up libc6-dev:amd64 (2.31-0ubuntu9.9) ... Setting up libcryptsetup12:amd64 (2:2.2.2-3ubuntu2.4) ... Setting up binutils-x86-64-linux-gnu (2.34-6ubuntu1.3) ... Setting up binutils (2.34-6ubuntu1.3) ... Setting up dpkg-dev (1.19.7ubuntu3.2) ... Setting up libgcc-9-dev:amd64 (9.4.0-1ubuntu1~20.04.1) ... Setting up build-essential (12.8ubuntu1.1) ... Setting up gcc-9 (9.4.0-1ubuntu1~20.04.1) ... Setting up libstdc++-9-dev:amd64 (9.4.0-1ubuntu1~20.04.1) ... Setting up g++-9 (9.4.0-1ubuntu1~20.04.1) ... Setting up systemd-timesyncd (245.4-4ubuntu3.17) ... Setting up systemd (245.4-4ubuntu3.17) ... Installing new version of config file /etc/dhcp/dhclient-enter-hooks.d/resolved ... Installing new version of config file /etc/systemd/resolved.conf ... Initializing machine ID from KVM UUID. Setting up systemd-sysv (245.4-4ubuntu3.17) ... Processing triggers for libc-bin (2.31-0ubuntu9.9) ... Processing triggers for ca-certificates (20211016~20.04.1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-24106401 amd64 focal -c chroot:build-PACKAGEBUILD-24106401 --arch=amd64 --dist=focal --nolog -A r-base_4.2.1-0.2004.0.dsc Initiating build PACKAGEBUILD-24106401 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-120-generic #136-Ubuntu SMP Fri Jun 10 13:40:48 UTC 2022 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on lgw01-amd64-020.buildd +==============================================================================+ | r-base 4.2.1-0.2004.0 (amd64) Thu, 23 Jun 2022 11:14:02 +0000 | +==============================================================================+ Package: r-base Version: 4.2.1-0.2004.0 Source Version: 4.2.1-0.2004.0 Distribution: focal Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-24106401/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/r-base-a4Jq9Z/resolver-7dTHra' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- r-base_4.2.1-0.2004.0.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/r-base-a4Jq9Z/r-base-4.2.1' with '<>' I: NOTICE: Log filtering will replace 'build/r-base-a4Jq9Z' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: gcc (>= 4:4.9.2-2), g++ (>= 4:4.9.2-2), gfortran (>= 4:4.9.2-2), libblas-dev, liblapack-dev, tcl8.6-dev, tk8.6-dev, bison, groff-base, libncurses5-dev, libreadline-dev, debhelper-compat (= 11), texinfo (>= 4.1-2), libbz2-dev, liblzma-dev, libpcre2-dev, libpcre3-dev, libcurl4-openssl-dev | libcurl4-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff5-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-plain-generic, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, default-jdk | openjdk-10-jdk, mpack, bash-completion, build-essential, fakeroot Filtered Build-Depends: gcc (>= 4:4.9.2-2), g++ (>= 4:4.9.2-2), gfortran (>= 4:4.9.2-2), libblas-dev, liblapack-dev, tcl8.6-dev, tk8.6-dev, bison, groff-base, libncurses5-dev, libreadline-dev, debhelper-compat (= 11), texinfo (>= 4.1-2), libbz2-dev, liblzma-dev, libpcre2-dev, libpcre3-dev, libcurl4-openssl-dev | libcurl4-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff5-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-plain-generic, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, default-jdk | openjdk-10-jdk, mpack, bash-completion, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [678 B] Get:5 copy:/<>/apt_archive ./ Packages [731 B] Fetched 2372 B in 0s (48.7 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bash-completion bison bsdmainutils ca-certificates-java debhelper default-jdk default-jdk-headless default-jre default-jre-headless dh-autoreconf dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-lmodern gettext gettext-base gfortran gfortran-9 gir1.2-freedesktop gir1.2-glib-2.0 gir1.2-harfbuzz-0.0 gir1.2-pango-1.0 groff-base icu-devtools intltool-debian java-common libapache-pom-java libarchive-zip-perl libasn1-8-heimdal libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libblas-dev libblas3 libblkid-dev libbrotli1 libbsd0 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libcommons-logging-java libcommons-parent-java libcroco3 libcups2 libcurl4 libcurl4-openssl-dev libdatrie-dev libdatrie1 libdbus-1-3 libdebhelper-perl libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libexpat1 libexpat1-dev libffi-dev libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype-dev libfreetype6 libfreetype6-dev libfribidi-dev libfribidi0 libgfortran-9-dev libgfortran5 libgif7 libgirepository-1.0-1 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libglvnd0 libglx-mesa0 libglx0 libgraphite2-3 libgraphite2-dev libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice-dev libice6 libicu-dev libicu66 libjbig-dev libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libllvm12 liblzma-dev liblzo2-2 libmagic-mgc libmagic1 libmime-charset-perl libmount-dev libmpdec2 libncurses-dev libncurses5-dev libnghttp2-14 libnspr4 libnss3 libpango-1.0-0 libpango1.0-dev libpangocairo-1.0-0 libpangoft2-1.0-0 libpangoxft-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix2 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpcsclite1 libpdfbox-java libpipeline1 libpixman-1-0 libpixman-1-dev libpng-dev libpsl5 libptexenc1 libpthread-stubs0-dev libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libreadline-dev libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libselinux1-dev libsensors-config libsensors5 libsepol1-dev libsigsegv2 libsm-dev libsm6 libsombok3 libssh-4 libsub-override-perl libsynctex2 libtcl8.6 libteckit0 libtexlua53 libtexluajit2 libtext-unidecode-perl libthai-data libthai-dev libthai0 libtiff-dev libtiff5 libtiff5-dev libtiffxx5 libtk8.6 libtool libuchardet0 libunicode-linebreak-perl libunwind8 libvulkan1 libwebp6 libwind0-heimdal libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb-sync1 libxcb-xfixes0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont2 libxft-dev libxft2 libxi6 libxkbfile1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 libxmu6 libxmuu1 libxpm4 libxrender-dev libxrender1 libxshmfence1 libxss-dev libxss1 libxt-dev libxt6 libxtst6 libxxf86vm1 libzzip-0-13 m4 man-db mime-support mpack openjdk-11-jdk openjdk-11-jdk-headless openjdk-11-jre openjdk-11-jre-headless pango1.0-tools pkg-config po-debconf preview-latex-style python3 python3-distutils python3-lib2to3 python3-minimal python3.8 python3.8-minimal t1utils tcl8.6 tcl8.6-dev tex-common texinfo texlive-base texlive-binaries texlive-extra-utils texlive-fonts-extra texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures texlive-plain-generic tk8.6 tk8.6-dev ucf uuid-dev x11-common x11-xkb-utils x11proto-core-dev x11proto-dev x11proto-scrnsaver-dev x11proto-xext-dev xauth xdg-utils xfonts-base xfonts-encodings xfonts-utils xkb-data xorg-sgml-doctools xserver-common xtrans-dev xvfb zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc bison-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-multilib gfortran-doc gfortran-9-multilib gfortran-9-doc libcoarrays-dev groff libasound2-plugins alsa-utils liblapack-doc libcairo2-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java liblog4j1.2-java cups-common libcurl4-doc libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev libssl-dev libdatrie-doc freetype2-doc libgirepository1.0-dev libglib2.0-doc libgdk-pixbuf2.0-bin | libgdk-pixbuf2.0-dev libxml2-utils libgraphite2-utils krb5-doc krb5-user libice-doc icu-doc liblcms2-utils liblzma-doc libencode-hanextra-perl libpod2-base-perl ncurses-doc imagemagick libpango1.0-doc pciutils pcscd readline-doc lm-sensors libsm-doc libthai-doc libtool-doc gcj-jdk libx11-doc libxcb-doc libxext-doc libxt-doc m4-doc apparmor less www-browser mail-transport-agent inews openjdk-11-demo openjdk-11-source visualvm libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic libmail-box-perl python3-doc python3-tk python3-venv python3.8-venv python3.8-doc binfmt-support tcl-tclreadline tcl8.6-doc ghostscript gv | postscript-viewer perl-tk xpdf | pdf-viewer xzdec chktex dvidvi dvipng fragmaster lacheck latexdiff latexmk purifyeps xindy cm-super texlive-fonts-extra-doc texlive-fonts-recommended-doc texlive-latex-base-doc python3-pygments icc-profiles libfile-which-perl libspreadsheet-parseexcel-perl texlive-latex-extra-doc texlive-latex-recommended-doc texlive-luatex texlive-pstricks dot2tex prerex ruby-tcltk | libtcltk-ruby texlive-pictures-doc vprerex tk8.6-doc Recommended packages: curl | wget | lynx alsa-ucm-conf alsa-topology-conf bzip2-doc dbus libarchive-cpio-perl shared-mime-info xdg-user-dirs krb5-locales libpng-tools publicsuffix libsasl2-modules libltdl-dev mesa-vulkan-drivers | vulkan-icd libwww-perl libxml-sax-expat-perl libatk-wrapper-java-jni fonts-dejavu-extra libmail-sendmail-perl lmodern dvisvgm ghostscript libfile-homedir-perl liblog-log4perl-perl libyaml-tiny-perl ruby | ruby-interpreter fonts-adf-accanthis fonts-adf-berenis fonts-adf-gillius fonts-adf-universalis fonts-cabin fonts-cantarell fonts-comfortaa fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-ebgaramond fonts-ebgaramond-extra fonts-font-awesome fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-go fonts-junicode fonts-lato fonts-linuxlibertine fonts-lobstertwo fonts-noto-core fonts-noto-mono fonts-oflb-asana-math fonts-open-sans fonts-roboto-unhinted fonts-sil-gentium fonts-sil-gentium-basic fonts-sil-gentiumplus fonts-sil-gentiumplus-compact fonts-stix texlive-fonts-extra-links tex-gyre tipa tk xterm | x-terminal-emulator libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev bash-completion bison bsdmainutils ca-certificates-java debhelper default-jdk default-jdk-headless default-jre default-jre-headless dh-autoreconf dh-strip-nondeterminism dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-lmodern gettext gettext-base gfortran gfortran-9 gir1.2-freedesktop gir1.2-glib-2.0 gir1.2-harfbuzz-0.0 gir1.2-pango-1.0 groff-base icu-devtools intltool-debian java-common libapache-pom-java libarchive-zip-perl libasn1-8-heimdal libasound2 libasound2-data libavahi-client3 libavahi-common-data libavahi-common3 libblas-dev libblas3 libblkid-dev libbrotli1 libbsd0 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libcommons-logging-java libcommons-parent-java libcroco3 libcups2 libcurl4 libcurl4-openssl-dev libdatrie-dev libdatrie1 libdbus-1-3 libdebhelper-perl libdrm-amdgpu1 libdrm-common libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libelf1 libexpat1 libexpat1-dev libffi-dev libfile-stripnondeterminism-perl libfontbox-java libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype-dev libfreetype6 libfreetype6-dev libfribidi-dev libfribidi0 libgfortran-9-dev libgfortran5 libgif7 libgirepository-1.0-1 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libglib2.0-dev-bin libglvnd0 libglx-mesa0 libglx0 libgraphite2-3 libgraphite2-dev libgssapi-krb5-2 libgssapi3-heimdal libharfbuzz-dev libharfbuzz-gobject0 libharfbuzz-icu0 libharfbuzz0b libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice-dev libice6 libicu-dev libicu66 libjbig-dev libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libllvm12 liblzma-dev liblzo2-2 libmagic-mgc libmagic1 libmime-charset-perl libmount-dev libmpdec2 libncurses-dev libncurses5-dev libnghttp2-14 libnspr4 libnss3 libpango-1.0-0 libpango1.0-dev libpangocairo-1.0-0 libpangoft2-1.0-0 libpangoxft-1.0-0 libpaper-utils libpaper1 libpciaccess0 libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix2 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpcsclite1 libpdfbox-java libpipeline1 libpixman-1-0 libpixman-1-dev libpng-dev libpsl5 libptexenc1 libpthread-stubs0-dev libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libreadline-dev libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libselinux1-dev libsensors-config libsensors5 libsepol1-dev libsigsegv2 libsm-dev libsm6 libsombok3 libssh-4 libsub-override-perl libsynctex2 libtcl8.6 libteckit0 libtexlua53 libtexluajit2 libtext-unidecode-perl libthai-data libthai-dev libthai0 libtiff-dev libtiff5 libtiff5-dev libtiffxx5 libtk8.6 libtool libuchardet0 libunicode-linebreak-perl libunwind8 libvulkan1 libwebp6 libwind0-heimdal libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb-sync1 libxcb-xfixes0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont2 libxft-dev libxft2 libxi6 libxkbfile1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 libxmu6 libxmuu1 libxpm4 libxrender-dev libxrender1 libxshmfence1 libxss-dev libxss1 libxt-dev libxt6 libxtst6 libxxf86vm1 libzzip-0-13 m4 man-db mime-support mpack openjdk-11-jdk openjdk-11-jdk-headless openjdk-11-jre openjdk-11-jre-headless pango1.0-tools pkg-config po-debconf preview-latex-style python3 python3-distutils python3-lib2to3 python3-minimal python3.8 python3.8-minimal sbuild-build-depends-main-dummy t1utils tcl8.6 tcl8.6-dev tex-common texinfo texlive-base texlive-binaries texlive-extra-utils texlive-fonts-extra texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures texlive-plain-generic tk8.6 tk8.6-dev ucf uuid-dev x11-common x11-xkb-utils x11proto-core-dev x11proto-dev x11proto-scrnsaver-dev x11proto-xext-dev xauth xdg-utils xfonts-base xfonts-encodings xfonts-utils xkb-data xorg-sgml-doctools xserver-common xtrans-dev xvfb zlib1g-dev 0 upgraded, 310 newly installed, 0 to remove and 0 not upgraded. Need to get 985 MB of archives. After this operation, 2952 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [1156 B] Get:2 http://ftpmaster.internal/ubuntu focal-security/main amd64 libpython3.8-minimal amd64 3.8.10-0ubuntu1~20.04.4 [717 kB] Get:3 http://ftpmaster.internal/ubuntu focal-security/main amd64 libexpat1 amd64 2.2.9-1ubuntu0.4 [74.4 kB] Get:4 http://ftpmaster.internal/ubuntu focal-security/main amd64 python3.8-minimal amd64 3.8.10-0ubuntu1~20.04.4 [1899 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main amd64 python3-minimal amd64 3.8.2-0ubuntu2 [23.6 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main amd64 mime-support all 3.64ubuntu1 [30.6 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main amd64 libmpdec2 amd64 2.4.2-3 [81.1 kB] Get:8 http://ftpmaster.internal/ubuntu focal-security/main amd64 libpython3.8-stdlib amd64 3.8.10-0ubuntu1~20.04.4 [1675 kB] Get:9 http://ftpmaster.internal/ubuntu focal-security/main amd64 python3.8 amd64 3.8.10-0ubuntu1~20.04.4 [387 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main amd64 libpython3-stdlib amd64 3.8.2-0ubuntu2 [7068 B] Get:11 http://ftpmaster.internal/ubuntu focal/main amd64 python3 amd64 3.8.2-0ubuntu2 [47.6 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main amd64 libbsd0 amd64 0.10.0-1 [45.4 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main amd64 bsdmainutils amd64 11.1.2ubuntu3 [181 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main amd64 libuchardet0 amd64 0.0.6-3build1 [65.2 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main amd64 groff-base amd64 1.22.4-4build1 [847 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main amd64 libpipeline1 amd64 1.5.2-2build1 [27.7 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main amd64 man-db amd64 2.9.1-1 [1112 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main amd64 ucf all 3.0038+nmu1 [51.6 kB] Get:19 http://ftpmaster.internal/ubuntu focal/universe amd64 tex-common all 6.13 [32.7 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main amd64 libmagic-mgc amd64 1:5.38-4 [218 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main amd64 libmagic1 amd64 1:5.38-4 [75.9 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main amd64 file amd64 1:5.38-4 [23.3 kB] Get:23 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libglib2.0-0 amd64 2.64.6-1~ubuntu20.04.4 [1287 kB] Get:24 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libgirepository-1.0-1 amd64 1.64.1-1~ubuntu20.04.1 [85.7 kB] Get:25 http://ftpmaster.internal/ubuntu focal-updates/main amd64 gir1.2-glib-2.0 amd64 1.64.1-1~ubuntu20.04.1 [134 kB] Get:26 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdbus-1-3 amd64 1.12.16-2ubuntu2.2 [179 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main amd64 libelf1 amd64 0.176-1.1build1 [44.0 kB] Get:28 http://ftpmaster.internal/ubuntu focal-security/main amd64 libfribidi0 amd64 1.0.8-2ubuntu0.1 [24.2 kB] Get:29 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libglib2.0-data all 2.64.6-1~ubuntu20.04.4 [6052 B] Get:30 http://ftpmaster.internal/ubuntu focal-security/main amd64 libicu66 amd64 66.1-2ubuntu2.1 [8515 kB] Get:31 http://ftpmaster.internal/ubuntu focal-security/main amd64 libxml2 amd64 2.9.10+dfsg-5ubuntu0.20.04.3 [640 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main amd64 xkb-data all 2.29-2 [349 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main amd64 bash-completion all 1:2.10-1ubuntu1 [178 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main amd64 gettext-base amd64 0.19.8.1-10build1 [50.2 kB] Get:35 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdrm-common all 2.4.107-8ubuntu1~20.04.2 [5396 B] Get:36 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdrm2 amd64 2.4.107-8ubuntu1~20.04.2 [34.1 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main amd64 libedit2 amd64 3.1-20191231-1 [87.0 kB] Get:38 http://ftpmaster.internal/ubuntu focal-security/main amd64 libkrb5support0 amd64 1.17-6ubuntu4.1 [30.9 kB] Get:39 http://ftpmaster.internal/ubuntu focal-security/main amd64 libk5crypto3 amd64 1.17-6ubuntu4.1 [79.9 kB] Get:40 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libkeyutils1 amd64 1.6-6ubuntu1.1 [10.3 kB] Get:41 http://ftpmaster.internal/ubuntu focal-security/main amd64 libkrb5-3 amd64 1.17-6ubuntu4.1 [330 kB] Get:42 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgssapi-krb5-2 amd64 1.17-6ubuntu4.1 [121 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main amd64 libpsl5 amd64 0.21.0-1ubuntu1 [51.5 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main amd64 libxau6 amd64 1:1.0.9-0ubuntu1 [7488 B] Get:45 http://ftpmaster.internal/ubuntu focal/main amd64 libxdmcp6 amd64 1:1.1.3-0ubuntu1 [10.6 kB] Get:46 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb1 amd64 1.14-2 [44.7 kB] Get:47 http://ftpmaster.internal/ubuntu focal-security/main amd64 libx11-data all 2:1.6.9-2ubuntu1.2 [113 kB] Get:48 http://ftpmaster.internal/ubuntu focal-security/main amd64 libx11-6 amd64 2:1.6.9-2ubuntu1.2 [575 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main amd64 libxext6 amd64 2:1.3.4-0ubuntu1 [29.1 kB] Get:50 http://ftpmaster.internal/ubuntu focal/main amd64 libxmuu1 amd64 2:1.1.3-0ubuntu1 [9728 B] Get:51 http://ftpmaster.internal/ubuntu focal/main amd64 xauth amd64 1:1.1-0ubuntu1 [25.0 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main amd64 m4 amd64 1.4.18-4 [199 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main amd64 autoconf all 2.69-11.1 [321 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main amd64 automake all 1:1.16.1-4ubuntu6 [522 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main amd64 autopoint all 0.19.8.1-10build1 [412 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main amd64 bison amd64 2:3.5.1+dfsg-1 [657 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main amd64 java-common all 0.72 [6816 B] Get:60 http://ftpmaster.internal/ubuntu focal-security/main amd64 libavahi-common-data amd64 0.7-4ubuntu7.1 [21.4 kB] Get:61 http://ftpmaster.internal/ubuntu focal-security/main amd64 libavahi-common3 amd64 0.7-4ubuntu7.1 [21.7 kB] Get:62 http://ftpmaster.internal/ubuntu focal-security/main amd64 libavahi-client3 amd64 0.7-4ubuntu7.1 [25.5 kB] Get:63 http://ftpmaster.internal/ubuntu focal-security/main amd64 libcups2 amd64 2.3.1-9ubuntu1.2 [233 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main amd64 liblcms2-2 amd64 2.9-4 [140 kB] Get:65 http://ftpmaster.internal/ubuntu focal-security/main amd64 libjpeg-turbo8 amd64 2.0.3-0ubuntu1.20.04.1 [117 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:67 http://ftpmaster.internal/ubuntu focal-security/main amd64 libfreetype6 amd64 2.10.1-2ubuntu0.1 [341 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main amd64 fonts-dejavu-core all 2.37-1 [1041 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main amd64 fontconfig-config all 2.13.1-2ubuntu3 [28.8 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main amd64 libfontconfig1 amd64 2.13.1-2ubuntu3 [114 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main amd64 libnspr4 amd64 2:4.25-1 [107 kB] Get:72 http://ftpmaster.internal/ubuntu focal-security/main amd64 libnss3 amd64 2:3.49.1-1ubuntu1.7 [1256 kB] Get:73 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libasound2-data all 1.2.2-2.1ubuntu2.5 [20.1 kB] Get:74 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libasound2 amd64 1.2.2-2.1ubuntu2.5 [335 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main amd64 libgraphite2-3 amd64 1.3.13-11build1 [73.5 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main amd64 libharfbuzz0b amd64 2.6.4-1ubuntu4 [391 kB] Get:77 http://ftpmaster.internal/ubuntu focal/main amd64 libpcsclite1 amd64 1.8.26-3 [22.0 kB] Get:78 http://ftpmaster.internal/ubuntu focal-security/main amd64 openjdk-11-jre-headless amd64 11.0.15+10-0ubuntu0.20.04.1 [37.3 MB] Get:79 http://ftpmaster.internal/ubuntu focal/main amd64 default-jre-headless amd64 2:1.11-72 [3192 B] Get:80 http://ftpmaster.internal/ubuntu focal/main amd64 ca-certificates-java all 20190405ubuntu1 [12.2 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main amd64 libtool all 2.4.6-14 [161 kB] Get:82 http://ftpmaster.internal/ubuntu focal/main amd64 dh-autoreconf all 19 [16.1 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main amd64 libdebhelper-perl all 12.10ubuntu1 [62.1 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main amd64 libarchive-zip-perl all 1.67-2 [90.5 kB] Get:85 http://ftpmaster.internal/ubuntu focal/main amd64 libsub-override-perl all 0.09-2 [9532 B] Get:86 http://ftpmaster.internal/ubuntu focal/main amd64 libfile-stripnondeterminism-perl all 1.7.0-1 [15.9 kB] Get:87 http://ftpmaster.internal/ubuntu focal/main amd64 dh-strip-nondeterminism all 1.7.0-1 [5228 B] Get:88 http://ftpmaster.internal/ubuntu focal/main amd64 dwz amd64 0.13-5 [151 kB] Get:89 http://ftpmaster.internal/ubuntu focal/main amd64 libcroco3 amd64 0.6.13-1 [82.5 kB] Get:90 http://ftpmaster.internal/ubuntu focal/main amd64 gettext amd64 0.19.8.1-10build1 [895 kB] Get:91 http://ftpmaster.internal/ubuntu focal/main amd64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:92 http://ftpmaster.internal/ubuntu focal/main amd64 po-debconf all 1.0.21 [233 kB] Get:93 http://ftpmaster.internal/ubuntu focal/main amd64 debhelper all 12.10ubuntu1 [877 kB] Get:94 http://ftpmaster.internal/ubuntu focal-security/main amd64 libglvnd0 amd64 1.3.2-1~ubuntu0.20.04.2 [48.1 kB] Get:95 http://ftpmaster.internal/ubuntu focal-security/main amd64 libglapi-mesa amd64 21.2.6-0ubuntu0.1~20.04.2 [27.4 kB] Get:96 http://ftpmaster.internal/ubuntu focal-security/main amd64 libx11-xcb1 amd64 2:1.6.9-2ubuntu1.2 [9372 B] Get:97 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-dri2-0 amd64 1.14-2 [6920 B] Get:98 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-dri3-0 amd64 1.14-2 [6552 B] Get:99 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-glx0 amd64 1.14-2 [22.1 kB] Get:100 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-present0 amd64 1.14-2 [5560 B] Get:101 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-shm0 amd64 1.14-2 [5584 B] Get:102 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-sync1 amd64 1.14-2 [8884 B] Get:103 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-xfixes0 amd64 1.14-2 [9296 B] Get:104 http://ftpmaster.internal/ubuntu focal/main amd64 libxfixes3 amd64 1:5.0.3-2 [10.9 kB] Get:105 http://ftpmaster.internal/ubuntu focal/main amd64 libxshmfence1 amd64 1.3-1 [5028 B] Get:106 http://ftpmaster.internal/ubuntu focal/main amd64 libxxf86vm1 amd64 1:1.1.4-1build1 [10.2 kB] Get:107 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdrm-amdgpu1 amd64 2.4.107-8ubuntu1~20.04.2 [18.6 kB] Get:108 http://ftpmaster.internal/ubuntu focal/main amd64 libpciaccess0 amd64 0.16-0ubuntu1 [17.9 kB] Get:109 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdrm-intel1 amd64 2.4.107-8ubuntu1~20.04.2 [60.3 kB] Get:110 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdrm-nouveau2 amd64 2.4.107-8ubuntu1~20.04.2 [16.6 kB] Get:111 http://ftpmaster.internal/ubuntu focal-security/main amd64 libdrm-radeon1 amd64 2.4.107-8ubuntu1~20.04.2 [19.7 kB] Get:112 http://ftpmaster.internal/ubuntu focal-security/main amd64 libllvm12 amd64 1:12.0.0-3ubuntu1~20.04.5 [18.8 MB] Get:113 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libsensors-config all 1:3.6.0-2ubuntu1.1 [6052 B] Get:114 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libsensors5 amd64 1:3.6.0-2ubuntu1.1 [27.2 kB] Get:115 http://ftpmaster.internal/ubuntu focal/main amd64 libvulkan1 amd64 1.2.131.2-1 [93.3 kB] Get:116 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgl1-mesa-dri amd64 21.2.6-0ubuntu0.1~20.04.2 [11.0 MB] Get:117 http://ftpmaster.internal/ubuntu focal-security/main amd64 libglx-mesa0 amd64 21.2.6-0ubuntu0.1~20.04.2 [137 kB] Get:118 http://ftpmaster.internal/ubuntu focal-security/main amd64 libglx0 amd64 1.3.2-1~ubuntu0.20.04.2 [32.5 kB] Get:119 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgl1 amd64 1.3.2-1~ubuntu0.20.04.2 [85.8 kB] Get:120 http://ftpmaster.internal/ubuntu focal/main amd64 libgif7 amd64 5.1.9-1 [32.2 kB] Get:121 http://ftpmaster.internal/ubuntu focal/main amd64 libxi6 amd64 2:1.7.10-0ubuntu1 [29.9 kB] Get:122 http://ftpmaster.internal/ubuntu focal/main amd64 libxrender1 amd64 1:0.9.10-1 [18.7 kB] Get:123 http://ftpmaster.internal/ubuntu focal/main amd64 x11-common all 1:7.7+19ubuntu14 [22.3 kB] Get:124 http://ftpmaster.internal/ubuntu focal/main amd64 libxtst6 amd64 2:1.2.3-1 [12.8 kB] Get:125 http://ftpmaster.internal/ubuntu focal-security/main amd64 openjdk-11-jre amd64 11.0.15+10-0ubuntu0.20.04.1 [175 kB] Get:126 http://ftpmaster.internal/ubuntu focal/main amd64 default-jre amd64 2:1.11-72 [1084 B] Get:127 http://ftpmaster.internal/ubuntu focal-security/main amd64 openjdk-11-jdk-headless amd64 11.0.15+10-0ubuntu0.20.04.1 [223 MB] Get:128 http://ftpmaster.internal/ubuntu focal/main amd64 default-jdk-headless amd64 2:1.11-72 [1140 B] Get:129 http://ftpmaster.internal/ubuntu focal-security/main amd64 openjdk-11-jdk amd64 11.0.15+10-0ubuntu0.20.04.1 [2573 kB] Get:130 http://ftpmaster.internal/ubuntu focal/main amd64 default-jdk amd64 2:1.11-72 [1096 B] Get:131 http://ftpmaster.internal/ubuntu focal/main amd64 fontconfig amd64 2.13.1-2ubuntu3 [171 kB] Get:132 http://ftpmaster.internal/ubuntu focal/universe amd64 fonts-lmodern all 2.004.5-6 [4532 kB] Get:133 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgfortran5 amd64 10.3.0-1ubuntu1~20.04 [736 kB] Get:134 http://ftpmaster.internal/ubuntu focal-security/main amd64 libgfortran-9-dev amd64 9.4.0-1ubuntu1~20.04.1 [685 kB] Get:135 http://ftpmaster.internal/ubuntu focal-security/main amd64 gfortran-9 amd64 9.4.0-1ubuntu1~20.04.1 [7936 kB] Get:136 http://ftpmaster.internal/ubuntu focal/main amd64 gfortran amd64 4:9.3.0-1ubuntu2 [1372 B] Get:137 http://ftpmaster.internal/ubuntu focal-updates/main amd64 gir1.2-freedesktop amd64 1.64.1-1~ubuntu20.04.1 [19.2 kB] Get:138 http://ftpmaster.internal/ubuntu focal/main amd64 gir1.2-harfbuzz-0.0 amd64 2.6.4-1ubuntu4 [26.3 kB] Get:139 http://ftpmaster.internal/ubuntu focal/main amd64 libthai-data all 0.1.28-3 [134 kB] Get:140 http://ftpmaster.internal/ubuntu focal/main amd64 libdatrie1 amd64 0.2.12-3 [18.7 kB] Get:141 http://ftpmaster.internal/ubuntu focal/main amd64 libthai0 amd64 0.1.28-3 [18.1 kB] Get:142 http://ftpmaster.internal/ubuntu focal/main amd64 libpango-1.0-0 amd64 1.44.7-2ubuntu4 [162 kB] Get:143 http://ftpmaster.internal/ubuntu focal/main amd64 libpixman-1-0 amd64 0.38.4-0ubuntu1 [227 kB] Get:144 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-render0 amd64 1.14-2 [14.8 kB] Get:145 http://ftpmaster.internal/ubuntu focal/main amd64 libcairo2 amd64 1.16.0-4ubuntu1 [583 kB] Get:146 http://ftpmaster.internal/ubuntu focal/main amd64 libpangoft2-1.0-0 amd64 1.44.7-2ubuntu4 [34.9 kB] Get:147 http://ftpmaster.internal/ubuntu focal/main amd64 libpangocairo-1.0-0 amd64 1.44.7-2ubuntu4 [24.8 kB] Get:148 http://ftpmaster.internal/ubuntu focal/main amd64 libxft2 amd64 2.3.3-0ubuntu1 [39.2 kB] Get:149 http://ftpmaster.internal/ubuntu focal/main amd64 libpangoxft-1.0-0 amd64 1.44.7-2ubuntu4 [18.0 kB] Get:150 http://ftpmaster.internal/ubuntu focal/main amd64 gir1.2-pango-1.0 amd64 1.44.7-2ubuntu4 [26.6 kB] Get:151 http://ftpmaster.internal/ubuntu focal-security/main amd64 icu-devtools amd64 66.1-2ubuntu2.1 [189 kB] Get:152 http://ftpmaster.internal/ubuntu focal/universe amd64 libapache-pom-java all 18-1 [4720 B] Get:153 http://ftpmaster.internal/ubuntu focal/main amd64 libroken18-heimdal amd64 7.7.0+dfsg-1ubuntu1 [41.8 kB] Get:154 http://ftpmaster.internal/ubuntu focal/main amd64 libasn1-8-heimdal amd64 7.7.0+dfsg-1ubuntu1 [181 kB] Get:155 http://ftpmaster.internal/ubuntu focal/main amd64 libblas3 amd64 3.9.0-1build1 [142 kB] Get:156 http://ftpmaster.internal/ubuntu focal/main amd64 libblas-dev amd64 3.9.0-1build1 [147 kB] Get:157 http://ftpmaster.internal/ubuntu focal-security/main amd64 libbrotli1 amd64 1.0.7-6ubuntu0.1 [267 kB] Get:158 http://ftpmaster.internal/ubuntu focal/main amd64 libbz2-dev amd64 1.0.8-2 [30.2 kB] Get:159 http://ftpmaster.internal/ubuntu focal/main amd64 libcairo-gobject2 amd64 1.16.0-4ubuntu1 [17.2 kB] Get:160 http://ftpmaster.internal/ubuntu focal/main amd64 liblzo2-2 amd64 2.10-2 [50.8 kB] Get:161 http://ftpmaster.internal/ubuntu focal/main amd64 libcairo-script-interpreter2 amd64 1.16.0-4ubuntu1 [54.2 kB] Get:162 http://ftpmaster.internal/ubuntu focal-security/main amd64 libexpat1-dev amd64 2.2.9-1ubuntu0.4 [117 kB] Get:163 http://ftpmaster.internal/ubuntu focal-security/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2ubuntu1.3 [155 kB] Get:164 http://ftpmaster.internal/ubuntu focal/main amd64 libpng-dev amd64 1.6.37-2 [175 kB] Get:165 http://ftpmaster.internal/ubuntu focal-security/main amd64 libfreetype-dev amd64 2.10.1-2ubuntu0.1 [493 kB] Get:166 http://ftpmaster.internal/ubuntu focal-security/main amd64 libfreetype6-dev amd64 2.10.1-2ubuntu0.1 [9812 B] Get:167 http://ftpmaster.internal/ubuntu focal-security/main amd64 uuid-dev amd64 2.34-0.1ubuntu9.3 [33.6 kB] Get:168 http://ftpmaster.internal/ubuntu focal/main amd64 pkg-config amd64 0.29.1-0ubuntu4 [45.5 kB] Get:169 http://ftpmaster.internal/ubuntu focal/main amd64 libfontconfig1-dev amd64 2.13.1-2ubuntu3 [731 kB] Get:170 http://ftpmaster.internal/ubuntu focal/main amd64 xorg-sgml-doctools all 1:1.11-1 [12.9 kB] Get:171 http://ftpmaster.internal/ubuntu focal/main amd64 x11proto-dev all 2019.2-1ubuntu1 [594 kB] Get:172 http://ftpmaster.internal/ubuntu focal/main amd64 x11proto-core-dev all 2019.2-1ubuntu1 [2620 B] Get:173 http://ftpmaster.internal/ubuntu focal/main amd64 libxau-dev amd64 1:1.0.9-0ubuntu1 [9552 B] Get:174 http://ftpmaster.internal/ubuntu focal/main amd64 libxdmcp-dev amd64 1:1.1.3-0ubuntu1 [25.3 kB] Get:175 http://ftpmaster.internal/ubuntu focal/main amd64 xtrans-dev all 1.4.0-1 [68.9 kB] Get:176 http://ftpmaster.internal/ubuntu focal/main amd64 libpthread-stubs0-dev amd64 0.4-1 [5384 B] Get:177 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb1-dev amd64 1.14-2 [80.5 kB] Get:178 http://ftpmaster.internal/ubuntu focal-security/main amd64 libx11-dev amd64 2:1.6.9-2ubuntu1.2 [647 kB] Get:179 http://ftpmaster.internal/ubuntu focal/main amd64 libxrender-dev amd64 1:0.9.10-1 [24.9 kB] Get:180 http://ftpmaster.internal/ubuntu focal/main amd64 x11proto-xext-dev all 2019.2-1ubuntu1 [2616 B] Get:181 http://ftpmaster.internal/ubuntu focal/main amd64 libxext-dev amd64 2:1.3.4-0ubuntu1 [82.2 kB] Get:182 http://ftpmaster.internal/ubuntu focal/main amd64 libice6 amd64 2:1.0.10-0ubuntu1 [41.0 kB] Get:183 http://ftpmaster.internal/ubuntu focal/main amd64 libsm6 amd64 2:1.2.3-1 [16.1 kB] Get:184 http://ftpmaster.internal/ubuntu focal/main amd64 libice-dev amd64 2:1.0.10-0ubuntu1 [47.8 kB] Get:185 http://ftpmaster.internal/ubuntu focal/main amd64 libsm-dev amd64 2:1.2.3-1 [17.0 kB] Get:186 http://ftpmaster.internal/ubuntu focal/main amd64 libpixman-1-dev amd64 0.38.4-0ubuntu1 [243 kB] Get:187 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-render0-dev amd64 1.14-2 [18.4 kB] Get:188 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-shm0-dev amd64 1.14-2 [6716 B] Get:189 http://ftpmaster.internal/ubuntu focal/main amd64 libffi-dev amd64 3.3-4 [57.0 kB] Get:190 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libglib2.0-bin amd64 2.64.6-1~ubuntu20.04.4 [72.6 kB] Get:191 http://ftpmaster.internal/ubuntu focal-security/main amd64 python3-lib2to3 all 3.8.10-0ubuntu1~20.04 [76.3 kB] Get:192 http://ftpmaster.internal/ubuntu focal-security/main amd64 python3-distutils all 3.8.10-0ubuntu1~20.04 [141 kB] Get:193 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libglib2.0-dev-bin amd64 2.64.6-1~ubuntu20.04.4 [109 kB] Get:194 http://ftpmaster.internal/ubuntu focal-security/main amd64 libblkid-dev amd64 2.34-0.1ubuntu9.3 [167 kB] Get:195 http://ftpmaster.internal/ubuntu focal-security/main amd64 libmount-dev amd64 2.34-0.1ubuntu9.3 [176 kB] Get:196 http://ftpmaster.internal/ubuntu focal-security/main amd64 libpcre16-3 amd64 2:8.39-12ubuntu0.1 [150 kB] Get:197 http://ftpmaster.internal/ubuntu focal-security/main amd64 libpcre32-3 amd64 2:8.39-12ubuntu0.1 [140 kB] Get:198 http://ftpmaster.internal/ubuntu focal-security/main amd64 libpcrecpp0v5 amd64 2:8.39-12ubuntu0.1 [15.5 kB] Get:199 http://ftpmaster.internal/ubuntu focal-security/main amd64 libpcre3-dev amd64 2:8.39-12ubuntu0.1 [540 kB] Get:200 http://ftpmaster.internal/ubuntu focal-security/main amd64 libsepol1-dev amd64 3.0-1ubuntu0.1 [325 kB] Get:201 http://ftpmaster.internal/ubuntu focal/main amd64 libpcre2-16-0 amd64 10.34-7 [181 kB] Get:202 http://ftpmaster.internal/ubuntu focal/main amd64 libpcre2-32-0 amd64 10.34-7 [169 kB] Get:203 http://ftpmaster.internal/ubuntu focal/main amd64 libpcre2-posix2 amd64 10.34-7 [5992 B] Get:204 http://ftpmaster.internal/ubuntu focal/main amd64 libpcre2-dev amd64 10.34-7 [670 kB] Get:205 http://ftpmaster.internal/ubuntu focal/main amd64 libselinux1-dev amd64 3.0-1build2 [151 kB] Get:206 http://ftpmaster.internal/ubuntu focal-updates/main amd64 libglib2.0-dev amd64 2.64.6-1~ubuntu20.04.4 [1506 kB] Get:207 http://ftpmaster.internal/ubuntu focal/main amd64 libcairo2-dev amd64 1.16.0-4ubuntu1 [627 kB] Get:208 http://ftpmaster.internal/ubuntu focal/universe amd64 libcommons-parent-java all 43-1 [10.8 kB] Get:209 http://ftpmaster.internal/ubuntu focal/universe amd64 libcommons-logging-java all 1.2-2 [60.3 kB] Get:210 http://ftpmaster.internal/ubuntu focal/main amd64 libheimbase1-heimdal amd64 7.7.0+dfsg-1ubuntu1 [29.7 kB] Get:211 http://ftpmaster.internal/ubuntu focal/main amd64 libhcrypto4-heimdal amd64 7.7.0+dfsg-1ubuntu1 [87.9 kB] Get:212 http://ftpmaster.internal/ubuntu focal/main amd64 libwind0-heimdal amd64 7.7.0+dfsg-1ubuntu1 [48.0 kB] Get:213 http://ftpmaster.internal/ubuntu focal/main amd64 libhx509-5-heimdal amd64 7.7.0+dfsg-1ubuntu1 [107 kB] Get:214 http://ftpmaster.internal/ubuntu focal/main amd64 libkrb5-26-heimdal amd64 7.7.0+dfsg-1ubuntu1 [208 kB] Get:215 http://ftpmaster.internal/ubuntu focal/main amd64 libheimntlm0-heimdal amd64 7.7.0+dfsg-1ubuntu1 [15.1 kB] Get:216 http://ftpmaster.internal/ubuntu focal/main amd64 libgssapi3-heimdal amd64 7.7.0+dfsg-1ubuntu1 [96.1 kB] Get:217 http://ftpmaster.internal/ubuntu focal-security/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2ubuntu0.1 [14.7 kB] Get:218 http://ftpmaster.internal/ubuntu focal-security/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2ubuntu0.1 [49.3 kB] Get:219 http://ftpmaster.internal/ubuntu focal-security/main amd64 libldap-common all 2.4.49+dfsg-2ubuntu1.9 [16.6 kB] Get:220 http://ftpmaster.internal/ubuntu focal-security/main amd64 libldap-2.4-2 amd64 2.4.49+dfsg-2ubuntu1.9 [155 kB] Get:221 http://ftpmaster.internal/ubuntu focal/main amd64 libnghttp2-14 amd64 1.40.0-1build1 [78.7 kB] Get:222 http://ftpmaster.internal/ubuntu focal/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2build1 [54.9 kB] Get:223 http://ftpmaster.internal/ubuntu focal-security/main amd64 libssh-4 amd64 0.9.3-2ubuntu2.2 [170 kB] Get:224 http://ftpmaster.internal/ubuntu focal-security/main amd64 libcurl4 amd64 7.68.0-1ubuntu2.11 [235 kB] Get:225 http://ftpmaster.internal/ubuntu focal-security/main amd64 libcurl4-openssl-dev amd64 7.68.0-1ubuntu2.11 [322 kB] Get:226 http://ftpmaster.internal/ubuntu focal/main amd64 libdatrie-dev amd64 0.2.12-3 [17.6 kB] Get:227 http://ftpmaster.internal/ubuntu focal/main amd64 libfontenc1 amd64 1:1.1.4-0ubuntu1 [14.0 kB] Get:228 http://ftpmaster.internal/ubuntu focal-security/main amd64 libfribidi-dev amd64 1.0.8-2ubuntu0.1 [62.3 kB] Get:229 http://ftpmaster.internal/ubuntu focal/main amd64 libgraphite2-dev amd64 1.3.13-11build1 [14.7 kB] Get:230 http://ftpmaster.internal/ubuntu focal/main amd64 libharfbuzz-icu0 amd64 2.6.4-1ubuntu4 [5580 B] Get:231 http://ftpmaster.internal/ubuntu focal/main amd64 libharfbuzz-gobject0 amd64 2.6.4-1ubuntu4 [20.4 kB] Get:232 http://ftpmaster.internal/ubuntu focal-security/main amd64 libicu-dev amd64 66.1-2ubuntu2.1 [9451 kB] Get:233 http://ftpmaster.internal/ubuntu focal/main amd64 libharfbuzz-dev amd64 2.6.4-1ubuntu4 [526 kB] Get:234 http://ftpmaster.internal/ubuntu focal-security/main amd64 libjpeg-turbo8-dev amd64 2.0.3-0ubuntu1.20.04.1 [238 kB] Get:235 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg8-dev amd64 8c-2ubuntu8 [1552 B] Get:236 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg-dev amd64 8c-2ubuntu8 [1546 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libpango1.0-dev amd64 1.44.7-2ubuntu4 [132 kB] Get:247 http://ftpmaster.internal/ubuntu focal/main amd64 libpaper1 amd64 1.1.28 [13.0 kB] Get:248 http://ftpmaster.internal/ubuntu focal/main amd64 libpaper-utils amd64 1.1.28 [8400 B] Get:249 http://ftpmaster.internal/ubuntu focal/main amd64 libptexenc1 amd64 2019.20190605.51237-3build2 [35.5 kB] Get:250 http://ftpmaster.internal/ubuntu focal/main amd64 libreadline-dev amd64 8.0-4 [141 kB] Get:251 http://ftpmaster.internal/ubuntu focal/universe amd64 libsombok3 amd64 2.4.0-2 [26.9 kB] Get:252 http://ftpmaster.internal/ubuntu focal/main amd64 libsynctex2 amd64 2019.20190605.51237-3build2 [55.0 kB] Get:253 http://ftpmaster.internal/ubuntu focal/main amd64 libtcl8.6 amd64 8.6.10+dfsg-1 [902 kB] Get:254 http://ftpmaster.internal/ubuntu focal/universe amd64 libteckit0 amd64 2.5.8+ds2-5ubuntu2 [320 kB] Get:255 http://ftpmaster.internal/ubuntu focal/main amd64 libtexlua53 amd64 2019.20190605.51237-3build2 [105 kB] Get:256 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4.1.0+git191117-2ubuntu0.20.04.3 [285 kB] Get:265 http://ftpmaster.internal/ubuntu focal-security/main amd64 libtiff5-dev amd64 4.1.0+git191117-2ubuntu0.20.04.3 [2260 B] Get:266 http://ftpmaster.internal/ubuntu focal/main amd64 libxss1 amd64 1:1.2.3-1 [8140 B] Get:267 http://ftpmaster.internal/ubuntu focal/main amd64 libtk8.6 amd64 8.6.10-1 [714 kB] Get:268 http://ftpmaster.internal/ubuntu focal/universe amd64 libunicode-linebreak-perl amd64 0.0.20190101-1build1 [96.9 kB] Get:269 http://ftpmaster.internal/ubuntu focal/main amd64 libunwind8 amd64 1.2.1-9build1 [47.6 kB] Get:270 http://ftpmaster.internal/ubuntu focal/main amd64 libxt6 amd64 1:1.1.5-1 [160 kB] Get:271 http://ftpmaster.internal/ubuntu focal/main amd64 libxmu6 amd64 2:1.1.3-0ubuntu1 [45.8 kB] Get:272 http://ftpmaster.internal/ubuntu focal/main amd64 libxpm4 amd64 1:3.5.12-1 [34.0 kB] Get:273 http://ftpmaster.internal/ubuntu focal/main amd64 libxaw7 amd64 2:1.0.13-1 [173 kB] Get:274 http://ftpmaster.internal/ubuntu focal/main amd64 libxfont2 amd64 1:2.0.3-1 [91.7 kB] Get:275 http://ftpmaster.internal/ubuntu focal/main amd64 libxkbfile1 amd64 1:1.1.0-1 [65.3 kB] Get:276 http://ftpmaster.internal/ubuntu focal/main amd64 libxml-namespacesupport-perl all 1.12-1 [13.2 kB] Get:277 http://ftpmaster.internal/ubuntu focal/main amd64 libxml-sax-base-perl all 1.09-1 [18.8 kB] Get:278 http://ftpmaster.internal/ubuntu focal/main amd64 libxml-sax-perl all 1.02+dfsg-1 [56.2 kB] Get:279 http://ftpmaster.internal/ubuntu focal/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-1build1 [320 kB] Get:280 http://ftpmaster.internal/ubuntu focal/main amd64 x11proto-scrnsaver-dev all 2019.2-1ubuntu1 [2624 B] Get:281 http://ftpmaster.internal/ubuntu focal/main amd64 libxss-dev amd64 1:1.2.3-1 [11.9 kB] Get:282 http://ftpmaster.internal/ubuntu focal/main amd64 libxt-dev amd64 1:1.1.5-1 [395 kB] Get:283 http://ftpmaster.internal/ubuntu focal/universe amd64 libzzip-0-13 amd64 0.13.62-3.2ubuntu1 [26.2 kB] Get:284 http://ftpmaster.internal/ubuntu focal/universe amd64 mpack amd64 1.6-8.2 [35.5 kB] Get:285 http://ftpmaster.internal/ubuntu focal/universe amd64 preview-latex-style all 11.91-2ubuntu2 [184 kB] Get:286 http://ftpmaster.internal/ubuntu focal/main amd64 t1utils amd64 1.41-3 [56.1 kB] Get:287 http://ftpmaster.internal/ubuntu focal/main amd64 tcl8.6 amd64 8.6.10+dfsg-1 [14.8 kB] Get:288 http://ftpmaster.internal/ubuntu focal/main amd64 tcl8.6-dev amd64 8.6.10+dfsg-1 [905 kB] Get:289 http://ftpmaster.internal/ubuntu focal/universe amd64 texinfo amd64 6.7.0.dfsg.2-5 [1375 kB] Get:290 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-binaries amd64 2019.20190605.51237-3build2 [8041 kB] Get:291 http://ftpmaster.internal/ubuntu focal-security/main amd64 xdg-utils all 1.1.3-2ubuntu1.20.04.2 [61.4 kB] Get:292 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-base all 2019.20200218-1 [20.8 MB] Get:293 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-latex-base all 2019.20200218-1 [990 kB] Get:294 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-extra-utils all 2019.202000218-1 [43.6 MB] Get:295 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-fonts-extra all 2019.202000218-1 [460 MB] Get:296 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-fonts-recommended all 2019.20200218-1 [4972 kB] Get:297 http://ftpmaster.internal/ubuntu focal/universe amd64 libfontbox-java all 1:1.8.16-2 [207 kB] Get:298 http://ftpmaster.internal/ubuntu focal/universe amd64 libpdfbox-java all 1:1.8.16-2 [5199 kB] Get:299 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-latex-recommended all 2019.20200218-1 [15.7 MB] Get:300 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-pictures all 2019.20200218-1 [4492 kB] Get:301 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-latex-extra all 2019.202000218-1 [12.5 MB] Get:302 http://ftpmaster.internal/ubuntu focal/universe amd64 texlive-plain-generic all 2019.202000218-1 [24.6 MB] Get:303 http://ftpmaster.internal/ubuntu focal/main amd64 tk8.6 amd64 8.6.10-1 [12.5 kB] Get:304 http://ftpmaster.internal/ubuntu focal/main amd64 tk8.6-dev amd64 8.6.10-1 [711 kB] Get:305 http://ftpmaster.internal/ubuntu focal/main amd64 x11-xkb-utils amd64 7.7+5 [158 kB] Get:306 http://ftpmaster.internal/ubuntu focal/main amd64 xfonts-encodings all 1:1.0.5-0ubuntu1 [573 kB] Get:307 http://ftpmaster.internal/ubuntu focal/main amd64 xfonts-utils amd64 1:7.7+6 [91.5 kB] Get:308 http://ftpmaster.internal/ubuntu focal/main amd64 xfonts-base all 1:1.0.5 [5896 kB] Get:309 http://ftpmaster.internal/ubuntu focal-security/main amd64 xserver-common all 2:1.20.13-1ubuntu1~20.04.2 [26.5 kB] Get:310 http://ftpmaster.internal/ubuntu focal-security/universe amd64 xvfb amd64 2:1.20.13-1ubuntu1~20.04.2 [779 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 985 MB in 1min 47s (9235 kB/s) Selecting previously unselected package libpython3.8-minimal:amd64. (Reading database ... 12822 files and directories currently installed.) Preparing to unpack .../libpython3.8-minimal_3.8.10-0ubuntu1~20.04.4_amd64.deb ... Unpacking libpython3.8-minimal:amd64 (3.8.10-0ubuntu1~20.04.4) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.2.9-1ubuntu0.4_amd64.deb ... Unpacking libexpat1:amd64 (2.2.9-1ubuntu0.4) ... Selecting previously unselected package python3.8-minimal. Preparing to unpack .../python3.8-minimal_3.8.10-0ubuntu1~20.04.4_amd64.deb ... Unpacking python3.8-minimal (3.8.10-0ubuntu1~20.04.4) ... Setting up libpython3.8-minimal:amd64 (3.8.10-0ubuntu1~20.04.4) ... Setting up libexpat1:amd64 (2.2.9-1ubuntu0.4) ... Setting up python3.8-minimal (3.8.10-0ubuntu1~20.04.4) ... Selecting previously unselected package python3-minimal. (Reading database ... 13113 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.8.2-0ubuntu2_amd64.deb ... 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Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2build1) ... Setting up libteckit0:amd64 (2.5.8+ds2-5ubuntu2) ... Setting up bash-completion (1:2.10-1ubuntu1) ... Setting up uuid-dev:amd64 (2.34-0.1ubuntu9.3) ... Setting up libapache-pom-java (18-1) ... Setting up libavahi-common-data:amd64 (0.7-4ubuntu7.1) ... Setting up libdbus-1-3:amd64 (1.12.16-2ubuntu2.2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up xfonts-encodings (1:1.0.5-0ubuntu1) ... Setting up libfribidi0:amd64 (1.0.8-2ubuntu0.1) ... Setting up t1utils (1.41-3) ... Setting up libpcre32-3:amd64 (2:8.39-12ubuntu0.1) ... Setting up libtcl8.6:amd64 (8.6.10+dfsg-1) ... Setting up autopoint (0.19.8.1-10build1) ... Setting up libwebp6:amd64 (0.6.1-2ubuntu0.20.04.1) ... Setting up icu-devtools (66.1-2ubuntu2.1) ... Setting up pkg-config (0.29.1-0ubuntu4) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libpcsclite1:amd64 (1.8.26-3) ... Setting up ucf (3.0038+nmu1) ... Setting up libpcre2-posix2:amd64 (10.34-7) ... Setting up libsensors5:amd64 (1:3.6.0-2ubuntu1.1) ... Setting up libk5crypto3:amd64 (1.17-6ubuntu4.1) ... Setting up libjpeg-turbo8:amd64 (2.0.3-0ubuntu1.20.04.1) ... Setting up libglapi-mesa:amd64 (21.2.6-0ubuntu0.1~20.04.2) ... Setting up libkpathsea6:amd64 (2019.20190605.51237-3build2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2ubuntu0.1) ... Setting up libgfortran5:amd64 (10.3.0-1ubuntu1~20.04) ... Setting up libvulkan1:amd64 (1.2.131.2-1) ... Setting up libroken18-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up liblzma-dev:amd64 (5.2.4-1ubuntu1.1) ... Setting up libgif7:amd64 (5.1.9-1) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2ubuntu1.3) ... Setting up libdatrie-dev:amd64 (0.2.12-3) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up libmime-charset-perl (1.012.2-1) ... Setting up libuchardet0:amd64 (0.0.6-3build1) ... Setting up libasound2:amd64 (1.2.2-2.1ubuntu2.5) ... Setting up libncurses5-dev:amd64 (6.2-0ubuntu2) ... Setting up fonts-lmodern (2.004.5-6) ... Setting up libsub-override-perl (0.09-2) ... Setting up libharfbuzz0b:amd64 (2.6.4-1ubuntu4) ... Setting up libthai-data (0.1.28-3) ... Setting up libgirepository-1.0-1:amd64 (1.64.1-1~ubuntu20.04.1) ... Setting up xorg-sgml-doctools (1:1.11-1) ... Setting up libkrb5-3:amd64 (1.17-6ubuntu4.1) ... Setting up libmpdec2:amd64 (2.4.2-3) ... Setting up libpython3.8-stdlib:amd64 (3.8.10-0ubuntu1~20.04.4) ... Setting up libtext-unidecode-perl (1.30-1) ... Setting up python3.8 (3.8.10-0ubuntu1~20.04.4) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up libdrm-common (2.4.107-8ubuntu1~20.04.2) ... Setting up libelf1:amd64 (0.176-1.1build1) ... Setting up libxfont2:amd64 (1:2.0.3-1) ... Setting up libicu-dev:amd64 (66.1-2ubuntu2.1) ... Setting up libxml2:amd64 (2.9.10+dfsg-5ubuntu0.20.04.3) ... Setting up xdg-utils (1.1.3-2ubuntu1.20.04.2) ... Setting up libblas-dev:amd64 (3.9.0-1build1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libsynctex2:amd64 (2019.20190605.51237-3build2) ... Setting up libpython3-stdlib:amd64 (3.8.2-0ubuntu2) ... Setting up libheimbase1-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up libbz2-dev:amd64 (1.0.8-2) ... Setting up libjpeg8:amd64 (8c-2ubuntu8) ... Setting up x11proto-dev (2019.2-1ubuntu1) ... Setting up libfile-stripnondeterminism-perl (1.7.0-1) ... Setting up libblkid-dev:amd64 (2.34-0.1ubuntu9.3) ... Setting up libpaper1:amd64 (1.1.28) ... Creating config file /etc/papersize with new version Setting up libice6:amd64 (2:1.0.10-0ubuntu1) ... Setting up libjpeg-turbo8-dev:amd64 (2.0.3-0ubuntu1.20.04.1) ... Setting up libxdmcp6:amd64 (1:1.1.3-0ubuntu1) ... Setting up tcl8.6 (8.6.10+dfsg-1) ... Setting up liblapack3:amd64 (3.9.0-1build1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.14-2) ... Setting up libharfbuzz-icu0:amd64 (2.6.4-1ubuntu4) ... Setting up libxcb-xfixes0:amd64 (1.14-2) ... Setting up libpdfbox-java (1:1.8.16-2) ... Setting up libxau-dev:amd64 (1:1.0.9-0ubuntu1) ... Setting up libpcre2-dev:amd64 (10.34-7) ... Setting up libice-dev:amd64 (2:1.0.10-0ubuntu1) ... Setting up libtool (2.4.6-14) ... Setting up libxcb-render0:amd64 (1.14-2) ... Setting up libselinux1-dev:amd64 (3.0-1build2) ... Setting up libpcre3-dev:amd64 (2:8.39-12ubuntu0.1) ... Setting up fontconfig-config (2.13.1-2ubuntu3) ... Setting up libfribidi-dev:amd64 (1.0.8-2ubuntu0.1) ... Setting up libxcb-glx0:amd64 (1.14-2) ... Setting up libasn1-8-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up tcl8.6-dev:amd64 (8.6.10+dfsg-1) ... Setting up libedit2:amd64 (3.1-20191231-1) ... Setting up libpng-dev:amd64 (1.6.37-2) ... Setting up libcommons-parent-java (43-1) ... Setting up libavahi-common3:amd64 (0.7-4ubuntu7.1) ... Setting up libjbig-dev:amd64 (2.1-3.1build1) ... Setting up libcommons-logging-java (1.2-2) ... Setting up libgfortran-9-dev:amd64 (9.4.0-1ubuntu1~20.04.1) ... Setting up libglib2.0-bin (2.64.6-1~ubuntu20.04.4) ... Setting up m4 (1.4.18-4) ... Setting up python3 (3.8.2-0ubuntu2) ... Setting up libnss3:amd64 (2:3.49.1-1ubuntu1.7) ... Setting up libxcb-shm0:amd64 (1.14-2) ... Setting up libharfbuzz-gobject0:amd64 (2.6.4-1ubuntu4) ... Setting up libpaper-utils (1.1.28) ... Setting up xfonts-utils (1:7.7+6) ... Setting up libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libhcrypto4-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up libfreetype-dev:amd64 (2.10.1-2ubuntu0.1) ... Setting up libxcb-present0:amd64 (1.14-2) ... Setting up tex-common (6.13) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libthai0:amd64 (0.1.28-3) ... Setting up libxdmcp-dev:amd64 (1:1.1.3-0ubuntu1) ... Setting up libwind0-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up xfonts-base (1:1.0.5) ... Setting up libptexenc1:amd64 (2019.20190605.51237-3build2) ... Setting up libxcb-sync1:amd64 (1.14-2) ... Setting up x11proto-core-dev (2019.2-1ubuntu1) ... Setting up libllvm12:amd64 (1:12.0.0-3ubuntu1~20.04.5) ... Setting up bsdmainutils (11.1.2ubuntu3) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up liblapack-dev:amd64 (3.9.0-1build1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-6ubuntu4.1) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up gir1.2-glib-2.0:amd64 (1.64.1-1~ubuntu20.04.1) ... Setting up libssh-4:amd64 (0.9.3-2ubuntu2.2) ... Setting up autoconf (2.69-11.1) ... Setting up libthai-dev:amd64 (0.1.28-3) ... Setting up libxml-libxml-perl (2.0134+dfsg-1build1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libxcb-dri2-0:amd64 (1.14-2) ... Setting up dh-strip-nondeterminism (1.7.0-1) ... Setting up x11proto-xext-dev (2019.2-1ubuntu1) ... Setting up libdrm2:amd64 (2.4.107-8ubuntu1~20.04.2) ... Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-4build1) ... Setting up bison (2:3.5.1+dfsg-1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up libx11-6:amd64 (2:1.6.9-2ubuntu1.2) ... Setting up libtiff5:amd64 (4.1.0+git191117-2ubuntu0.20.04.3) ... Setting up libfontconfig1:amd64 (2.13.1-2ubuntu3) ... Setting up libxkbfile1:amd64 (1:1.1.0-1) ... Setting up libjpeg8-dev:amd64 (8c-2ubuntu8) ... Setting up x11proto-scrnsaver-dev (2019.2-1ubuntu1) ... Setting up python3-lib2to3 (3.8.10-0ubuntu1~20.04) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libavahi-client3:amd64 (0.7-4ubuntu7.1) ... Setting up libmount-dev:amd64 (2.34-0.1ubuntu9.3) ... Setting up libxmuu1:amd64 (2:1.1.3-0ubuntu1) ... Setting up libtiffxx5:amd64 (4.1.0+git191117-2ubuntu0.20.04.3) ... Setting up libdrm-amdgpu1:amd64 (2.4.107-8ubuntu1~20.04.2) ... Setting up automake (1:1.16.1-4ubuntu6) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3-distutils (3.8.10-0ubuntu1~20.04) ... Setting up libxcb-dri3-0:amd64 (1.14-2) ... Setting up libglib2.0-dev-bin (2.64.6-1~ubuntu20.04.4) ... Setting up fontconfig (2.13.1-2ubuntu3) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:amd64 (2.4.107-8ubuntu1~20.04.2) ... Setting up gettext (0.19.8.1-10build1) ... Setting up gir1.2-freedesktop:amd64 (1.64.1-1~ubuntu20.04.1) ... Setting up libxcb1-dev:amd64 (1.14-2) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up gfortran-9 (9.4.0-1ubuntu1~20.04.1) ... Setting up libsombok3:amd64 (2.4.0-2) ... Setting up libsm-dev:amd64 (2:1.2.3-1) ... Setting up libdrm-radeon1:amd64 (2.4.107-8ubuntu1~20.04.2) ... Setting up libhx509-5-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up preview-latex-style (11.91-2ubuntu2) ... Setting up libpango-1.0-0:amd64 (1.44.7-2ubuntu4) ... Setting up libdrm-intel1:amd64 (2.4.107-8ubuntu1~20.04.2) ... Setting up libgl1-mesa-dri:amd64 (21.2.6-0ubuntu0.1~20.04.2) ... Setting up libjpeg-dev:amd64 (8c-2ubuntu8) ... Setting up libx11-dev:amd64 (2:1.6.9-2ubuntu1.2) ... Setting up libxext6:amd64 (2:1.3.4-0ubuntu1) ... Setting up man-db (2.9.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up gir1.2-harfbuzz-0.0:amd64 (2.6.4-1ubuntu4) ... Setting up gfortran (4:9.3.0-1ubuntu2) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libcairo2:amd64 (1.16.0-4ubuntu1) ... Setting up libfreetype6-dev:amd64 (2.10.1-2ubuntu0.1) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1build1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxcb-shm0-dev:amd64 (1.14-2) ... Setting up libglib2.0-dev:amd64 (2.64.6-1~ubuntu20.04.4) ... Setting up libtiff-dev:amd64 (4.1.0+git191117-2ubuntu0.20.04.3) ... Setting up libxfixes3:amd64 (1:5.0.3-2) ... Setting up libunicode-linebreak-perl (0.0.20190101-1build1) ... Setting up libxcb-render0-dev:amd64 (1.14-2) ... Setting up libxt6:amd64 (1:1.1.5-1) ... Setting up texinfo (6.7.0.dfsg.2-5) ... Running mktexlsr. This may take some time. ... done. Setting up libxext-dev:amd64 (2:1.3.4-0ubuntu1) ... Setting up libcups2:amd64 (2.3.1-9ubuntu1.2) ... Setting up xauth (1:1.1-0ubuntu1) ... Setting up libcairo-gobject2:amd64 (1.16.0-4ubuntu1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libpangoft2-1.0-0:amd64 (1.44.7-2ubuntu4) ... Setting up libxrender-dev:amd64 (1:0.9.10-1) ... Setting up libpangocairo-1.0-0:amd64 (1.44.7-2ubuntu4) ... Setting up libkrb5-26-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up libcairo-script-interpreter2:amd64 (1.16.0-4ubuntu1) ... Setting up libharfbuzz-dev:amd64 (2.6.4-1ubuntu4) ... Setting up libxft2:amd64 (2.3.3-0ubuntu1) ... Setting up libxmu6:amd64 (2:1.1.3-0ubuntu1) ... Setting up libfontconfig1-dev:amd64 (2.13.1-2ubuntu3) ... Setting up libglx-mesa0:amd64 (21.2.6-0ubuntu0.1~20.04.2) ... Setting up libpangoxft-1.0-0:amd64 (1.44.7-2ubuntu4) ... Setting up libxi6:amd64 (2:1.7.10-0ubuntu1) ... Setting up libglx0:amd64 (1.3.2-1~ubuntu0.20.04.2) ... Setting up libxtst6:amd64 (2:1.2.3-1) ... Setting up po-debconf (1.0.21) ... Setting up libtk8.6:amd64 (8.6.10-1) ... Setting up pango1.0-tools (1.44.7-2ubuntu4) ... Setting up libtiff5-dev (4.1.0+git191117-2ubuntu0.20.04.3) ... Setting up libxaw7:amd64 (2:1.0.13-1) ... Setting up libxss-dev:amd64 (1:1.2.3-1) ... Setting up libheimntlm0-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up gir1.2-pango-1.0:amd64 (1.44.7-2ubuntu4) ... Setting up libgl1:amd64 (1.3.2-1~ubuntu0.20.04.2) ... Setting up libgssapi3-heimdal:amd64 (7.7.0+dfsg-1ubuntu1) ... Setting up libxt-dev:amd64 (1:1.1.5-1) ... Setting up texlive-binaries (2019.20190605.51237-3build2) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libcairo2-dev:amd64 (1.16.0-4ubuntu1) ... Setting up texlive-base (2019.20200218-1) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/config/pdftexconfig.tex Setting up libxft-dev:amd64 (2.3.3-0ubuntu1) ... Setting up tk8.6 (8.6.10-1) ... Setting up x11-xkb-utils (7.7+5) ... Setting up texlive-plain-generic (2019.202000218-1) ... Setting up libldap-2.4-2:amd64 (2.4.49+dfsg-2ubuntu1.9) ... Setting up texlive-latex-base (2019.20200218-1) ... Setting up texlive-extra-utils (2019.202000218-1) ... Setting up texlive-fonts-extra (2019.202000218-1) ... Setting up libpango1.0-dev:amd64 (1.44.7-2ubuntu4) ... Setting up texlive-latex-recommended (2019.20200218-1) ... Setting up texlive-pictures (2019.20200218-1) ... Setting up tk8.6-dev:amd64 (8.6.10-1) ... Setting up texlive-fonts-recommended (2019.20200218-1) ... Setting up libcurl4:amd64 (7.68.0-1ubuntu2.11) ... Setting up xserver-common (2:1.20.13-1ubuntu1~20.04.2) ... Setting up xvfb (2:1.20.13-1ubuntu1~20.04.2) ... Setting up texlive-latex-extra (2019.202000218-1) ... Setting up libcurl4-openssl-dev:amd64 (7.68.0-1ubuntu2.11) ... Setting up default-jre-headless (2:1.11-72) ... Setting up openjdk-11-jre-headless:amd64 (11.0.15+10-0ubuntu0.20.04.1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up openjdk-11-jre:amd64 (11.0.15+10-0ubuntu0.20.04.1) ... Setting up openjdk-11-jdk-headless:amd64 (11.0.15+10-0ubuntu0.20.04.1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmic to provide /usr/bin/rmic (rmic) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jaotc to provide /usr/bin/jaotc (jaotc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre (2:1.11-72) ... Setting up dh-autoreconf (19) ... Setting up default-jdk-headless (2:1.11-72) ... Setting up openjdk-11-jdk:amd64 (11.0.15+10-0ubuntu0.20.04.1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up ca-certificates-java (20190405ubuntu1) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:GTS_Root_R4.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:SecureTrust_CA.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:ACCVRAIZ1.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:ISRG_Root_X1.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Izenpe.com.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:GTS_Root_R2.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:GTS_Root_R1.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:SecureSign_RootCA11.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:Certigna.pem Adding debian:Secure_Global_CA.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Certigna_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:AffirmTrust_Premium.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GTS_Root_R3.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_FÅ‘tanúsítvány.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:TrustCor_ECA-1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:EC-ACC.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:AffirmTrust_Networking.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:Cybertrust_Global_Root.pem done. Setting up debhelper (12.10ubuntu1) ... Setting up default-jdk (2:1.11-72) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.31-0ubuntu9.9) ... Processing triggers for systemd (245.4-4ubuntu3.17) ... Processing triggers for ca-certificates (20211016~20.04.1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. Processing triggers for tex-common (6.13) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-120-generic #136-Ubuntu SMP Fri Jun 10 13:40:48 UTC 2022 amd64 (x86_64) Toolchain package versions: binutils_2.34-6ubuntu1.3 dpkg-dev_1.19.7ubuntu3.2 g++-9_9.4.0-1ubuntu1~20.04.1 gcc-9_9.4.0-1ubuntu1~20.04.1 libc6-dev_2.31-0ubuntu9.9 libstdc++-9-dev_9.4.0-1ubuntu1~20.04.1 libstdc++6_10.3.0-1ubuntu1~20.04 linux-libc-dev_5.4.0-121.137 Package versions: adduser_3.118ubuntu2 advancecomp_2.1-2.1build1 apt_2.0.9 autoconf_2.69-11.1 automake_1:1.16.1-4ubuntu6 autopoint_0.19.8.1-10build1 autotools-dev_20180224.1 base-files_11ubuntu5.5 base-passwd_3.5.47 bash_5.0-6ubuntu1.2 bash-completion_1:2.10-1ubuntu1 binutils_2.34-6ubuntu1.3 binutils-common_2.34-6ubuntu1.3 binutils-x86-64-linux-gnu_2.34-6ubuntu1.3 bison_2:3.5.1+dfsg-1 bsdmainutils_11.1.2ubuntu3 bsdutils_1:2.34-0.1ubuntu9.3 build-essential_12.8ubuntu1.1 bzip2_1.0.8-2 ca-certificates_20211016~20.04.1 ca-certificates-java_20190405ubuntu1 coreutils_8.30-3ubuntu2 cpp_4:9.3.0-1ubuntu2 cpp-9_9.4.0-1ubuntu1~20.04.1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.10ubuntu1 debianutils_4.9.1 default-jdk_2:1.11-72 default-jdk-headless_2:1.11-72 default-jre_2:1.11-72 default-jre-headless_2:1.11-72 dh-autoreconf_19 dh-strip-nondeterminism_1.7.0-1 diffutils_1:3.7-3 dpkg_1.19.7ubuntu3.2 dpkg-dev_1.19.7ubuntu3.2 dwz_0.13-5 e2fsprogs_1.45.5-2ubuntu1.1 fakeroot_1.24-1 fdisk_2.34-0.1ubuntu9.3 file_1:5.38-4 findutils_4.7.0-1ubuntu1 fontconfig_2.13.1-2ubuntu3 fontconfig-config_2.13.1-2ubuntu3 fonts-dejavu-core_2.37-1 fonts-lmodern_2.004.5-6 g++_4:9.3.0-1ubuntu2 g++-9_9.4.0-1ubuntu1~20.04.1 gcc_4:9.3.0-1ubuntu2 gcc-10-base_10.3.0-1ubuntu1~20.04 gcc-9_9.4.0-1ubuntu1~20.04.1 gcc-9-base_9.4.0-1ubuntu1~20.04.1 gettext_0.19.8.1-10build1 gettext-base_0.19.8.1-10build1 gfortran_4:9.3.0-1ubuntu2 gfortran-9_9.4.0-1ubuntu1~20.04.1 gir1.2-freedesktop_1.64.1-1~ubuntu20.04.1 gir1.2-glib-2.0_1.64.1-1~ubuntu20.04.1 gir1.2-harfbuzz-0.0_2.6.4-1ubuntu4 gir1.2-pango-1.0_1.44.7-2ubuntu4 gpg_2.2.19-3ubuntu2.1 gpg-agent_2.2.19-3ubuntu2.1 gpgconf_2.2.19-3ubuntu2.1 gpgv_2.2.19-3ubuntu2.1 grep_3.4-1 groff-base_1.22.4-4build1 gzip_1.10-0ubuntu4.1 hostname_3.23 icu-devtools_66.1-2ubuntu2.1 init_1.57 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 java-common_0.72 libacl1_2.2.53-6 libapache-pom-java_18-1 libapparmor1_2.13.3-7ubuntu5.1 libapt-pkg6.0_2.0.9 libarchive-zip-perl_1.67-2 libargon2-1_0~20171227-0.2 libasan5_9.4.0-1ubuntu1~20.04.1 libasn1-8-heimdal_7.7.0+dfsg-1ubuntu1 libasound2_1.2.2-2.1ubuntu2.5 libasound2-data_1.2.2-2.1ubuntu2.5 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libctf-nobfd0_2.34-6ubuntu1.3 libctf0_2.34-6ubuntu1.3 libcups2_2.3.1-9ubuntu1.2 libcurl4_7.68.0-1ubuntu2.11 libcurl4-openssl-dev_7.68.0-1ubuntu2.11 libdatrie-dev_0.2.12-3 libdatrie1_0.2.12-3 libdb5.3_5.3.28+dfsg1-0.6ubuntu2 libdbus-1-3_1.12.16-2ubuntu2.2 libdebconfclient0_0.251ubuntu1 libdebhelper-perl_12.10ubuntu1 libdevmapper1.02.1_2:1.02.167-1ubuntu1 libdpkg-perl_1.19.7ubuntu3.2 libdrm-amdgpu1_2.4.107-8ubuntu1~20.04.2 libdrm-common_2.4.107-8ubuntu1~20.04.2 libdrm-intel1_2.4.107-8ubuntu1~20.04.2 libdrm-nouveau2_2.4.107-8ubuntu1~20.04.2 libdrm-radeon1_2.4.107-8ubuntu1~20.04.2 libdrm2_2.4.107-8ubuntu1~20.04.2 libedit2_3.1-20191231-1 libelf1_0.176-1.1build1 libexpat1_2.2.9-1ubuntu0.4 libexpat1-dev_2.2.9-1ubuntu0.4 libext2fs2_1.45.5-2ubuntu1.1 libfakeroot_1.24-1 libfdisk1_2.34-0.1ubuntu9.3 libffi-dev_3.3-4 libffi7_3.3-4 libfile-stripnondeterminism-perl_1.7.0-1 libfontbox-java_1:1.8.16-2 libfontconfig1_2.13.1-2ubuntu3 libfontconfig1-dev_2.13.1-2ubuntu3 libfontenc1_1:1.1.4-0ubuntu1 libfreetype-dev_2.10.1-2ubuntu0.1 libfreetype6_2.10.1-2ubuntu0.1 libfreetype6-dev_2.10.1-2ubuntu0.1 libfribidi-dev_1.0.8-2ubuntu0.1 libfribidi0_1.0.8-2ubuntu0.1 libgcc-9-dev_9.4.0-1ubuntu1~20.04.1 libgcc-s1_10.3.0-1ubuntu1~20.04 libgcrypt20_1.8.5-5ubuntu1.1 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran-9-dev_9.4.0-1ubuntu1~20.04.1 libgfortran5_10.3.0-1ubuntu1~20.04 libgif7_5.1.9-1 libgirepository-1.0-1_1.64.1-1~ubuntu20.04.1 libgl1_1.3.2-1~ubuntu0.20.04.2 libgl1-mesa-dri_21.2.6-0ubuntu0.1~20.04.2 libglapi-mesa_21.2.6-0ubuntu0.1~20.04.2 libglib2.0-0_2.64.6-1~ubuntu20.04.4 libglib2.0-bin_2.64.6-1~ubuntu20.04.4 libglib2.0-data_2.64.6-1~ubuntu20.04.4 libglib2.0-dev_2.64.6-1~ubuntu20.04.4 libglib2.0-dev-bin_2.64.6-1~ubuntu20.04.4 libglvnd0_1.3.2-1~ubuntu0.20.04.2 libglx-mesa0_21.2.6-0ubuntu0.1~20.04.2 libglx0_1.3.2-1~ubuntu0.20.04.2 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2ubuntu1.6 libgomp1_10.3.0-1ubuntu1~20.04 libgpg-error0_1.37-1 libgraphite2-3_1.3.13-11build1 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optional arch=all r-base-core deb gnu-r optional arch=any r-base-dev deb gnu-r optional arch=all r-base-html deb doc optional arch=all r-doc-html deb doc optional arch=all r-doc-info deb doc optional arch=all r-doc-pdf deb doc optional arch=all r-mathlib deb gnu-r optional arch=any r-recommended deb gnu-r optional arch=all Checksums-Sha1: 476347a910a01f0cc311faf5e7261aa2251b7d21 37601544 r-base_4.2.1.orig.tar.gz b31f9bcf919a00f960aca4a1f1cc885fd7deaba3 98156 r-base_4.2.1-0.2004.0.debian.tar.xz Checksums-Sha256: 4d52db486d27848e54613d4ee977ad952ec08ce17807e1b525b10cd4436c643f 37601544 r-base_4.2.1.orig.tar.gz 02db7037e26d1164d454e3d04de84e5658eb858b15c95eac82e23d7150f51e49 98156 r-base_4.2.1-0.2004.0.debian.tar.xz Files: d363458f20d011c9edf55c8c828af242 37601544 r-base_4.2.1.orig.tar.gz 13c2455ca5edbe1e74096095f2fa2f8b 98156 r-base_4.2.1-0.2004.0.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIVAwUBYrREiaFIn+KrmaIaAQhQug//e3Jglbym13vPCRUQM/6z4U2ebWpyFUcW 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r-base_4.2.1.orig.tar.gz dpkg-source: info: unpacking r-base_4.2.1-0.2004.0.debian.tar.xz Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=noautodbgsym parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-24106401 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-24106401 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-24106401 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -b -rfakeroot dpkg-buildpackage: info: source package r-base dpkg-buildpackage: info: source version 4.2.1-0.2004.0 dpkg-buildpackage: info: source distribution focal dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean *** clean *** dh_testdir dh_testroot rm -f configure-stamp \ build-stamp build-indep-stamp build-arch-stamp \ make-stamp make-arch-stamp make-indep-stamp \ install-indep-stamp install-arch-stamp \ check-stamp [ ! -f Makefile ] || /usr/bin/make distclean rm -f `find . -name "*~"` rm -rf debian/tmp debian/files debian/files* core debian/substvars rm -f doc/html/function.html doc/html/packages.html rm -f modules/*.so src/unix/Rscript dh_clean debian/rules build *** configure *** #automake #autoconf dh_testdir R_SHELL=/bin/bash \ mkdir_p="/bin/mkdir -p" \ MKDIR_P="/bin/mkdir -p" \ R_TEXI2DVICMD=emulation \ R_PAPERSIZE=letter \ R_BROWSER=xdg-open \ R_BZIPCMD=/bin/bzip2 \ R_GZIPCMD="/bin/gzip -n" \ PAGER=/usr/bin/pager \ PERL=/usr/bin/perl \ JAVA_HOME=/usr/lib/jvm/default-java \ R_UNZIPCMD=/usr/bin/unzip \ R_ZIPCMD=/usr/bin/zip \ R_PRINTCMD=/usr/bin/lpr \ TAR=/bin/tar \ LIBnn=lib \ AWK=/usr/bin/awk \ DD=/bin/dd \ GREP=/bin/grep \ FGREP="/bin/grep -F" \ EGREP="/bin/grep -E" \ SED=/bin/sed \ GETWD="/bin/pwd" \ CC=gcc \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ CPPFLAGS= \ LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" \ FLIBS= \ rsharedir=/usr/share/R/share \ rincludedir=/usr/share/R/include \ rdocdir=/usr/share/R/doc \ ./configure --prefix=/usr \ --with-cairo \ --with-jpeglib \ --with-readline \ --with-tcltk \ --mandir=/usr/share/man \ --infodir=/usr/share/info \ --datadir=/usr/share/R/share \ --includedir=/usr/share/R/include \ --with-blas \ --with-lapack \ --enable-long-double \ --enable-R-profiling \ --enable-R-shlib \ --enable-memory-profiling \ --without-recommended-packages \ --build x86_64-linux-gnu checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu loading site script './config.site' loading build-specific script './config.site' checking for pwd... /bin/pwd checking whether builddir is srcdir... yes checking whether ln -s works... yes checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /bin/sed checking for which... /usr/bin/which checking for /usr/bin/pager... /usr/bin/pager checking for /bin/tar... /bin/tar checking for tex... /usr/bin/tex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeindex... /usr/bin/makeindex checking for texi2any... /usr/bin/texi2any checking whether texi2any version is at least 5.1... yes checking for ginstall-info... no checking for install-info... no checking for texi2dvi... /usr/bin/texi2dvi checking for kpsewhich... /usr/bin/kpsewhich checking for latex inconsolata package... found zi4.sty checking for unzip... /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... /bin/gzip -n checking for bzip2... /bin/bzip2 using default browser ... xdg-open checking for acroread... no checking for acroread4... no checking for xdg-open... /usr/bin/xdg-open checking for working aclocal... found checking for working autoconf... found checking for working autoheader... found checking for bison... bison -y checking for notangle... false checking for realpath... /usr/bin/realpath checking for pkg-config... /usr/bin/pkg-config checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... 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(cached) extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for NL_LOCALE_NAME macro... yes checking for bison... bison checking version of bison... 3.5.1, ok checking for long long int... yes checking for long double... yes checking for wchar_t... yes checking for wint_t... yes checking for intmax_t... yes checking whether printf() supports POSIX/XSI format strings... yes checking whether we are using the GNU C Library 2.1 or newer... yes checking for stdint.h... (cached) yes checking for SIZE_MAX... yes checking for stdint.h... (cached) yes checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyCurrent... no checking for ptrdiff_t... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for asprintf... yes checking for fwprintf... yes checking for putenv... (cached) yes checking for setenv... yes checking for setlocale... yes checking for snprintf... yes checking for wcslen... yes checking whether _snprintf is declared... no checking whether _snwprintf is declared... no checking whether getc_unlocked is declared... yes checking for nl_langinfo and CODESET... (cached) yes checking for LC_MESSAGES... yes checking for CFPreferencesCopyAppValue... (cached) no checking for CFLocaleCopyCurrent... (cached) no checking whether included gettext is requested... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc Finished configuring src/extra/intl directory checking whether OpenMP SIMD reduction is supported... yes using as R_SHELL for scripts ... /bin/bash configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/javaconf config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/tzone/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/graphics/src/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/translations/DESCRIPTION config.status: creating src/library/translations/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/library/utils/src/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/javareconf config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/scripts/rtags config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing stamp-h commands R is now configured for x86_64-pc-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 Fortran fixed-form compiler: gfortran -fno-optimize-sibling-calls -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong Default C++ compiler: g++ -std=gnu++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++11 compiler: g++ -std=gnu++11 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++14 compiler: g++ -std=gnu++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++17 compiler: g++ -std=gnu++17 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++20 compiler: g++ -std=gnu++2a -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 Fortran free-form compiler: gfortran -fno-optimize-sibling-calls -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong Obj-C compiler: Interfaces supported: X11, tcltk External libraries: pcre2, readline, BLAS(generic), LAPACK(generic), curl Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling, memory profiling Capabilities skipped: Options not enabled: shared BLAS Recommended packages: no touch configure-stamp *** make-arch *** /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong" \ CC=gcc \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro" \ PKG_BUILT_STAMP="""" \ R_GZIPCMD="/bin/gzip -n" \ R make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' creating src/scripts/R.fe make[4]: Entering directory '/<>/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' mkdir -p -- ../../include make[4]: Entering directory '/<>/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' making regcomp.d from regcomp.c making regerror.d from regerror.c making regexec.d from regexec.c making tre-ast.d from tre-ast.c making tre-compile.d from tre-compile.c making tre-match-approx.d from tre-match-approx.c making tre-match-backtrack.d from tre-match-backtrack.c making tre-match-parallel.d from tre-match-parallel.c making tre-mem.d from tre-mem.c making tre-parse.d from tre-parse.c making tre-stack.d from tre-stack.c making xmalloc.d from xmalloc.c make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regcomp.c -o regcomp.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regerror.c -o regerror.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regexec.c -o regexec.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-ast.c -o tre-ast.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-compile.c -o tre-compile.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-mem.c -o tre-mem.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-parse.c -o tre-parse.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-stack.c -o tre-stack.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c xmalloc.c -o xmalloc.o ar -cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o xmalloc.o ranlib libtre.a make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' making integrate.d from integrate.c making interv.d from interv.c making maxcol.d from maxcol.c making optim.d from optim.c making pretty.d from pretty.c making uncmin.d from uncmin.c make[4]: Entering directory '/<>/src/appl' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c integrate.c -o integrate.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c interv.c -o interv.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c maxcol.c -o maxcol.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c optim.c -o optim.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pretty.c -o pretty.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c uncmin.c -o uncmin.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dchdc.f -o dchdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpbfa.f -o dpbfa.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpbsl.f -o dpbsl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpoco.f -o dpoco.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpodi.f -o dpodi.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dpofa.f -o dpofa.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dposl.f -o dposl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrdc.f -o dqrdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrdc2.f -o dqrdc2.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrls.f -o dqrls.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrsl.f -o dqrsl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dqrutl.f -o dqrutl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dsvdc.f -o dsvdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dtrco.f -o dtrco.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c dtrsl.f -o dtrsl.o ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dchdc.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o ranlib libappl.a make[4]: Leaving directory '/<>/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c make[4]: Entering directory '/<>/src/nmath' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mlutils.c -o mlutils.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c d1mach.c -o d1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c i1mach.c -o i1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fmax2.c -o fmax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fmin2.c -o fmin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fprec.c -o fprec.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fround.c -o fround.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ftrunc.c -o ftrunc.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sign.c -o sign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fsign.c -o fsign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c imax2.c -o imax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c imin2.c -o imin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c chebyshev.c -o chebyshev.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c log1p.c -o log1p.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lgammacor.c -o lgammacor.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gammalims.c -o gammalims.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stirlerr.c -o stirlerr.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bd0.c -o bd0.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gamma.c -o gamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lgamma.c -o lgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c beta.c -o beta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lbeta.c -o lbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c polygamma.c -o polygamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cospi.c -o cospi.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_i.c -o bessel_i.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_j.c -o bessel_j.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_k.c -o bessel_k.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_y.c -o bessel_y.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c choose.c -o choose.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c snorm.c -o snorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sexp.c -o sexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dgamma.c -o dgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pgamma.c -o pgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qgamma.c -o qgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rgamma.c -o rgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dbeta.c -o dbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pbeta.c -o pbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qbeta.c -o qbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rbeta.c -o rbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dunif.c -o dunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c punif.c -o punif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qunif.c -o qunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c runif.c -o runif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnorm.c -o dnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnorm.c -o pnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnorm.c -o qnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rnorm.c -o rnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dlnorm.c -o dlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plnorm.c -o plnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qlnorm.c -o qlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rlnorm.c -o rlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c df.c -o df.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pf.c -o pf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qf.c -o qf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rf.c -o rf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnf.c -o dnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dt.c -o dt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pt.c -o pt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qt.c -o qt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rt.c -o rt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnt.c -o dnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dchisq.c -o dchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pchisq.c -o pchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qchisq.c -o qchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rchisq.c -o rchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rnchisq.c -o rnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dbinom.c -o dbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pbinom.c -o pbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qbinom.c -o qbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rbinom.c -o rbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rmultinom.c -o rmultinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dcauchy.c -o dcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pcauchy.c -o pcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qcauchy.c -o qcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rcauchy.c -o rcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dexp.c -o dexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pexp.c -o pexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qexp.c -o qexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rexp.c -o rexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dgeom.c -o dgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pgeom.c -o pgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qgeom.c -o qgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rgeom.c -o rgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dhyper.c -o dhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c phyper.c -o phyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qhyper.c -o qhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rhyper.c -o rhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnbinom.c -o dnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnbinom.c -o pnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbinom.c -o qnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbinom_mu.c -o qnbinom_mu.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rnbinom.c -o rnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dpois.c -o dpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ppois.c -o ppois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qpois.c -o qpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rpois.c -o rpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dweibull.c -o dweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pweibull.c -o pweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qweibull.c -o qweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rweibull.c -o rweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dlogis.c -o dlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plogis.c -o plogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qlogis.c -o qlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rlogis.c -o rlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnchisq.c -o dnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnchisq.c -o pnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnchisq.c -o qnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnbeta.c -o dnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnbeta.c -o pnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbeta.c -o qnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnf.c -o pnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnt.c -o pnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnf.c -o qnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnt.c -o qnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ptukey.c -o ptukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qtukey.c -o qtukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c toms708.c -o toms708.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c wilcox.c -o wilcox.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c signrank.c -o signrank.o ar -cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o ranlib libnmath.a make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' config.status: creating src/unix/Makefile making Rembedded.d from Rembedded.c making dynload.d from dynload.c making system.d from system.c making sys-unix.d from sys-unix.c making sys-std.d from sys-std.c making X11.d from X11.c make[4]: Entering directory '/<>/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rembedded.c -o Rembedded.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dynload.c -o dynload.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c system.c -o system.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sys-unix.c -o sys-unix.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sys-std.c -o sys-std.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c X11.c -o X11.o ar -cr libunix.a Rembedded.o dynload.o system.o sys-unix.o sys-std.o X11.o ranlib libunix.a make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' config.status: creating src/main/Makefile making CommandLineArgs.d from CommandLineArgs.c making Rdynload.d from Rdynload.c making Renviron.d from Renviron.c making RNG.d from RNG.c making agrep.d from agrep.c making altclasses.d from altclasses.c making altrep.d from altrep.c making apply.d from apply.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.c making clippath.d from clippath.c making coerce.d from coerce.c making colors.d from colors.c making complex.d from complex.c making connections.d from connections.c making context.d from context.c making cum.d from cum.c making dcf.d from dcf.c making datetime.d from datetime.c making debug.d from debug.c making deparse.d from deparse.c making devices.d from devices.c making dotcode.d from dotcode.c making dounzip.d from dounzip.c making dstruct.d from dstruct.c making duplicate.d from duplicate.c making edit.d from edit.c making engine.d from engine.c making envir.d from envir.c making errors.d from errors.c making eval.d from eval.c making format.d from format.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making graphics.d from graphics.c making grep.d from grep.c making identical.d from identical.c making inlined.d from inlined.c making inspect.d from inspect.c making internet.d from internet.c making iosupport.d from iosupport.c making lapack.d from lapack.c making list.d from list.c making localecharset.d from localecharset.c making logic.d from logic.c making main.d from main.c making mapply.d from mapply.c making mask.d from mask.c making match.d from match.c making memory.d from memory.c making names.d from names.c making objects.d from objects.c making options.d from options.c making paste.d from paste.c making patterns.d from patterns.c making platform.d from platform.c making plot.d from plot.c making plot3d.d from plot3d.c making plotmath.d from plotmath.c making print.d from print.c making printarray.d from printarray.c making printvector.d from printvector.c making printutils.d from printutils.c making qsort.d from qsort.c making radixsort.d from radixsort.c making random.d from random.c making raw.d from raw.c making registration.d from registration.c making relop.d from relop.c making rlocale.d from rlocale.c making saveload.d from saveload.c making scan.d from scan.c making seq.d from seq.c making serialize.d from serialize.c making sort.d from sort.c making source.d from source.c making split.d from split.c making sprintf.d from sprintf.c making startup.d from startup.c making subassign.d from subassign.c making subscript.d from subscript.c making subset.d from subset.c making summary.d from summary.c making sysutils.d from sysutils.c making times.d from times.c making unique.d from unique.c making util.d from util.c making version.d from version.c making g_alab_her.d from g_alab_her.c making g_cntrlify.d from g_cntrlify.c making g_fontdb.d from g_fontdb.c making g_her_glyph.d from g_her_glyph.c making Rmain.d from Rmain.c making alloca.d from alloca.c making mkdtemp.d from mkdtemp.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c make[4]: Entering directory '/<>/src/main' gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c CommandLineArgs.c -o CommandLineArgs.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rdynload.c -o Rdynload.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Renviron.c -o Renviron.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c RNG.c -o RNG.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c agrep.c -o agrep.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c altclasses.c -o altclasses.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c altrep.c -o altrep.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c apply.c -o apply.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c arithmetic.c -o arithmetic.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c array.c -o array.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c attrib.c -o attrib.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bind.c -o bind.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c builtin.c -o builtin.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c character.c -o character.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c coerce.c -o coerce.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c colors.c -o colors.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c complex.c -o complex.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c connections.c -o connections.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c context.c -o context.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cum.c -o cum.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dcf.c -o dcf.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c datetime.c -o datetime.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c debug.c -o debug.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c deparse.c -o deparse.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devices.c -o devices.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dotcode.c -o dotcode.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dounzip.c -o dounzip.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dstruct.c -o dstruct.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c duplicate.c -o duplicate.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c edit.c -o edit.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c engine.c -o engine.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c envir.c -o envir.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c errors.c -o errors.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c eval.c -o eval.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c format.c -o format.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gevents.c -o gevents.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gram.c -o gram.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gram-ex.c -o gram-ex.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c graphics.c -o graphics.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c grep.c -o grep.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c identical.c -o identical.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c inlined.c -o inlined.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c inspect.c -o inspect.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c internet.c -o internet.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c iosupport.c -o iosupport.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lapack.c -o lapack.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c list.c -o list.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c localecharset.c -o localecharset.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c logic.c -o logic.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c main.c -o main.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mapply.c -o mapply.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c match.c -o match.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c memory.c -o memory.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c names.c -o names.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c objects.c -o objects.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c options.c -o options.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c paste.c -o paste.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c patterns.c -o patterns.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c platform.c -o platform.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot.c -o plot.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot3d.c -o plot3d.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plotmath.c -o plotmath.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c print.c -o print.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c printarray.c -o printarray.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c printvector.c -o printvector.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c printutils.c -o printutils.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qsort.c -o qsort.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c radixsort.c -o radixsort.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c random.c -o random.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c raw.c -o raw.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c registration.c -o registration.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c relop.c -o relop.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rlocale.c -o rlocale.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c saveload.c -o saveload.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c scan.c -o scan.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c seq.c -o seq.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c serialize.c -o serialize.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sort.c -o sort.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c source.c -o source.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c split.c -o split.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sprintf.c -o sprintf.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c startup.c -o startup.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c subassign.c -o subassign.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c subscript.c -o subscript.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c subset.c -o subset.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c summary.c -o summary.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sysutils.c -o sysutils.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c times.c -o times.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c unique.c -o unique.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o util.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c version.c -o version.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_alab_her.c -o g_alab_her.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_cntrlify.c -o g_cntrlify.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_fontdb.c -o g_fontdb.o gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_her_glyph.c -o g_her_glyph.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c xxxpr.f -o xxxpr.o gcc -shared -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -o libR.so CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o altclasses.o altrep.o apply.o arithmetic.o array.o attrib.o bind.o builtin.o character.o clippath.o coerce.o colors.o complex.o connections.o context.o cum.o dcf.o datetime.o debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o edit.o engine.o envir.o errors.o eval.o format.o gevents.o gram.o gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o main.o mapply.o mask.o match.o memory.o names.o objects.o options.o paste.o patterns.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o radixsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o xxxpr.o `ls ../unix/*.o ../appl/*.o ../nmath/*.o` ../extra/tre/libtre.a -lblas -lgfortran -lm -lquadmath -lreadline -lpcre2-8 -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n make[5]: Entering directory '/<>/src/main' mkdir -p -- /<>/bin/exec mkdir -p -- /<>/lib make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' gcc -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rmain.c -o Rmain.o gcc -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o R.bin Rmain.o -lR make[5]: Entering directory '/<>/src/main' make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' making Rhttpd.d from Rhttpd.c making Rsock.d from Rsock.c making internet.d from internet.c making libcurl.d from libcurl.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory '/<>/src/modules/internet' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c internet.c -o internet.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c sock.c -o sock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o sock.o sockconn.o -lcurl -lR make[6]: Entering directory '/<>/src/modules/internet' mkdir -p -- /<>/modules make[6]: Leaving directory '/<>/src/modules/internet' make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory '/<>/src/modules/lapack' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Lapack.c -o Lapack.o gcc -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o lapack.so Lapack.o -lR -llapack -lblas -lgfortran -lm -lquadmath make[6]: Entering directory '/<>/src/modules/lapack' make[6]: Leaving directory '/<>/src/modules/lapack' make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[5]: Entering directory '/<>/src/modules/X11' gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devX11.c -o devX11.o gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rotated.c -o rotated.o gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rbitmap.c -o rbitmap.o gcc -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff -L/build/libjpeg-turbo-6HlDLQ/libjpeg-turbo-2.0.3/obj-x86_64-linux-gnu/lib/x86_64-linux-gnu -ljpeg -lpng16 -lz -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dataentry.c -o dataentry.o gcc -shared -L"../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' mkdir -p -- ../../library make[4]: Entering directory '/<>/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' mkdir -p -- ../../../library/base/demo make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory '/<>/src/library/tools' mkdir -p -- ../../../library/tools/R make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' making text.d from text.c making init.d from init.c making Rmd5.d from Rmd5.c making md5.d from md5.c making signals.d from signals.c making install.d from install.c making getfmts.d from getfmts.c making http.d from http.c making gramLatex.d from gramLatex.c making gramRd.d from gramRd.c making pdscan.d from pdscan.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c text.c -o text.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rmd5.c -o Rmd5.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c md5.c -o md5.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c signals.c -o signals.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c install.c -o install.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c getfmts.c -o getfmts.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c http.c -o http.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gramLatex.c -o gramLatex.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gramRd.c -o gramRd.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pdscan.c -o pdscan.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o tools.so text.o init.o Rmd5.o md5.o signals.o install.o getfmts.o http.o gramLatex.o gramRd.o pdscan.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tools' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[5]: Entering directory '/<>/src/library/compiler' mkdir -p -- ../../../library/compiler/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' byte-compiling package 'compiler' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' byte-compiling package 'base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' byte-compiling package 'tools' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[5]: Entering directory '/<>/src/library/utils' mkdir -p -- ../../../library/utils/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' making init.d from init.c making io.d from io.c making size.d from size.c making sock.d from sock.c making stubs.d from stubs.c making utils.d from utils.c making hashtab.d from hashtab.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c io.c -o io.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c size.c -o size.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sock.c -o sock.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stubs.c -o stubs.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c hashtab.c -o hashtab.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o utils.so init.o io.o size.o sock.o stubs.o utils.o hashtab.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' byte-compiling package 'utils' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory '/<>/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/icc make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' making axis_scales.d from axis_scales.c making chull.d from chull.c making devices.d from devices.c making init.d from init.c making stubs.d from stubs.c making colors.d from colors.c making clippath.d from clippath.c making patterns.d from patterns.c making mask.d from mask.c making group.d from group.c making devCairo.d from devCairo.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c axis_scales.c -o axis_scales.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c chull.c -o chull.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devices.c -o devices.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stubs.c -o stubs.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c colors.c -o colors.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c patterns.c -o patterns.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c group.c -o group.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devCairo.c -o devCairo.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devPicTeX.c -o devPicTeX.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devPS.c -o devPS.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devQuartz.c -o devQuartz.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o grDevices.so axis_scales.o chull.o devices.o init.o stubs.o colors.o clippath.o patterns.o mask.o group.o devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' gcc -I. -I../../../../../src/include -I../../../../../src/include -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../../../src/modules/X11 -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cairoBM.c -o cairoBM.o gcc -shared -L"../../../../../lib" -Wl,-Bsymbolic-functions -Wl,-z,relro -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff -L/build/libjpeg-turbo-6HlDLQ/libjpeg-turbo-2.0.3/obj-x86_64-linux-gnu/lib/x86_64-linux-gnu -ljpeg -lpng16 -lz -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -L"../../../../../lib" -lR -lm make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' byte-compiling package 'grDevices' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory '/<>/src/library/graphics' mkdir -p -- ../../../library/graphics/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' making init.d from init.c making base.d from base.c making graphics.d from graphics.c making par.d from par.c making plot.d from plot.c making plot3d.d from plot3d.c making stem.d from stem.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c base.c -o base.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c graphics.c -o graphics.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c par.c -o par.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot.c -o plot.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot3d.c -o plot3d.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stem.c -o stem.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' byte-compiling package 'graphics' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory '/<>/src/library/stats' mkdir -p -- ../../../library/stats/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' making init.d from init.c making kmeans.d from kmeans.c making ansari.d from ansari.c making bandwidths.d from bandwidths.c making chisqsim.d from chisqsim.c making d2x2xk.d from d2x2xk.c making fexact.d from fexact.c making kendall.d from kendall.c making ks.d from ks.c making line.d from line.c making smooth.d from smooth.c making prho.d from prho.c making swilk.d from swilk.c making ksmooth.d from ksmooth.c making loessc.d from loessc.c making monoSpl.d from monoSpl.c making isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making dblcen.d from dblcen.c making distance.d from distance.c making hclust-utils.d from hclust-utils.c making nls.d from nls.c making rWishart.d from rWishart.c making HoltWinters.d from HoltWinters.c making PPsum.d from PPsum.c making arima.d from arima.c making burg.d from burg.c making filter.d from filter.c making mAR.d from mAR.c making pacf.d from pacf.c making starma.d from starma.c making port.d from port.c making family.d from family.c making sbart.d from sbart.c making approx.d from approx.c making loglin.d from loglin.c making lowess.d from lowess.c making massdist.d from massdist.c making splines.d from splines.c making lm.d from lm.c making complete_cases.d from complete_cases.c making cov.d from cov.c making deriv.d from deriv.c making fft.d from fft.c making fourier.d from fourier.c making model.d from model.c making optim.d from optim.c making optimize.d from optimize.c making integrate.d from integrate.c making random.d from random.c making distn.d from distn.c making zeroin.d from zeroin.c making rcont.d from rcont.c making influence.d from influence.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kmeans.c -o kmeans.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ansari.c -o ansari.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bandwidths.c -o bandwidths.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c chisqsim.c -o chisqsim.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c d2x2xk.c -o d2x2xk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fexact.c -o fexact.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kendall.c -o kendall.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ks.c -o ks.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c line.c -o line.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c smooth.c -o smooth.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c prho.c -o prho.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c swilk.c -o swilk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ksmooth.c -o ksmooth.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c loessc.c -o loessc.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c monoSpl.c -o monoSpl.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c isoreg.c -o isoreg.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Srunmed.c -o Srunmed.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dblcen.c -o dblcen.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c distance.c -o distance.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c hclust-utils.c -o hclust-utils.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c nls.c -o nls.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rWishart.c -o rWishart.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c HoltWinters.c -o HoltWinters.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c PPsum.c -o PPsum.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c arima.c -o arima.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c burg.c -o burg.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c filter.c -o filter.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mAR.c -o mAR.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pacf.c -o pacf.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c starma.c -o starma.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c port.c -o port.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c family.c -o family.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sbart.c -o sbart.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c approx.c -o approx.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c loglin.c -o loglin.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lowess.c -o lowess.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c massdist.c -o massdist.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c splines.c -o splines.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lm.c -o lm.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c complete_cases.c -o complete_cases.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cov.c -o cov.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c deriv.c -o deriv.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fft.c -o fft.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fourier.c -o fourier.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c model.c -o model.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c optim.c -o optim.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c optimize.c -o optimize.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c integrate.c -o integrate.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c random.c -o random.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c distn.c -o distn.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c zeroin.c -o zeroin.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rcont.c -o rcont.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c influence.c -o influence.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c bsplvd.f -o bsplvd.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c bvalue.f -o bvalue.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c bvalus.f -o bvalus.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c loessf.f -o loessf.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c ppr.f -o ppr.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c qsbart.f -o qsbart.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c sgram.f -o sgram.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c sinerp.f -o sinerp.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c sslvrg.f -o sslvrg.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c stxwx.f -o stxwx.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c hclust.f -o hclust.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c kmns.f -o kmns.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c eureka.f -o eureka.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c stl.f -o stl.o gfortran -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -msse2 -mfpmath=sse -c portsrc.f -o portsrc.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -c lminfl.f -o lminfl.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o complete_cases.o cov.o deriv.o fft.o fourier.o model.o optim.o optimize.o integrate.o random.o distn.o zeroin.o rcont.o influence.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o stl.o portsrc.o lminfl.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' byte-compiling package 'stats' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/datasets' mkdir -p -- ../../../library/datasets/data Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory '/<>/src/library/methods' mkdir -p -- ../../../library/methods/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' making do_substitute_direct.d from do_substitute_direct.c making init.d from init.c making methods_list_dispatch.d from methods_list_dispatch.c making slot.d from slot.c making class_support.d from class_support.c making tests.d from tests.c making utils.d from utils.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c do_substitute_direct.c -o do_substitute_direct.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c slot.c -o slot.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c class_support.c -o class_support.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tests.c -o tests.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o utils.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' byte-compiling package 'methods' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory initializing class and method definitions ... done make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[5]: Entering directory '/<>/src/library/grid' mkdir -p -- ../../../library/grid/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' making clippath.d from clippath.c making gpar.d from gpar.c making grid.d from grid.c making just.d from just.c making layout.d from layout.c making mask.d from mask.c making matrix.d from matrix.c making path.d from path.c making register.d from register.c making state.d from state.c making unit.d from unit.c making util.d from util.c making viewport.d from viewport.c gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gpar.c -o gpar.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c grid.c -o grid.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c just.c -o just.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c layout.c -o layout.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c matrix.c -o matrix.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c path.c -o path.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c register.c -o register.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c state.c -o state.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c unit.c -o unit.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o util.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c viewport.c -o viewport.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o grid.so clippath.o gpar.o grid.o just.o layout.o mask.o matrix.o path.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' byte-compiling package 'grid' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory '/<>/src/library/splines' mkdir -p -- ../../../library/splines/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' making splines.d from splines.c gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c splines.c -o splines.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' byte-compiling package 'splines' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory '/<>/src/library/stats4' mkdir -p -- ../../../library/stats4/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' byte-compiling package 'stats4' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory '/<>/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory mkdir -p -- ../../../library/tcltk/exec Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' making init.d from init.c making tcltk.d from tcltk.c making tcltk_unix.d from tcltk_unix.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tcltk.c -o tcltk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tcltk_unix.c -o tcltk_unix.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -L/usr/lib/x86_64-linux-gnu -ltk8.6 -lX11 -lXss -lXext -lm -L../../../../lib -lR make[6]: Entering directory '/<>/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' byte-compiling package 'tcltk' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[5]: Entering directory '/<>/src/library/parallel' mkdir -p -- ../../../library/parallel/R Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rngstream.c -o rngstream.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fork.c -o fork.o gcc -shared -L../../../../lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[7]: Entering directory '/<>/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' byte-compiling package 'parallel' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' you should 'make docs' now ... make[1]: Leaving directory '/<>' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ R_GZIPCMD="/bin/gzip -n" \ libRmath_la_LDFLAGS=-Wl,-soname,libRmath.so.1 \ shared static ) make[1]: Entering directory '/<>/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory '/<>/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/<>/src/include' Copying source files make[2]: Entering directory '/<>/src/nmath/standalone' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c making std_unif.d from std_unif.c make[2]: Leaving directory '/<>/src/nmath/standalone' make[2]: Entering directory '/<>/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fprec.c -o fprec.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fround.c -o fround.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sign.c -o sign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fsign.c -o fsign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imax2.c -o imax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imin2.c -o imin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c log1p.c -o log1p.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bd0.c -o bd0.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma.c -o gamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma_cody.c -o gamma_cody.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c beta.c -o beta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c cospi.c -o cospi.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_i.c -o bessel_i.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_j.c -o bessel_j.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_k.c -o bessel_k.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_y.c -o bessel_y.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c choose.c -o choose.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c snorm.c -o snorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sexp.c -o sexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dunif.c -o dunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c punif.c -o punif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qunif.c -o qunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c runif.c -o runif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c df.c -o df.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pf.c -o pf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qf.c -o qf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rf.c -o rf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnf.c -o dnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dt.c -o dt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pt.c -o pt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qt.c -o qt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rt.c -o rt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnt.c -o dnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dchisq.c -o dchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pchisq.c -o pchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qchisq.c -o qchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbinom.c -o pbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbinom.c -o qbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbinom.c -o rbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rmultinom.c -o rmultinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dcauchy.c -o dcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pcauchy.c -o pcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dexp.c -o dexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pexp.c -o pexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qexp.c -o qexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rexp.c -o rexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgeom.c -o dgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dhyper.c -o dhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c phyper.c -o phyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qhyper.c -o qhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rhyper.c -o rhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbinom.c -o dnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbinom.c -o pnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom.c -o qnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom_mu.c -o qnbinom_mu.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnbinom.c -o rnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dpois.c -o dpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ppois.c -o ppois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qpois.c -o qpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rpois.c -o rpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plogis.c -o plogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnf.c -o pnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnt.c -o pnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnf.c -o qnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnt.c -o qnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ptukey.c -o ptukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qtukey.c -o qtukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c toms708.c -o toms708.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c signrank.c -o signrank.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -shared -fopenmp -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRmath.so -Wl,-soname,libRmath.so.1 mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo cospi.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo qnbinom_mu.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo -lm make[2]: Leaving directory '/<>/src/nmath/standalone' make[2]: Entering directory '/<>/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c mlutils.c -o mlutils.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c d1mach.c -o d1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c i1mach.c -o i1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmax2.c -o fmax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmin2.c -o fmin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fprec.c -o fprec.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fround.c -o fround.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sign.c -o sign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fsign.c -o fsign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imax2.c -o imax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imin2.c -o imin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c log1p.c -o log1p.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gammalims.c -o gammalims.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bd0.c -o bd0.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma.c -o gamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgamma.c -o lgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c beta.c -o beta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lbeta.c -o lbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c polygamma.c -o polygamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c cospi.c -o cospi.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c choose.c -o choose.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c snorm.c -o snorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sexp.c -o sexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgamma.c -o dgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgamma.c -o pgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgamma.c -o qgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgamma.c -o rgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbeta.c -o dbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbeta.c -o pbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbeta.c -o qbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbeta.c -o rbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dunif.c -o dunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c punif.c -o punif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qunif.c -o qunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c runif.c -o runif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnorm.c -o dnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnorm.c -o pnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnorm.c -o qnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnorm.c -o rnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plnorm.c -o plnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c df.c -o df.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pf.c -o pf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qf.c -o qf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rf.c -o rf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnf.c -o dnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dt.c -o dt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pt.c -o pt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qt.c -o qt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rt.c -o rt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnt.c -o dnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dchisq.c -o dchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pchisq.c -o pchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qchisq.c -o qchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rchisq.c -o rchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbinom.c -o dbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbinom.c -o pbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbinom.c -o qbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbinom.c -o rbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pcauchy.c -o pcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qcauchy.c -o qcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rcauchy.c -o rcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dexp.c -o dexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pexp.c -o pexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qexp.c -o qexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rexp.c -o rexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgeom.c -o dgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgeom.c -o pgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgeom.c -o qgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgeom.c -o rgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dhyper.c -o dhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c phyper.c -o phyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qhyper.c -o qhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rhyper.c -o rhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom_mu.c -o qnbinom_mu.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dpois.c -o dpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ppois.c -o ppois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qpois.c -o qpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rpois.c -o rpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dweibull.c -o dweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pweibull.c -o pweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qweibull.c -o qweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rweibull.c -o rweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlogis.c -o dlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plogis.c -o plogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlogis.c -o qlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlogis.c -o rlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnchisq.c -o dnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnchisq.c -o pnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnchisq.c -o qnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbeta.c -o dnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbeta.c -o pnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbeta.c -o qnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnf.c -o pnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnt.c -o pnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnf.c -o qnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnt.c -o qnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ptukey.c -o ptukey.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qtukey.c -o qtukey.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c toms708.c -o toms708.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c wilcox.c -o wilcox.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c signrank.c -o signrank.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c std_unif.c -o std_unif.o ar -cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o ranlib libRmath.a make[2]: Leaving directory '/<>/src/nmath/standalone' make[1]: Leaving directory '/<>/src/nmath/standalone' R_GZIPCMD="/bin/gzip -n" \ /usr/bin/make docs R_CMD_BUILD_HELP_OPTS="--txt --example" make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving 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'/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/lib/libR.so is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/bin/exec/R is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' make[5]: Entering directory '/<>/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[5]: Entering directory '/<>/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' /<>/modules/R_X11.so is unchanged /<>/modules/R_de.so is unchanged make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' make[4]: Entering directory '/<>/src/library/profile' building system startup profile make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' all.R is unchanged make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' make[5]: Entering directory '/<>/src/library/tools' all.R is unchanged make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' make[7]: Entering directory '/<>/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tools' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' make[5]: Entering directory '/<>/src/library/compiler' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' make[5]: Entering directory '/<>/src/library/utils' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' make[7]: Entering directory '/<>/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/<>/src/library/grDevices' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' make[7]: Entering directory '/<>/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' you should 'make docs' now ... make[2]: Entering directory '/<>/doc' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory creating doc/NEWS Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory creating doc/NEWS.pdf Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Entering directory '/<>/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory creating doc/manual/R-admin.html creating doc/manual/R-data.html creating doc/manual/R-exts.html creating doc/manual/R-intro.html creating doc/manual/R-ints.html creating doc/manual/R-lang.html make[4]: Entering directory '/<>/doc/html' make[4]: Leaving directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' installing parsed Rd make[4]: Entering directory '/<>/src/library' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory base Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory stats Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory utils Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory methods Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory graphics Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory grDevices Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory datasets Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory grid Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory tools Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory tcltk Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory splines Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory stats4 Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory compiler Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory parallel make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' building/updating package metadata ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' writing package indices make[4]: Entering directory '/<>/src/library' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src/library' make[1]: Leaving directory '/<>' /usr/bin/make javaconf make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' make[4]: Entering directory '/<>/src/scripts' make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[4]: Entering directory '/<>/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/<>/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[4]: Entering directory '/<>/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/lib/libR.so is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/bin/exec/R is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' make[5]: Entering directory '/<>/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[5]: Entering directory '/<>/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' /<>/modules/R_X11.so is unchanged /<>/modules/R_de.so is unchanged make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' make[4]: Entering directory '/<>/src/library/profile' building system startup profile make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' all.R is unchanged make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' make[5]: Entering directory '/<>/src/library/tools' all.R is unchanged make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' make[7]: Entering directory '/<>/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tools' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' make[5]: Entering directory '/<>/src/library/compiler' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' make[5]: Entering directory '/<>/src/library/utils' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' make[7]: Entering directory '/<>/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/<>/src/library/grDevices' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' make[7]: Entering directory '/<>/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>' configuring Java ... Java interpreter : /usr/lib/jvm/default-java/bin/java Java version : 11.0.15 Java home path : /usr/lib/jvm/default-java Java compiler : /usr/lib/jvm/default-java/bin/javac Java headers gen.: Java archive tool: /usr/lib/jvm/default-java/bin/jar trying to compile and link a JNI program detected JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux detected JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Entering directory '/tmp/Rjavareconf.g15O2n' gcc -I"/<>/include" -DNDEBUG -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c conftest.c -o conftest.o gcc -shared -L/<>/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o conftest.so conftest.o -L/usr/lib/jvm/default-java/lib/server -ljvm -L/<>/lib -lR make[3]: Leaving directory '/tmp/Rjavareconf.g15O2n' JAVA_HOME : /usr/lib/jvm/default-java Java library path: $(JAVA_HOME)/lib/server JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Updating Java configuration in /<> Done. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' touch make-arch-stamp *** make-indep *** /usr/bin/make -k docs make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' make[4]: Entering directory '/<>/src/scripts' make[4]: Leaving directory '/<>/src/scripts' make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[5]: Entering directory '/<>/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/<>/src/extra/tre' make[4]: Leaving directory '/<>/src/extra/tre' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[4]: Entering directory '/<>/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/<>/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[4]: Entering directory '/<>/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/<>/src/nmath' make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/<>/src/unix' make[4]: Entering directory '/<>/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/<>"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/<>/src/unix' make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/lib/libR.so is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' make[5]: Entering directory '/<>/src/main' /<>/bin/exec/R is unchanged make[5]: Leaving directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' make[5]: Entering directory '/<>/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/<>/src/modules/internet' make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[5]: Entering directory '/<>/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/<>/src/modules/X11' make[5]: Entering directory '/<>/src/modules/X11' /<>/modules/R_X11.so is unchanged /<>/modules/R_de.so is unchanged make[5]: Leaving directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' make[4]: Entering directory '/<>/src/library/profile' building system startup profile make[4]: Leaving directory '/<>/src/library/profile' make[4]: Entering directory '/<>/src/library/translations' building package 'translations' make[5]: Entering directory '/<>/src/library/translations' make[5]: Leaving directory '/<>/src/library/translations' make[4]: Leaving directory '/<>/src/library/translations' make[4]: Entering directory '/<>/src/library/base' building package 'base' make[5]: Entering directory '/<>/src/library/base' all.R is unchanged make[5]: Leaving directory '/<>/src/library/base' make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' building package 'tools' make[5]: Entering directory '/<>/src/library/tools' all.R is unchanged make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' make[6]: Entering directory '/<>/src/library/tools/src' make[7]: Entering directory '/<>/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/<>/src/library/tools/src' make[6]: Leaving directory '/<>/src/library/tools/src' make[5]: Leaving directory '/<>/src/library/tools' make[5]: Entering directory '/<>/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tools' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/compiler' building package 'compiler' make[5]: Entering directory '/<>/src/library/compiler' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/compiler' make[5]: Entering directory '/<>/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/compiler' make[4]: Leaving directory '/<>/src/library/compiler' make[4]: Entering directory '/<>/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/base' make[4]: Entering directory '/<>/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/<>/src/library/tools' make[4]: Entering directory '/<>/src/library/utils' building package 'utils' make[5]: Entering directory '/<>/src/library/utils' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[6]: Entering directory '/<>/src/library/utils/src' make[7]: Entering directory '/<>/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/<>/src/library/utils/src' make[6]: Leaving directory '/<>/src/library/utils/src' make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/utils' make[5]: Entering directory '/<>/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/utils' make[4]: Leaving directory '/<>/src/library/utils' make[4]: Entering directory '/<>/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/<>/src/library/grDevices' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[6]: Entering directory '/<>/src/library/grDevices/src' make[7]: Entering directory '/<>/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/<>/src/library/grDevices/src/cairo' make[9]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: Entering directory '/<>/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[9]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[8]: Leaving directory '/<>/src/library/grDevices/src/cairo' make[7]: Leaving directory '/<>/src/library/grDevices/src' make[6]: Leaving directory '/<>/src/library/grDevices/src' make[5]: Leaving directory '/<>/src/library/grDevices' make[5]: Entering directory '/<>/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/manual' make[4]: Entering directory '/<>/doc/html' make[4]: Leaving directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' installing parsed Rd make[4]: Entering directory '/<>/src/library' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory base Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory stats Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory utils Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory methods Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory graphics Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory grDevices Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory datasets Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory grid Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory tools Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory tcltk Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory splines Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory stats4 Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory compiler Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory parallel make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' building/updating package metadata ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[3]: Entering directory '/<>/src/library' writing package indices make[4]: Entering directory '/<>/src/library' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library' make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src/library' make[1]: Leaving directory '/<>' (cd doc/manual && /usr/bin/make html) make[1]: Entering directory '/<>/doc/manual' make[2]: Entering directory '/<>/doc/html' make[2]: Leaving directory '/<>/doc/html' make[1]: Leaving directory '/<>/doc/manual' /usr/bin/make info make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/manual' /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. 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R-lang.texi make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[1]: Leaving directory '/<>' (cd doc/manual && \ /usr/bin/make refman.pdf R-admin.pdf R-data.pdf R-exts.pdf \ R-FAQ.pdf R-intro.pdf R-ints.pdf R-lang.pdf) make[1]: Entering directory '/<>/doc/manual' creating doc/manual/version.tex Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory collecting LaTeX docs for package 'base' ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Converting parsed Rd's to LaTeX ........................................... 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(/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] Underfull \hbox (badness 6252) in paragraph at lines 143--151 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . 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First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14099--14101 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14175--14179 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14219--14221 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14321--14326 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14368--14371 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14499--14503 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14510--14513 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14807--14811 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15588--15591 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15694--15696 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15767--15771 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16379--16383 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16379--16383 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16552--16557 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16805--16809 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18257--18260 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18529--18531 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18535--18544 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19143--19145 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19474--19480 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19719--19722 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19982--19984 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20209--20212 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21066--21071 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21154--21163 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21164--21179 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21214--21217 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21214--21217 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21348--21353 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22197--22205 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22231--22234 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23028--23030 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24941--24944 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25148--25154 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25538--25541 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26159--26161 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27054--27057 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27078--27080 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27219--27223 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27276--27281 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27583--27586 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27609--27611 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27651--27656 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27669--27672 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28069--28073 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28216--28219 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28297--28301 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28297--28301 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28302--28311 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29298--29301 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30048--30051 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31085--31088 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31248--31259 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32932--32934 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32935--32939 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33529--33531 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34735--34740 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35855--35866 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37386--37388 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37806--37810 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38052--38056 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38057--38061 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38112--38119 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38347--38351 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38500--38506 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39801--39803 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40391--40397 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40410--40415 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40530--40535 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41077--41080 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 42003--42007 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42254--42257 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42438--42442 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43064--43067 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43986--43994 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43986--43994 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44955--44961 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45353--45355 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45483--45487 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45691--45696 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45937--45939 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46302--46306 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46363--46367 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] Underfull \vbox (badness 1448) has occurred while \output is active [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] Overfull \vbox (19.74611pt too high) has occurred while \output is active [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \vbox (badness 10000) has occurred while \output is active [787] [788] [789] [790] Underfull \vbox (badness 10000) has occurred while \output is active [791] [792] [793] [794] [795] [796] [797] [798] [799] [800]) (./grDevices-pkg.tex Chapter 4. [801] [802] [803] [804] [805] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [816] [817] [818] [819] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [820] [821] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [822] [823] [824] [825] [826] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [827] [828] [829] [830] [831] [832] [833] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [834] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [835] [836] [837] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [838] [839] [840] [841] [842] [843] [844] [845] [846] [847] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] Underfull \vbox (badness 3803) has occurred while \output is active [860] [861] [862] [863] Underfull \vbox (badness 3803) has occurred while \output is active [864] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \vbox (badness 3803) has occurred while \output is active [877] [878] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [879] [880] [881] [882] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [883] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [884] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [885] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [886] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [887] Underfull \vbox (badness 3803) has occurred while \output is active [888] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [889] [890] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [891] [892] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [893] [894] [895] [896] [897] [898] [899] [900] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [901] [902] Underfull \vbox (badness 3803) has occurred while \output is active [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [915] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [916] [917] [918] [919] [920] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [921] [922] [923] [924] [925] [926]) (./graphics-pkg.tex Chapter 5. [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [943] [944] [945] [946] [947] [948] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [966] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] Underfull \vbox (badness 10000) has occurred while \output is active [990] Underfull \vbox (badness 10000) has occurred while \output is active [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1003] [1004] [1005] [1006] [1007] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1008] [1009] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1010 >/library/graphics/help/figures/mai.pdf> ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1011] [1012 >/library/graphics/help/figures/oma.pdf> ] [1013] [1014] Underfull \vbox (badness 3803) has occurred while \output is active [1015] [1016] [1017] [1018] [1019] [1020] [1021]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1036 >/library/graphics/help/figures/pch.pdf> ] [1037] Underfull \vbox (badness 3803) has occurred while \output is active [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1071]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1072] [1073] [1074] [1075]) (./grid-pkg.tex [1076] Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1086] [1087] [1088] [1089] [1090] Overfull \vbox (10.43605pt too high) has occurred while \output is active [1091] [1092] [1093] [1094] [1095] [1096] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1157] [1158] [1159] [1160] [1161] [1162] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1163] [1164] [1165] [1166] [1167] [1168] [1169] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1170] [1171] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203]) (./methods-pkg.tex [1204] Chapter 7. [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] Underfull \vbox (badness 10000) has occurred while \output is active [1213] Underfull \vbox (badness 10000) has occurred while \output is active [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1233] [1234] [1235] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1236] [1237] [1238] [1239] [1240] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1241] [1242] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1243] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1244] [1245] [1246] [1247] [1248] [1249] [1250] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1251] [1252] [1253] [1254] [1255] [1256] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1257] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1258] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \vbox (badness 10000) has occurred while \output is active [1279] [1280] [1281] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1282] [1283] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1284] [1285] [1286] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1296] [1297] [1298] [1299] Underfull \vbox (badness 10000) has occurred while \output is active [1300] [1301] [1302]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1303] [1304] [1305]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1306] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1307] [1308] [1309] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] Underfull \vbox (badness 10000) has occurred while \output is active [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1352] [1353] [1354] [1355]) (./parallel-pkg.tex [1356] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1379] [1380] [1381]) (./splines-pkg.tex [1382] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398]) (./stats-pkg.tex Chapter 10. [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1485] [1486] [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1518] [1519] [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] Underfull \vbox (badness 10000) has occurred while \output is active [1540] [1541] [1542] [1543] [1544] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1545] [1546] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1568] [1569] [1570] [1571] [1572] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1573] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1574] [1575] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1588] [1589] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1600] [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1606] [1607] [1608] [1609] [1610] [1611] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1612] [1613] [1614] [1615] [1616] [1617] [1618] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1629] [1630] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1649] [1650] Underfull \vbox (badness 10000) has occurred while \output is active [1651] [1652] [1653] [1654] [1655] [1656] [1657] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1684] [1685] Underfull \vbox (badness 3803) has occurred while \output is active [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Underfull \vbox (badness 10000) has occurred while \output is active [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1702] [1703] [1704] Underfull \vbox (badness 10000) has occurred while \output is active [1705] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1706] [1707] [1708] [1709] [1710] [1711] [1712] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1713] [1714] [1715] [1716] [1717] [1718] [1719] [1720] [1721] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1722] [1723] [1724] [1725] [1726] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1733] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1775] [1776] [1777] [1778] [1779] [1780] [1781] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1782] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1783] [1784] [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1799] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1800] Underfull \vbox (badness 3803) has occurred while \output is active [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1809] [1810] [1811] [1812] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] Underfull \vbox (badness 10000) has occurred while \output is active [1838] [1839] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1840] [1841] [1842] [1843] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1844] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1845] [1846] [1847] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1851] [1852] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1873] [1874] [1875] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1876] [1877] [1878] [1879] [1880] [1881] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1882] [1883] [1884] [1885] [1886] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1906] [1907] [1908] Underfull \vbox (badness 10000) has occurred while \output is active [1909] [1910] [1911] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1912] [1913] [1914] [1915] [1916] [1917] [1918] [1919] [1920] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1921] [1922] [1923] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1924] [1925] [1926] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1927] [1928] [1929] [1930] [1931]) (./stats4-pkg.tex [1932] Chapter 11. [1933] [1934] [1935] Underfull \vbox (badness 10000) has occurred while \output is active [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1941] [1942] [1943]) (./tcltk-pkg.tex [1944] Chapter 12. [1945] [1946] [1947] [1948] [1949] [1950] [1951] Underfull \vbox (badness 10000) has occurred while \output is active [1952] Underfull \vbox (badness 10000) has occurred while \output is active [1953] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1954] [1955] [1956] [1957] [1958] Underfull \vbox (badness 10000) has occurred while \output is active [1959] [1960] [1961] [1962] [1963] [1964] [1965] [1966]) (./tools-pkg.tex Chapter 13. [1967] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1968] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1969] [1970] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1971] [1972] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1973] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1974] [1975] [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1986] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1987] [1988] [1989] [1990] [1991] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1992] Underfull \hbox (badness 10000) in paragraph at lines 1595--1598 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1993] [1994] Underfull \hbox (badness 4096) in paragraph at lines 1714--1722 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1724--1726 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1995] [1996] [1997]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1998] [1999] [2000] [2001] [2002] [2003] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2229--2229 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2004] [2005] [2006] Underfull \hbox (badness 4096) in paragraph at lines 2398--2406 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2007] [2008] [2009] [2010] [2011] [2012] [2013] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2892. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1424) in paragraph at lines 3195--3197 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] Underfull \hbox (badness 10000) in paragraph at lines 3897--3899 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 4036--4039 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2032] [2033] Underfull \hbox (badness 1137) in paragraph at lines 4138--4140 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1796) in paragraph at lines 4446--4451 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2039] Underfull \hbox (badness 4699) in paragraph at lines 4496--4500 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4496--4500 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4524--4530 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4524--4530 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 2197) in paragraph at lines 4799--4809 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4865--4869 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2045] [2046] [2047] [2048]) (./utils-pkg.tex Chapter 14. [2049] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2060] [2061] [2062] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2063] [2064] [2065] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2066] [2067] [2068] [2069] [2070] [2071] [2072] [2073] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2074] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2075] [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2085] [2086] [2087] [2088] [2089] [2090]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2710 ... the Clipboard in MS Windows}{clipboard} [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] Underfull \hbox (badness 6842) in paragraph at lines 4007--4012 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2111] Underfull \hbox (badness 1430) in paragraph at lines 4070--4078 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2112] [2113] [2114] Underfull \hbox (badness 10000) in paragraph at lines 4275--4277 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2115] [2116] [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} [2127] [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 1622) in paragraph at lines 5567--5571 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2136] [2137] [2138] [2139] [2140] [2141] Underfull \hbox (badness 1448) in paragraph at lines 5946--5951 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6492. Underfull \hbox (badness 1371) in paragraph at lines 6496--6498 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2150] Underfull \hbox (badness 1502) in paragraph at lines 6585--6590 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6585--6590 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2151] [2152] [2153] Underfull \hbox (badness 10000) in paragraph at lines 6758--6767 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2154] Underfull \hbox (badness 2150) in paragraph at lines 6822--6825 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2155] [2156] Underfull \hbox (badness 3118) in paragraph at lines 6961--6963 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2157] [2158] [2159] Underfull \hbox (badness 1325) in paragraph at lines 7140--7144 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2160] Underfull \hbox (badness 1424) in paragraph at lines 7232--7235 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2161] Underfull \hbox (badness 3219) in paragraph at lines 7303--7310 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7303--7310 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7311--7314 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2162] Underfull \hbox (badness 1024) in paragraph at lines 7438--7441 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2163] Underfull \hbox (badness 10000) in paragraph at lines 7471--7476 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] Underfull \hbox (badness 10000) in paragraph at lines 8175--8177 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] Underfull \hbox (badness 2310) in paragraph at lines 8935--8940 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] Underfull \hbox (badness 1248) in paragraph at lines 9461--9465 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2196] Underfull \hbox (badness 1789) in paragraph at lines 9541--9543 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 1097) in paragraph at lines 10378--10381 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2210] [2211] Underfull \hbox (badness 3000) in paragraph at lines 10514--10519 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 2134) in paragraph at lines 11103--11108 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2221] Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] Underfull \hbox (badness 2469) in paragraph at lines 11653--11657 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11653--11657 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2230] [2231] [2232] [2233] [2234] [2235] Underfull \hbox (badness 4060) in paragraph at lines 12077--12080 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12100--12100 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2236] [2237] [2238] [2239] Underfull \hbox (badness 2150) in paragraph at lines 12355--12357 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2240] [2241] [2242] [2243] Underfull \hbox (badness 10000) in paragraph at lines 12575--12579 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12608--12614 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2244] Underfull \hbox (badness 2762) in paragraph at lines 12623--12631 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2245] [2246] Underfull \hbox (badness 1009) in paragraph at lines 12802--12814 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12842--12844 []\T1/ptm/m/n/10 The file `\T1/zi4/m/it/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/it/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2247] Underfull \hbox (badness 1077) in paragraph at lines 12872--12879 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2248] [2249] [2250] [2251] [2252] [2253] [2254] Underfull \hbox (badness 3780) in paragraph at lines 13280--13284 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/it/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 13296--13299 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/it/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2255] [2256] [2257] Underfull \hbox (badness 2302) in paragraph at lines 13501--13503 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2258] [2259] [2260] [2261] [2262] Underfull \hbox (badness 10000) in paragraph at lines 13800--13805 []\T1/ptm/m/n/10 logical; if []\T1/zi4/m/it/10 TRUE []\T1/ptm/m/n/10 (de-fault) , [][][]\T1/zi4/m/it/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13809--13812 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2263] [2264] [2265] [2266] [2267] [2268] [2269] Underfull \hbox (badness 2932) in paragraph at lines 14242--14249 []\T1/ptm/m/n/10 If []\T1/zi4/m/it/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fa ult) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 14242--14249 \T1/ptm/m/n/10 and se-lected if their []\T1/zi4/m/it/10 extension []\T1/ptm/m/n /10 com-po-nent matches (as a reg-exp) the file name. Ob- [2270] [2271] [2272] Underfull \hbox (badness 1460) in paragraph at lines 14407--14415 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). 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Output written on tctt0900.600gf (128 characters, 17564 bytes). Transcript written on tctt0900.log. mktexpk: /tmp/texfonts/pk/ljfour/jknappen/ec/tctt0900.600pk: successfully generated. {/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/ usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-t1-0.enc} Output written on refman.pdf (2303 pages, 5776044 bytes). Transcript written on refman.log. This is makeindex, version 2.15 [TeX Live 2019] (kpathsea + Thai support). Scanning input file refman.idx..................done (14737 entries accepted, 36 rejected). Sorting entries...........................................................................................................................................................done (227925 comparisons). Generating output file refman.ind.................done (14699 lines written, 58 warnings). Output written in refman.ind. Transcript written in refman.ilg. 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 143--151 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 143--151 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 328--331 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 567--573 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1578--1584 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2056--2056 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 1721) in paragraph at lines 2720--2724 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 3901--3903 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Underfull \hbox (badness 2521) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6387--6387 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] Underfull \hbox (badness 1303) in paragraph at lines 7281--7288 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14099--14101 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14175--14179 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14219--14221 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14321--14326 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14368--14371 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14499--14503 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14510--14513 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14807--14811 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15588--15591 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15694--15696 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15767--15771 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16379--16383 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16379--16383 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16552--16557 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16805--16809 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18257--18260 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18529--18531 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18535--18544 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19143--19145 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19474--19480 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19719--19722 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19982--19984 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20209--20212 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21066--21071 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21154--21163 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21164--21179 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21214--21217 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21214--21217 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21348--21353 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22197--22205 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22231--22234 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23028--23030 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24941--24944 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25148--25154 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25538--25541 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26159--26161 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27054--27057 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27078--27080 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27219--27223 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27276--27281 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27583--27586 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27609--27611 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27651--27656 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27669--27672 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28069--28073 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28216--28219 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28297--28301 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28297--28301 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28302--28311 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29298--29301 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30048--30051 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31085--31088 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31248--31259 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32932--32934 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32935--32939 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33529--33531 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34735--34740 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35855--35866 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37386--37388 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37806--37810 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38052--38056 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38057--38061 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38112--38119 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38347--38351 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38500--38506 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39801--39803 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40391--40397 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40410--40415 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40530--40535 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41077--41080 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 42003--42007 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42254--42257 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42438--42442 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43064--43067 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43986--43994 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43986--43994 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44955--44961 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45353--45355 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45483--45487 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45691--45696 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45937--45939 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46302--46306 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46363--46367 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] Underfull \vbox (badness 1448) has occurred while \output is active [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] Overfull \vbox (19.74611pt too high) has occurred while \output is active [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \vbox (badness 10000) has occurred while \output is active [787] [788] [789] [790] Underfull \vbox (badness 10000) has occurred while \output is active [791] [792] [793] [794] [795] [796] [797] [798] [799] [800]) (./grDevices-pkg.tex Chapter 4. [801] [802] [803] [804] [805] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [816] [817] [818] [819] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [820] [821] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [822] [823] [824] [825] [826] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [827] [828] [829] [830] [831] [832] [833] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [834] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [835] [836] [837] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [838] [839] [840] [841] [842] [843] [844] [845] [846] [847] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] Underfull \vbox (badness 3803) has occurred while \output is active [860] [861] [862] [863] Underfull \vbox (badness 3803) has occurred while \output is active [864] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \vbox (badness 3803) has occurred while \output is active [877] [878] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [879] [880] [881] [882] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [883] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [884] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [885] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [886] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [887] Underfull \vbox (badness 3803) has occurred while \output is active [888] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [889] [890] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [891] [892] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [893] [894] [895] [896] [897] [898] [899] [900] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [901] [902] Underfull \vbox (badness 3803) has occurred while \output is active [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [915] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [916] [917] [918] [919] [920] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [921] [922] [923] [924] [925] [926]) (./graphics-pkg.tex Chapter 5. [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [943] [944] [945] [946] [947] [948] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [966] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] Underfull \vbox (badness 10000) has occurred while \output is active [990] Underfull \vbox (badness 10000) has occurred while \output is active [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1003] [1004] [1005] [1006] [1007] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1008] [1009] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1010 >/library/graphics/help/figures/mai.pdf> ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1011] [1012 >/library/graphics/help/figures/oma.pdf> ] [1013] [1014] Underfull \vbox (badness 3803) has occurred while \output is active [1015] [1016] [1017] [1018] [1019] [1020] [1021]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1036 >/library/graphics/help/figures/pch.pdf> ] [1037] Underfull \vbox (badness 3803) has occurred while \output is active [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1071]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1072] [1073] [1074] [1075]) (./grid-pkg.tex [1076] Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1086] [1087] [1088] [1089] [1090] Overfull \vbox (10.43605pt too high) has occurred while \output is active [1091] [1092] [1093] [1094] [1095] [1096] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1157] [1158] [1159] [1160] [1161] [1162] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1163] [1164] [1165] [1166] [1167] [1168] [1169] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1170] [1171] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203]) (./methods-pkg.tex [1204] Chapter 7. [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] Underfull \vbox (badness 10000) has occurred while \output is active [1213] Underfull \vbox (badness 10000) has occurred while \output is active [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1233] [1234] [1235] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1236] [1237] [1238] [1239] [1240] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1241] [1242] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1243] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1244] [1245] [1246] [1247] [1248] [1249] [1250] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1251] [1252] [1253] [1254] [1255] [1256] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1257] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1258] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \vbox (badness 10000) has occurred while \output is active [1279] [1280] [1281] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1282] [1283] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1284] [1285] [1286] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1296] [1297] [1298] [1299] Underfull \vbox (badness 10000) has occurred while \output is active [1300] [1301] [1302]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1303] [1304] [1305]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1306] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1307] [1308] [1309] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] Underfull \vbox (badness 10000) has occurred while \output is active [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1352] [1353] [1354] [1355]) (./parallel-pkg.tex [1356] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1379] [1380] [1381]) (./splines-pkg.tex [1382] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398]) (./stats-pkg.tex Chapter 10. [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1485] [1486] [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1518] [1519] [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] Underfull \vbox (badness 10000) has occurred while \output is active [1540] [1541] [1542] [1543] [1544] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1545] [1546] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1568] [1569] [1570] [1571] [1572] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1573] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1574] [1575] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1588] [1589] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1600] [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1606] [1607] [1608] [1609] [1610] [1611] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1612] [1613] [1614] [1615] [1616] [1617] [1618] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1629] [1630] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1649] [1650] Underfull \vbox (badness 10000) has occurred while \output is active [1651] [1652] [1653] [1654] [1655] [1656] [1657] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1684] [1685] Underfull \vbox (badness 3803) has occurred while \output is active [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Underfull \vbox (badness 10000) has occurred while \output is active [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1702] [1703] [1704] Underfull \vbox (badness 10000) has occurred while \output is active [1705] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1706] [1707] [1708] [1709] [1710] [1711] [1712] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1713] [1714] [1715] [1716] [1717] [1718] [1719] [1720] [1721] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1722] [1723] [1724] [1725] [1726] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1733] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1775] [1776] [1777] [1778] [1779] [1780] [1781] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1782] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1783] [1784] [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1799] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1800] Underfull \vbox (badness 3803) has occurred while \output is active [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1809] [1810] [1811] [1812] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] Underfull \vbox (badness 10000) has occurred while \output is active [1838] [1839] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1840] [1841] [1842] [1843] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1844] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1845] [1846] [1847] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1851] [1852] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1873] [1874] [1875] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1876] [1877] [1878] [1879] [1880] [1881] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1882] [1883] [1884] [1885] [1886] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1906] [1907] [1908] Underfull \vbox (badness 10000) has occurred while \output is active [1909] [1910] [1911] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1912] [1913] [1914] [1915] [1916] [1917] [1918] [1919] [1920] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1921] [1922] [1923] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1924] [1925] [1926] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1927] [1928] [1929] [1930] [1931]) (./stats4-pkg.tex [1932] Chapter 11. [1933] [1934] [1935] Underfull \vbox (badness 10000) has occurred while \output is active [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1941] [1942] [1943]) (./tcltk-pkg.tex [1944] Chapter 12. [1945] [1946] [1947] [1948] [1949] [1950] [1951] Underfull \vbox (badness 10000) has occurred while \output is active [1952] Underfull \vbox (badness 10000) has occurred while \output is active [1953] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1954] [1955] [1956] [1957] [1958] Underfull \vbox (badness 10000) has occurred while \output is active [1959] [1960] [1961] [1962] [1963] [1964] [1965] [1966]) (./tools-pkg.tex Chapter 13. [1967] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1968] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1969] [1970] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1971] [1972] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1973] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1974] [1975] [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1986] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1987] [1988] [1989] [1990] [1991] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1992] Underfull \hbox (badness 10000) in paragraph at lines 1595--1598 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1993] [1994] Underfull \hbox (badness 4096) in paragraph at lines 1714--1722 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1724--1726 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1995] [1996] [1997]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1998] [1999] [2000] [2001] [2002] [2003] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2229--2229 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2004] [2005] [2006] Underfull \hbox (badness 4096) in paragraph at lines 2398--2406 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2007] [2008] [2009] [2010] [2011] [2012] [2013] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2892. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1424) in paragraph at lines 3195--3197 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] Underfull \hbox (badness 10000) in paragraph at lines 3897--3899 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 4036--4039 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2032] [2033] Underfull \hbox (badness 1137) in paragraph at lines 4138--4140 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1796) in paragraph at lines 4446--4451 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2039] Underfull \hbox (badness 4699) in paragraph at lines 4496--4500 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4496--4500 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4524--4530 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4524--4530 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 2197) in paragraph at lines 4799--4809 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4865--4869 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2045] [2046] [2047] [2048]) (./utils-pkg.tex Chapter 14. [2049] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2060] [2061] [2062] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2063] [2064] [2065] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2066] [2067] [2068] [2069] [2070] [2071] [2072] [2073] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2074] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2075] [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2085] [2086] [2087] [2088] [2089] [2090]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2710 ... the Clipboard in MS Windows}{clipboard} [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] Underfull \hbox (badness 6842) in paragraph at lines 4007--4012 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2111] Underfull \hbox (badness 1430) in paragraph at lines 4070--4078 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2112] [2113] [2114] Underfull \hbox (badness 10000) in paragraph at lines 4275--4277 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2115] [2116] [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} [2127] [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 1622) in paragraph at lines 5567--5571 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2136] [2137] [2138] [2139] [2140] [2141] Underfull \hbox (badness 1448) in paragraph at lines 5946--5951 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6492. Underfull \hbox (badness 1371) in paragraph at lines 6496--6498 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2150] Underfull \hbox (badness 1502) in paragraph at lines 6585--6590 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6585--6590 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2151] [2152] [2153] Underfull \hbox (badness 10000) in paragraph at lines 6758--6767 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2154] Underfull \hbox (badness 2150) in paragraph at lines 6822--6825 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2155] [2156] Underfull \hbox (badness 3118) in paragraph at lines 6961--6963 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2157] [2158] [2159] Underfull \hbox (badness 1325) in paragraph at lines 7140--7144 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2160] Underfull \hbox (badness 1424) in paragraph at lines 7232--7235 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2161] Underfull \hbox (badness 3219) in paragraph at lines 7303--7310 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7303--7310 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7311--7314 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2162] Underfull \hbox (badness 1024) in paragraph at lines 7438--7441 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2163] Underfull \hbox (badness 10000) in paragraph at lines 7471--7476 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] Underfull \hbox (badness 10000) in paragraph at lines 8175--8177 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] Underfull \hbox (badness 2310) in paragraph at lines 8935--8940 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] Underfull \hbox (badness 1248) in paragraph at lines 9461--9465 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2196] Underfull \hbox (badness 1789) in paragraph at lines 9541--9543 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 1097) in paragraph at lines 10378--10381 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2210] [2211] Underfull \hbox (badness 3000) in paragraph at lines 10514--10519 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 2134) in paragraph at lines 11103--11108 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2221] Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] Underfull \hbox (badness 2469) in paragraph at lines 11653--11657 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11653--11657 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 143--151 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 143--151 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 328--331 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 567--573 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1578--1584 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2056--2056 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 1721) in paragraph at lines 2720--2724 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 3901--3903 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Underfull \hbox (badness 2521) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6387--6387 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] Underfull \hbox (badness 1303) in paragraph at lines 7281--7288 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14099--14101 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14175--14179 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14219--14221 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14321--14326 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14368--14371 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14499--14503 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14510--14513 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14807--14811 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15588--15591 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15694--15696 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15767--15771 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16379--16383 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16379--16383 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16552--16557 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16805--16809 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18257--18260 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18529--18531 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18535--18544 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19143--19145 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19474--19480 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19719--19722 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19982--19984 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20209--20212 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21066--21071 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21154--21163 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21164--21179 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21214--21217 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21214--21217 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21348--21353 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22197--22205 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22231--22234 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23028--23030 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24941--24944 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25148--25154 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25538--25541 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26159--26161 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27054--27057 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27078--27080 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27219--27223 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27276--27281 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27583--27586 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27609--27611 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27651--27656 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27669--27672 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28069--28073 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28216--28219 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28297--28301 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28297--28301 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28302--28311 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29298--29301 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30048--30051 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31085--31088 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31248--31259 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32932--32934 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32935--32939 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33529--33531 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34735--34740 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35855--35866 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37386--37388 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37806--37810 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38052--38056 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38057--38061 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38112--38119 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38347--38351 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38500--38506 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39801--39803 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40391--40397 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40410--40415 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40530--40535 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41077--41080 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 42003--42007 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42254--42257 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42438--42442 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43064--43067 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43986--43994 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43986--43994 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44955--44961 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45353--45355 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45483--45487 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45691--45696 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45937--45939 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46302--46306 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46363--46367 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] Underfull \vbox (badness 1448) has occurred while \output is active [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] Overfull \vbox (19.74611pt too high) has occurred while \output is active [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \vbox (badness 10000) has occurred while \output is active [787] [788] [789] [790] Underfull \vbox (badness 10000) has occurred while \output is active [791] [792] [793] [794] [795] [796] [797] [798] [799] [800]) (./grDevices-pkg.tex Chapter 4. [801] [802] [803] [804] [805] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [816] [817] [818] [819] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [820] [821] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [822] [823] [824] [825] [826] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [827] [828] [829] [830] [831] [832] [833] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [834] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [835] [836] [837] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [838] [839] [840] [841] [842] [843] [844] [845] [846] [847] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] Underfull \vbox (badness 3803) has occurred while \output is active [860] [861] [862] [863] Underfull \vbox (badness 3803) has occurred while \output is active [864] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \vbox (badness 3803) has occurred while \output is active [877] [878] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [879] [880] [881] [882] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [883] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [884] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [885] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [886] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [887] Underfull \vbox (badness 3803) has occurred while \output is active [888] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [889] [890] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [891] [892] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [893] [894] [895] [896] [897] [898] [899] [900] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [901] [902] Underfull \vbox (badness 3803) has occurred while \output is active [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [915] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [916] [917] [918] [919] [920] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [921] [922] [923] [924] [925] [926]) (./graphics-pkg.tex Chapter 5. [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [943] [944] [945] [946] [947] [948] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [966] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] Underfull \vbox (badness 10000) has occurred while \output is active [990] Underfull \vbox (badness 10000) has occurred while \output is active [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1003] [1004] [1005] [1006] [1007] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1008] [1009] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1010 >/library/graphics/help/figures/mai.pdf> ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1011] [1012 >/library/graphics/help/figures/oma.pdf> ] [1013] [1014] Underfull \vbox (badness 3803) has occurred while \output is active [1015] [1016] [1017] [1018] [1019] [1020] [1021]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1036 >/library/graphics/help/figures/pch.pdf> ] [1037] Underfull \vbox (badness 3803) has occurred while \output is active [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1071]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1072] [1073] [1074] [1075]) (./grid-pkg.tex [1076] Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1086] [1087] [1088] [1089] [1090] Overfull \vbox (10.43605pt too high) has occurred while \output is active [1091] [1092] [1093] [1094] [1095] [1096] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1157] [1158] [1159] [1160] [1161] [1162] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1163] [1164] [1165] [1166] [1167] [1168] [1169] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1170] [1171] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203]) (./methods-pkg.tex [1204] Chapter 7. [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] Underfull \vbox (badness 10000) has occurred while \output is active [1213] Underfull \vbox (badness 10000) has occurred while \output is active [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1233] [1234] [1235] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1236] [1237] [1238] [1239] [1240] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1241] [1242] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1243] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1244] [1245] [1246] [1247] [1248] [1249] [1250] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1251] [1252] [1253] [1254] [1255] [1256] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1257] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1258] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \vbox (badness 10000) has occurred while \output is active [1279] [1280] [1281] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1282] [1283] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1284] [1285] [1286] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1296] [1297] [1298] [1299] Underfull \vbox (badness 10000) has occurred while \output is active [1300] [1301] [1302]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1303] [1304] [1305]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1306] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1307] [1308] [1309] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] Underfull \vbox (badness 10000) has occurred while \output is active [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1352] [1353] [1354] [1355]) (./parallel-pkg.tex [1356] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1379] [1380] [1381]) (./splines-pkg.tex [1382] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398]) (./stats-pkg.tex Chapter 10. [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1485] [1486] [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1518] [1519] [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] Underfull \vbox (badness 10000) has occurred while \output is active [1540] [1541] [1542] [1543] [1544] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1545] [1546] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1568] [1569] [1570] [1571] [1572] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1573] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1574] [1575] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1588] [1589] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1600] [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1606] [1607] [1608] [1609] [1610] [1611] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1612] [1613] [1614] [1615] [1616] [1617] [1618] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1629] [1630] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1649] [1650] Underfull \vbox (badness 10000) has occurred while \output is active [1651] [1652] [1653] [1654] [1655] [1656] [1657] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1684] [1685] Underfull \vbox (badness 3803) has occurred while \output is active [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Underfull \vbox (badness 10000) has occurred while \output is active [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1702] [1703] [1704] Underfull \vbox (badness 10000) has occurred while \output is active [1705] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1706] [1707] [1708] [1709] [1710] [1711] [1712] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1713] [1714] [1715] [1716] [1717] [1718] [1719] [1720] [1721] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1722] [1723] [1724] [1725] [1726] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1733] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1775] [1776] [1777] [1778] [1779] [1780] [1781] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1782] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1783] [1784] [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1799] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1800] Underfull \vbox (badness 3803) has occurred while \output is active [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1809] [1810] [1811] [1812] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] Underfull \vbox (badness 10000) has occurred while \output is active [1838] [1839] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1840] [1841] [1842] [1843] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1844] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1845] [1846] [1847] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1851] [1852] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1873] [1874] [1875] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1876] [1877] [1878] [1879] [1880] [1881] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1882] [1883] [1884] [1885] [1886] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1906] [1907] [1908] Underfull \vbox (badness 10000) has occurred while \output is active [1909] [1910] [1911] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1912] [1913] [1914] [1915] [1916] [1917] [1918] [1919] [1920] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1921] [1922] [1923] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1924] [1925] [1926] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1927] [1928] [1929] [1930] [1931]) (./stats4-pkg.tex [1932] Chapter 11. [1933] [1934] [1935] Underfull \vbox (badness 10000) has occurred while \output is active [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1941] [1942] [1943]) (./tcltk-pkg.tex [1944] Chapter 12. [1945] [1946] [1947] [1948] [1949] [1950] [1951] Underfull \vbox (badness 10000) has occurred while \output is active [1952] Underfull \vbox (badness 10000) has occurred while \output is active [1953] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1954] [1955] [1956] [1957] [1958] Underfull \vbox (badness 10000) has occurred while \output is active [1959] [1960] [1961] [1962] [1963] [1964] [1965] [1966]) (./tools-pkg.tex Chapter 13. [1967] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1968] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1969] [1970] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1971] [1972] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1973] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1974] [1975] [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1986] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1987] [1988] [1989] [1990] [1991] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1992] Underfull \hbox (badness 10000) in paragraph at lines 1595--1598 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1993] [1994] Underfull \hbox (badness 4096) in paragraph at lines 1714--1722 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1724--1726 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1995] [1996] [1997]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1998] [1999] [2000] [2001] [2002] [2003] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2229--2229 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2004] [2005] [2006] Underfull \hbox (badness 4096) in paragraph at lines 2398--2406 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2007] [2008] [2009] [2010] [2011] [2012] [2013] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2892. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1424) in paragraph at lines 3195--3197 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] Underfull \hbox (badness 10000) in paragraph at lines 3897--3899 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 4036--4039 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2032] [2033] Underfull \hbox (badness 1137) in paragraph at lines 4138--4140 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1796) in paragraph at lines 4446--4451 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2039] Underfull \hbox (badness 4699) in paragraph at lines 4496--4500 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4496--4500 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4524--4530 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4524--4530 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 2197) in paragraph at lines 4799--4809 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4865--4869 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2045] [2046] [2047] [2048]) (./utils-pkg.tex Chapter 14. [2049] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2060] [2061] [2062] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2063] [2064] [2065] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2066] [2067] [2068] [2069] [2070] [2071] [2072] [2073] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2074] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2075] [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2085] [2086] [2087] [2088] [2089] [2090]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2710 ... the Clipboard in MS Windows}{clipboard} [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] Underfull \hbox (badness 6842) in paragraph at lines 4007--4012 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2111] Underfull \hbox (badness 1430) in paragraph at lines 4070--4078 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2112] [2113] [2114] Underfull \hbox (badness 10000) in paragraph at lines 4275--4277 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2115] [2116] [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} [2127] [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 1622) in paragraph at lines 5567--5571 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2136] [2137] [2138] [2139] [2140] [2141] Underfull \hbox (badness 1448) in paragraph at lines 5946--5951 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6492. Underfull \hbox (badness 1371) in paragraph at lines 6496--6498 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2150] Underfull \hbox (badness 1502) in paragraph at lines 6585--6590 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6585--6590 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2151] [2152] [2153] Underfull \hbox (badness 10000) in paragraph at lines 6758--6767 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2154] Underfull \hbox (badness 2150) in paragraph at lines 6822--6825 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2155] [2156] Underfull \hbox (badness 3118) in paragraph at lines 6961--6963 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2157] [2158] [2159] Underfull \hbox (badness 1325) in paragraph at lines 7140--7144 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2160] Underfull \hbox (badness 1424) in paragraph at lines 7232--7235 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2161] Underfull \hbox (badness 3219) in paragraph at lines 7303--7310 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7303--7310 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7311--7314 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2162] Underfull \hbox (badness 1024) in paragraph at lines 7438--7441 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2163] Underfull \hbox (badness 10000) in paragraph at lines 7471--7476 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] Underfull \hbox (badness 10000) in paragraph at lines 8175--8177 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] Underfull \hbox (badness 2310) in paragraph at lines 8935--8940 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] Underfull \hbox (badness 1248) in paragraph at lines 9461--9465 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2196] Underfull \hbox (badness 1789) in paragraph at lines 9541--9543 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 1097) in paragraph at lines 10378--10381 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2210] [2211] Underfull \hbox (badness 3000) in paragraph at lines 10514--10519 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 2134) in paragraph at lines 11103--11108 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2221] Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] Underfull \hbox (badness 2469) in paragraph at lines 11653--11657 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11653--11657 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . 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Transcript written on refman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi @setfilename R-admin.info This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] Chapter 3 [16] [17] [18] Chapter 4 [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 1739--1749 @texttt org.R-project.R.fw.pkg[]@textrm , @texttt org.R-project.R.GUI.pkg[]@tex trm , @texttt org.r-project.x86_ Chapter 5 [22] Chapter 6 [23] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1885--1885 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [24] [25] Underfull \hbox (badness 6842) in paragraph at lines 2114--2122 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- Underfull \hbox (badness 10000) in paragraph at lines 2114--2122 @textrm pack-ages (@texttt https:// cran. r-project. org/ bin/ windows/ b ase/ howto-R-4. 2. html[]@textrm )[][] for [26] [27] [28] Overfull \hbox (78.17732pt too wide) in paragraph at lines 2334--2334 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [29] [30] [31] [32] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2645--2645 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [33] [34] [35] Chapter 8 [36] Chapter 9 [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3287--3287 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3575--3575 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-6.fc34.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] [53] Appendix B [54] [55] [56] [57] [58] [59] Appendix C [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4913--4913 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSER TIONS[] [64] [65] Overfull \hbox (134.35066pt too wide) in paragraph at lines 5126--5126 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/pcre2-10.39-d arwin.17-x86_64.tar.xz[] Overfull \hbox (117.1046pt too wide) in paragraph at lines 5128--5128 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/xz-5.2.5-darw in.17-x86_64.tar.xz[] [66] [67] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5239--5239 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5274--5275 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][][]@smallrm .| [68] Overfull \hbox (83.92601pt too wide) in paragraph at lines 5367--5367 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:$LOCAL/lib/pkgconfig:/ usr/lib/pkgconfig[] [69] [70] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5472--5472 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][][]| [71] [72] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5640--5640 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/termurin-17.jdk/Contents /Home[] [73] [74] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5769--5769 []@texttt install_name_tool -change /usr/local/gfortran/lib/libgfortran.5.dyli b \[] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5787--5787 []@texttt PKG_LIBS = /usr/local/llvm/lib/libc++.a /usr/local/llvm/lib/libc++ab i.a[] Underfull \hbox (badness 6842) in paragraph at lines 5789--5795 @textrm in @texttt src/Makevars[]@textrm . It would also be pos-si-ble to stat ic link the For- Underfull \hbox (badness 10000) in paragraph at lines 5789--5795 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and Overfull \hbox (43.6852pt too wide) in paragraph at lines 5975--5975 []@texttt FC="/usr/local/gfortran/bin/gfortran -mtune=native -mmacosx-version- min=10.13"[] [75] [76] (Function and variable index) [77] No file R-admin.vrs. (Concept index) [78] No file R-admin.cps. (Environment variable index) [79] No file R-admin.ens. [80] ) (see the transcript file for additional information)pdfTeX warning (dest): name {\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not ex ist, replaced by a fixed one Output written on R-admin.pdf (83 pages, 474717 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-admin.toc [-1] [-2]) [-3] (/<>/doc/manual/R-admin.toc) (/<>/doc/manual/R-admin.toc) Chapter 1 (/<>/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] Chapter 3 [16] [17] [18] Chapter 4 [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 1739--1749 @texttt org.R-project.R.fw.pkg[]@textrm , @texttt org.R-project.R.GUI.pkg[]@tex trm , @texttt org.r-project.x86_ Chapter 5 [22] Chapter 6 [23] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1885--1885 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [24] [25] Underfull \hbox (badness 6842) in paragraph at lines 2114--2122 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- Underfull \hbox (badness 10000) in paragraph at lines 2114--2122 @textrm pack-ages (@texttt https:// cran. r-project. org/ bin/ windows/ b ase/ howto-R-4. 2. html[]@textrm )[][] for [26] [27] [28] Overfull \hbox (78.17732pt too wide) in paragraph at lines 2334--2334 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [29] [30] [31] [32] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2645--2645 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [33] [34] [35] Chapter 8 [36] Chapter 9 [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3287--3287 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3575--3575 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-6.fc34.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] [53] Appendix B [54] [55] [56] [57] [58] [59] Appendix C [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4913--4913 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSER TIONS[] [64] [65] Overfull \hbox (134.35066pt too wide) in paragraph at lines 5126--5126 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/pcre2-10.39-d arwin.17-x86_64.tar.xz[] Overfull \hbox (117.1046pt too wide) in paragraph at lines 5128--5128 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/xz-5.2.5-darw in.17-x86_64.tar.xz[] [66] l.5175: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5175: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5175: Undefined cross reference ` Tcl/Tk headers and libraries-pg'. [67] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5239--5239 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5274--5275 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][][]@smallrm .| [68] Overfull \hbox (83.92601pt too wide) in paragraph at lines 5367--5367 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:$LOCAL/lib/pkgconfig:/ usr/lib/pkgconfig[] [69] [70] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5472--5472 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][][]| [71] [72] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5640--5640 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/termurin-17.jdk/Contents /Home[] [73] [74] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5769--5769 []@texttt install_name_tool -change /usr/local/gfortran/lib/libgfortran.5.dyli b \[] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5787--5787 []@texttt PKG_LIBS = /usr/local/llvm/lib/libc++.a /usr/local/llvm/lib/libc++ab i.a[] Underfull \hbox (badness 6842) in paragraph at lines 5789--5795 @textrm in @texttt src/Makevars[]@textrm . It would also be pos-si-ble to stat ic link the For- Underfull \hbox (badness 10000) in paragraph at lines 5789--5795 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and Overfull \hbox (43.6852pt too wide) in paragraph at lines 5975--5975 []@texttt FC="/usr/local/gfortran/bin/gfortran -mtune=native -mmacosx-version- min=10.13"[] [75] [76] (Function and variable index) [77] (/<>/doc/manual/R-admin.vrs) (Concept index) [78] (/<>/doc/manual/R-admin.cps) (Environment variable index) [79] (/<>/doc/manual/R-admin.ens) [80] ) (see the transcript file for additional information)pdfTeX warning (dest): name {\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not ex ist, replaced by a fixed one Output written on R-admin.pdf (85 pages, 518661 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi @setfilename R-data.info This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) [1] Chapter 1 [2] Writing index file R-data.cp Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1793--1799 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[][], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] No file R-data.vrs. (Concept index) [34] No file R-data.cps. [35] ) (see the transcript file for additional information) Output written on R-data.pdf (38 pages, 269298 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-data.toc [-1]) [-2] (/<>/doc/manual/R-data.toc) (/<>/doc/manual/R-data.toc) (Acknowledgements) (/<>/doc/manual/R-data.aux) [1] Chapter 1 [2] Writing index file R-data.cp [3] [4] [5] [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1793--1799 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[][], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] (/<>/doc/manual/R-data.vrs [34]) (Concept index) [35] (/<>/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 309041 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-data.toc [-1]) [-2] (/<>/doc/manual/R-data.toc) (/<>/doc/manual/R-data.toc) (Acknowledgements) (/<>/doc/manual/R-data.aux) [1] Chapter 1 [2] Writing index file R-data.cp [3] [4] [5] [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1793--1799 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[][], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] (/<>/doc/manual/R-data.vrs [34]) (Concept index) [35] (/<>/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 309042 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi @setfilename R-exts.info This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Writing index file R-exts.cp Cross reference values unknown; you must run TeX again. [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 500--503 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1538--1538 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1539--1539 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1540--1540 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [20] [21] [22] [23] [24] [25] Overfull \hbox (32.18782pt too wide) in paragraph at lines 1963--1963 []@texttt $ pkg-config --exists 'libtiff-4 >= 4.1.0' --print-errors # check th e status[] [26] [27] [28] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2200--2200 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [29] [30] [31] [32] [33] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2602--2602 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2604--2604 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [34] [35] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2742--2742 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [36] [37] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2917--2917 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2940--2946 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [38] [39] [40] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3120--3120 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4519--4519 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [58] [59] [60] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4744--4744 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4763--4763 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [61] [62] [63] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5195--5195 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20)[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5205--5205 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5207--5207 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5208--5208 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5223--5223 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [67] [68] [69] [70] [71] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5574--5574 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [72] [73] [74] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5827--5827 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [75] [76] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5958--5958 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6006--6006 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [78] [79] [80] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6298--6298 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [81] [82] [83] Chapter 2 [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 7560--7567 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [98] [99] [100] [101] [102] [103] Chapter 3 [104] [105] [106] [107] [108] [109] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8484--8484 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [110] [111] Chapter 4 [112] [113] [114] [115] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8849--8849 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [116] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8890--8890 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [117] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8994--8994 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 9024--9033 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [118] [119] [120] [121] Overfull \hbox (48.90796pt too wide) in paragraph at lines 9309--9310 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [122] [123] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9447--9447 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 9480--9482 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [124] [125] Overfull \hbox (72.42863pt too wide) in paragraph at lines 9626--9626 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9671--9671 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9674--9674 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [127] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9753--9753 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [128] [129] [130] Underfull \hbox (badness 10000) in paragraph at lines 9995--9997 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [131] Overfull \hbox (124.16682pt too wide) in paragraph at lines 10052--10052 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10071--10071 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10082--10082 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] [132] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10102--10102 [] @tex ttt 1[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10111--10111 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10112--10112 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10896--10896 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10959--10959 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11545--11545 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12405--12405 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [163] Underfull \hbox (badness 10000) in paragraph at lines 12555--12559 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [164] [165] [166] [167] [168] [169] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13116--13116 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [171] [172] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13240--13240 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13245--13245 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13300--13300 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13313--13313 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [174] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13412--13412 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [175] [176] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13561--13561 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [177] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13651--13651 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [178] [179] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13746--13746 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [180] [181] [182] [183] [184] [185] [186] [187] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14481--14481 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14493--14498 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 15220--15224 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [198] Warning: unbalanced parentheses in @def... [199] [200] Overfull \hbox (26.43913pt too wide) in paragraph at lines 15443--15443 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [201] [202] [203] [204] [205] Chapter 7 [206] [207] Chapter 8 [208] [209] [210] Overfull \hbox (43.6852pt too wide) in paragraph at lines 16203--16203 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [211] Overfull \hbox (20.69044pt too wide) in paragraph at lines 16246--16246 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 16261--16261 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [212] [213] [214] [215] [216] [217] [218] [219] [220] Underfull \hbox (badness 10000) in paragraph at lines 16911--16915 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [221] No file R-exts.vrs. (Concept index) [222] No file R-exts.cps. [223] ) (see the transcript file for additional information) Output written on R-exts.pdf (226 pages, 970359 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/<>/doc/manual/R-exts.toc) (/<>/doc/manual/R-exts.toc) (Acknowledgements) (/<>/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 500--503 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1538--1538 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1539--1539 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1540--1540 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [20] [21] [22] [23] [24] [25] Overfull \hbox (32.18782pt too wide) in paragraph at lines 1963--1963 []@texttt $ pkg-config --exists 'libtiff-4 >= 4.1.0' --print-errors # check th e status[] [26] [27] [28] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2200--2200 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [29] [30] [31] [32] [33] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2602--2602 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2604--2604 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [34] [35] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2742--2742 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [36] [37] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2917--2917 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2940--2946 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [38] [39] [40] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3120--3120 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4519--4519 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [58] [59] [60] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4744--4744 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4763--4763 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [61] [62] [63] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5195--5195 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20)[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5205--5205 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5207--5207 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5208--5208 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5223--5223 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [67] [68] [69] [70] [71] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5574--5574 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [72] [73] [74] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5827--5827 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [75] [76] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5958--5958 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6006--6006 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [78] [79] [80] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6298--6298 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [81] [82] [83] Chapter 2 [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 7560--7567 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [98] [99] [100] [101] [102] [103] Chapter 3 [104] [105] [106] [107] [108] [109] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8484--8484 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [110] [111] Chapter 4 [112] [113] [114] [115] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8849--8849 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [116] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8890--8890 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [117] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8994--8994 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 9024--9033 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [118] [119] [120] [121] Overfull \hbox (48.90796pt too wide) in paragraph at lines 9309--9310 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [122] [123] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9447--9447 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 9480--9482 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [124] [125] Overfull \hbox (72.42863pt too wide) in paragraph at lines 9626--9626 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9671--9671 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9674--9674 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [127] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9753--9753 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [128] [129] [130] Underfull \hbox (badness 10000) in paragraph at lines 9995--9997 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [131] Overfull \hbox (124.16682pt too wide) in paragraph at lines 10052--10052 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10071--10071 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10082--10082 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] [132] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10102--10102 [] @tex ttt 1[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10111--10111 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10112--10112 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10896--10896 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10959--10959 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11545--11545 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12405--12405 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [163] Underfull \hbox (badness 10000) in paragraph at lines 12555--12559 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [164] [165] [166] [167] [168] [169] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13116--13116 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [171] [172] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13240--13240 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13245--13245 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13300--13300 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13313--13313 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [174] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13412--13412 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [175] [176] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13561--13561 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [177] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13651--13651 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [178] [179] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13746--13746 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [180] [181] [182] [183] [184] [185] [186] [187] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14481--14481 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14493--14498 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 15220--15224 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [198] Warning: unbalanced parentheses in @def... [199] [200] Overfull \hbox (26.43913pt too wide) in paragraph at lines 15443--15443 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [201] [202] [203] [204] [205] Chapter 7 [206] [207] Chapter 8 [208] [209] [210] Overfull \hbox (43.6852pt too wide) in paragraph at lines 16203--16203 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [211] Overfull \hbox (20.69044pt too wide) in paragraph at lines 16246--16246 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 16261--16261 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [212] [213] [214] [215] [216] [217] [218] [219] [220] Underfull \hbox (badness 10000) in paragraph at lines 16911--16915 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [221] (/<>/doc/manual/R-exts.vrs [222] [223] [224] [225]) (Concept index) [226] (/<>/doc/manual/R-exts.cps [227]) [228] ) (see the transcript file for additional information) Output written on R-exts.pdf (235 pages, 1047657 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/<>/doc/manual/R-exts.toc) (/<>/doc/manual/R-exts.toc) (Acknowledgements) (/<>/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 500--503 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1538--1538 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1539--1539 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1540--1540 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [20] [21] [22] [23] [24] [25] Overfull \hbox (32.18782pt too wide) in paragraph at lines 1963--1963 []@texttt $ pkg-config --exists 'libtiff-4 >= 4.1.0' --print-errors # check th e status[] [26] [27] [28] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2200--2200 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [29] [30] [31] [32] [33] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2602--2602 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2604--2604 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [34] [35] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2742--2742 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [36] [37] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2917--2917 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2940--2946 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [38] [39] [40] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3120--3120 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4519--4519 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [58] [59] [60] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4744--4744 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4763--4763 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [61] [62] [63] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5195--5195 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20)[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5205--5205 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5207--5207 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5208--5208 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5223--5223 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [67] [68] [69] [70] [71] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5574--5574 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [72] [73] [74] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5827--5827 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [75] [76] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5958--5958 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6006--6006 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [78] [79] [80] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6298--6298 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [81] [82] [83] Chapter 2 [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 7560--7567 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [98] [99] [100] [101] [102] [103] Chapter 3 [104] [105] [106] [107] [108] [109] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8484--8484 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [110] [111] Chapter 4 [112] [113] [114] [115] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8849--8849 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [116] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8890--8890 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [117] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8994--8994 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 9024--9033 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [118] [119] [120] [121] Overfull \hbox (48.90796pt too wide) in paragraph at lines 9309--9310 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [122] [123] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9447--9447 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 9480--9482 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [124] [125] Overfull \hbox (72.42863pt too wide) in paragraph at lines 9626--9626 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9671--9671 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9674--9674 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [127] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9753--9753 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [128] [129] [130] Underfull \hbox (badness 10000) in paragraph at lines 9995--9997 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [131] Overfull \hbox (124.16682pt too wide) in paragraph at lines 10052--10052 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10071--10071 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10082--10082 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] [132] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10102--10102 [] @tex ttt 1[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10111--10111 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10112--10112 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10896--10896 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10959--10959 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11545--11545 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12405--12405 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [163] Underfull \hbox (badness 10000) in paragraph at lines 12555--12559 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [164] [165] [166] [167] [168] [169] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13116--13116 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [171] [172] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13240--13240 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13245--13245 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13300--13300 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13313--13313 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [174] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13412--13412 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [175] [176] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13561--13561 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [177] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13651--13651 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [178] [179] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13746--13746 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [180] [181] [182] [183] [184] [185] [186] [187] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14481--14481 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14493--14498 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] Underfull \hbox (badness 10000) in paragraph at lines 15220--15224 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [198] Warning: unbalanced parentheses in @def... [199] [200] Overfull \hbox (26.43913pt too wide) in paragraph at lines 15443--15443 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [201] [202] [203] [204] [205] Chapter 7 [206] [207] Chapter 8 [208] [209] [210] Overfull \hbox (43.6852pt too wide) in paragraph at lines 16203--16203 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [211] Overfull \hbox (20.69044pt too wide) in paragraph at lines 16246--16246 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 16261--16261 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [212] [213] [214] [215] [216] [217] [218] [219] [220] Underfull \hbox (badness 10000) in paragraph at lines 16911--16915 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [221] (/<>/doc/manual/R-exts.vrs [222] [223] [224] [225]) (Concept index) [226] (/<>/doc/manual/R-exts.cps [227]) [228] ) (see the transcript file for additional information) Output written on R-exts.pdf (235 pages, 1047691 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi @setfilename R-FAQ.info This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] [-1] Chapter 1 Cross reference values unknown; you must run TeX again. [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 290--312 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (49 pages, 353437 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/<>/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/<>/doc/manual/R-FAQ.toc) (/<>/doc/manual/R-FAQ.toc) Chapter 1 (/<>/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 290--312 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (51 pages, 369495 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/<>/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/<>/doc/manual/R-FAQ.toc) (/<>/doc/manual/R-FAQ.toc) Chapter 1 (/<>/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 290--312 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (51 pages, 369520 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi @setfilename R-intro.info This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] >/doc/manual/images/h ist.pdf> >/doc/manual/images/ecdf.pdf> [38] >/doc/manual/images/QQ.pdf> [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5737--5737 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] >/doc/manual/images/f ig11.pdf> [77] >/doc/manual/images/fig12.pdf> [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6443--6448 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] No file R-intro.vrs. Appendix E [102] No file R-intro.cps. Appendix F [103] [104] ) (see the transcript file for additional information) Output written on R-intro.pdf (107 pages, 574538 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/<>/doc/manual/R-intro.toc) (/<>/doc/manual/R-intro.toc) (Preface) (/<>/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] >/doc/manual/images/h ist.pdf> >/doc/manual/images/ecdf.pdf> [38] >/doc/manual/images/QQ.pdf> [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5737--5737 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] >/doc/manual/images/f ig11.pdf> [77] >/doc/manual/images/fig12.pdf> [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6443--6448 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] (/<>/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/<>/doc/manual/R-intro.cps [105]) Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 631440 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/<>/doc/manual/R-intro.toc) (/<>/doc/manual/R-intro.toc) (Preface) (/<>/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] >/doc/manual/images/h ist.pdf> >/doc/manual/images/ecdf.pdf> [38] >/doc/manual/images/QQ.pdf> [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5737--5737 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] >/doc/manual/images/f ig11.pdf> [77] >/doc/manual/images/fig12.pdf> [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6443--6448 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] (/<>/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/<>/doc/manual/R-intro.cps [105]) Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 631521 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi @setfilename R-ints.info This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1501--1501 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1502--1502 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1503--1503 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1504--1504 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2022--2022 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3819--3823 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4630--4630 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [64] Chapter 9 [65] [66] Chapter 10 [67] Chapter 11 [68] Chapter 12 [69] [70] (Function and variable index) [71] [72] No file R-ints.vrs. (Concept index) [73] No file R-ints.cps. [74] ) (see the transcript file for additional information) Output written on R-ints.pdf (77 pages, 416546 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-ints.toc [-1] [-2]) [-3] (/<>/doc/manual/R-ints.toc) (/<>/doc/manual/R-ints.toc) Chapter 1 (/<>/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1501--1501 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1502--1502 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1503--1503 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1504--1504 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2022--2022 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3819--3823 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4630--4630 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [64] Chapter 9 [65] [66] Chapter 10 [67] Chapter 11 [68] Chapter 12 [69] [70] (Function and variable index) [71] [72] (/<>/doc/manual/R-ints.vrs [73] [74]) (Concept index) [75] (/<>/doc/manual/R-ints.cps) [76] ) (see the transcript file for additional information) Output written on R-ints.pdf (81 pages, 468887 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-ints.toc [-1] [-2]) [-3] (/<>/doc/manual/R-ints.toc) (/<>/doc/manual/R-ints.toc) Chapter 1 (/<>/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1501--1501 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1502--1502 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1503--1503 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1504--1504 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2022--2022 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3819--3823 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4630--4630 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [64] Chapter 9 [65] [66] Chapter 10 [67] Chapter 11 [68] Chapter 12 [69] [70] (Function and variable index) [71] [72] (/<>/doc/manual/R-ints.vrs [73] [74]) (Concept index) [75] (/<>/doc/manual/R-ints.cps) [76] ) (see the transcript file for additional information) Output written on R-ints.pdf (81 pages, 468894 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi @setfilename R-lang.info This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-lang.cp Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] No file R-lang.vrs. (Concept Index) [60] No file R-lang.cps. Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (65 pages, 330642 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-lang.toc [-1] [-2]) [-3] (/<>/doc/manual/R-lang.toc) (/<>/doc/manual/R-lang.toc) Chapter 1 (/<>/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] (/<>/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/<>/doc/manual/R-lang.cps) [62] Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (69 pages, 379968 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.20 (TeX Live 2019/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/<>/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2019-09-20.22]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/<>/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/<>/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/<>/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/<>/doc/manual/R-lang.toc [-1] [-2]) [-3] (/<>/doc/manual/R-lang.toc) (/<>/doc/manual/R-lang.toc) Chapter 1 (/<>/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] (/<>/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/<>/doc/manual/R-lang.cps) [62] Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (69 pages, 379963 bytes). Transcript written on R-lang.log. make[1]: Leaving directory '/<>/doc/manual' /usr/bin/make -k pdf make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/manual' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory PDF/LaTeX documentation: full reference index ... 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This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14099--14101 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14175--14179 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14219--14221 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14321--14326 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14368--14371 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14499--14503 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14510--14513 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14807--14811 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15588--15591 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15694--15696 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15767--15771 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16379--16383 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16379--16383 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16552--16557 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16805--16809 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18257--18260 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18529--18531 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18535--18544 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19143--19145 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19474--19480 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19719--19722 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19982--19984 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20209--20212 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21066--21071 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21154--21163 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21164--21179 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21214--21217 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21214--21217 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21348--21353 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22197--22205 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22231--22234 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23028--23030 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24941--24944 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25148--25154 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25538--25541 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26159--26161 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27054--27057 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27078--27080 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27219--27223 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27276--27281 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27583--27586 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27609--27611 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27651--27656 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27669--27672 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28069--28073 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28216--28219 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28297--28301 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28297--28301 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28302--28311 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29298--29301 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30048--30051 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31085--31088 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31248--31259 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32932--32934 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32935--32939 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33529--33531 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34735--34740 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35855--35866 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37386--37388 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37806--37810 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38052--38056 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38057--38061 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38112--38119 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38347--38351 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38500--38506 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39801--39803 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40391--40397 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40410--40415 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40530--40535 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41077--41080 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 42003--42007 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42254--42257 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42438--42442 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43064--43067 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43986--43994 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43986--43994 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44955--44961 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45353--45355 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45483--45487 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45691--45696 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45937--45939 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46302--46306 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46363--46367 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] Underfull \vbox (badness 1448) has occurred while \output is active [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] Overfull \vbox (19.74611pt too high) has occurred while \output is active [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \vbox (badness 10000) has occurred while \output is active [787] [788] [789] [790] Underfull \vbox (badness 10000) has occurred while \output is active [791] [792] [793] [794] [795] [796] [797] [798] [799] [800]) (./grDevices-pkg.tex Chapter 4. [801] [802] [803] [804] [805] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [816] [817] [818] [819] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [820] [821] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [822] [823] [824] [825] [826] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [827] [828] [829] [830] [831] [832] [833] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [834] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [835] [836] [837] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [838] [839] [840] [841] [842] [843] [844] [845] [846] [847] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] Underfull \vbox (badness 3803) has occurred while \output is active [860] [861] [862] [863] Underfull \vbox (badness 3803) has occurred while \output is active [864] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \vbox (badness 3803) has occurred while \output is active [877] [878] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [879] [880] [881] [882] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [883] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [884] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [885] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [886] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [887] Underfull \vbox (badness 3803) has occurred while \output is active [888] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [889] [890] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [891] [892] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [893] [894] [895] [896] [897] [898] [899] [900] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [901] [902] Underfull \vbox (badness 3803) has occurred while \output is active [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [915] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [916] [917] [918] [919] [920] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [921] [922] [923] [924] [925] [926]) (./graphics-pkg.tex Chapter 5. [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [943] [944] [945] [946] [947] [948] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [966] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] Underfull \vbox (badness 10000) has occurred while \output is active [990] Underfull \vbox (badness 10000) has occurred while \output is active [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1003] [1004] [1005] [1006] [1007] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1008] [1009] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1010 >/library/graphics/help/figures/mai.pdf> ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1011] [1012 >/library/graphics/help/figures/oma.pdf> ] [1013] [1014] Underfull \vbox (badness 3803) has occurred while \output is active [1015] [1016] [1017] [1018] [1019] [1020] [1021]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1036 >/library/graphics/help/figures/pch.pdf> ] [1037] Underfull \vbox (badness 3803) has occurred while \output is active [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1071]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1072] [1073] [1074] [1075]) (./grid-pkg.tex [1076] Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1086] [1087] [1088] [1089] [1090] Overfull \vbox (10.43605pt too high) has occurred while \output is active [1091] [1092] [1093] [1094] [1095] [1096] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1157] [1158] [1159] [1160] [1161] [1162] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1163] [1164] [1165] [1166] [1167] [1168] [1169] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1170] [1171] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203]) (./methods-pkg.tex [1204] Chapter 7. [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] Underfull \vbox (badness 10000) has occurred while \output is active [1213] Underfull \vbox (badness 10000) has occurred while \output is active [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1233] [1234] [1235] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1236] [1237] [1238] [1239] [1240] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1241] [1242] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1243] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1244] [1245] [1246] [1247] [1248] [1249] [1250] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1251] [1252] [1253] [1254] [1255] [1256] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1257] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1258] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \vbox (badness 10000) has occurred while \output is active [1279] [1280] [1281] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1282] [1283] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1284] [1285] [1286] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1296] [1297] [1298] [1299] Underfull \vbox (badness 10000) has occurred while \output is active [1300] [1301] [1302]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1303] [1304] [1305]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1306] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1307] [1308] [1309] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] Underfull \vbox (badness 10000) has occurred while \output is active [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1352] [1353] [1354] [1355]) (./parallel-pkg.tex [1356] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1379] [1380] [1381]) (./splines-pkg.tex [1382] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398]) (./stats-pkg.tex Chapter 10. [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1485] [1486] [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1518] [1519] [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] Underfull \vbox (badness 10000) has occurred while \output is active [1540] [1541] [1542] [1543] [1544] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1545] [1546] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1568] [1569] [1570] [1571] [1572] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1573] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1574] [1575] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1588] [1589] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1600] [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1606] [1607] [1608] [1609] [1610] [1611] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1612] [1613] [1614] [1615] [1616] [1617] [1618] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1629] [1630] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1649] [1650] Underfull \vbox (badness 10000) has occurred while \output is active [1651] [1652] [1653] [1654] [1655] [1656] [1657] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1684] [1685] Underfull \vbox (badness 3803) has occurred while \output is active [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Underfull \vbox (badness 10000) has occurred while \output is active [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1702] [1703] [1704] Underfull \vbox (badness 10000) has occurred while \output is active [1705] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1706] [1707] [1708] [1709] [1710] [1711] [1712] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1713] [1714] [1715] [1716] [1717] [1718] [1719] [1720] [1721] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1722] [1723] [1724] [1725] [1726] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1733] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1775] [1776] [1777] [1778] [1779] [1780] [1781] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1782] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1783] [1784] [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1799] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1800] Underfull \vbox (badness 3803) has occurred while \output is active [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1809] [1810] [1811] [1812] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] Underfull \vbox (badness 10000) has occurred while \output is active [1838] [1839] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1840] [1841] [1842] [1843] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1844] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1845] [1846] [1847] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1851] [1852] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1873] [1874] [1875] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1876] [1877] [1878] [1879] [1880] [1881] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1882] [1883] [1884] [1885] [1886] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1906] [1907] [1908] Underfull \vbox (badness 10000) has occurred while \output is active [1909] [1910] [1911] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1912] [1913] [1914] [1915] [1916] [1917] [1918] [1919] [1920] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1921] [1922] [1923] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1924] [1925] [1926] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1927] [1928] [1929] [1930] [1931]) (./stats4-pkg.tex [1932] Chapter 11. [1933] [1934] [1935] Underfull \vbox (badness 10000) has occurred while \output is active [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1941] [1942] [1943]) (./tcltk-pkg.tex [1944] Chapter 12. [1945] [1946] [1947] [1948] [1949] [1950] [1951] Underfull \vbox (badness 10000) has occurred while \output is active [1952] Underfull \vbox (badness 10000) has occurred while \output is active [1953] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1954] [1955] [1956] [1957] [1958] Underfull \vbox (badness 10000) has occurred while \output is active [1959] [1960] [1961] [1962] [1963] [1964] [1965] [1966]) (./tools-pkg.tex Chapter 13. [1967] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1968] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1969] [1970] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1971] [1972] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1973] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1974] [1975] [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1986] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1987] [1988] [1989] [1990] [1991] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1992] Underfull \hbox (badness 10000) in paragraph at lines 1595--1598 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1993] [1994] Underfull \hbox (badness 4096) in paragraph at lines 1714--1722 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1724--1726 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1995] [1996] [1997]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1998] [1999] [2000] [2001] [2002] [2003] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2229--2229 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2004] [2005] [2006] Underfull \hbox (badness 4096) in paragraph at lines 2398--2406 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2007] [2008] [2009] [2010] [2011] [2012] [2013] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2892. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1424) in paragraph at lines 3195--3197 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] Underfull \hbox (badness 10000) in paragraph at lines 3897--3899 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 4036--4039 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2032] [2033] Underfull \hbox (badness 1137) in paragraph at lines 4138--4140 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1796) in paragraph at lines 4446--4451 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2039] Underfull \hbox (badness 4699) in paragraph at lines 4496--4500 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4496--4500 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4524--4530 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4524--4530 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 2197) in paragraph at lines 4799--4809 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4865--4869 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2045] [2046] [2047] [2048]) (./utils-pkg.tex Chapter 14. [2049] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2060] [2061] [2062] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2063] [2064] [2065] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2066] [2067] [2068] [2069] [2070] [2071] [2072] [2073] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2074] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2075] [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2085] [2086] [2087] [2088] [2089] [2090]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2710 ... the Clipboard in MS Windows}{clipboard} [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] Underfull \hbox (badness 6842) in paragraph at lines 4007--4012 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2111] Underfull \hbox (badness 1430) in paragraph at lines 4070--4078 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2112] [2113] [2114] Underfull \hbox (badness 10000) in paragraph at lines 4275--4277 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2115] [2116] [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} [2127] [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 1622) in paragraph at lines 5567--5571 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2136] [2137] [2138] [2139] [2140] [2141] Underfull \hbox (badness 1448) in paragraph at lines 5946--5951 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6492. Underfull \hbox (badness 1371) in paragraph at lines 6496--6498 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2150] Underfull \hbox (badness 1502) in paragraph at lines 6585--6590 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6585--6590 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2151] [2152] [2153] Underfull \hbox (badness 10000) in paragraph at lines 6758--6767 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2154] Underfull \hbox (badness 2150) in paragraph at lines 6822--6825 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2155] [2156] Underfull \hbox (badness 3118) in paragraph at lines 6961--6963 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2157] [2158] [2159] Underfull \hbox (badness 1325) in paragraph at lines 7140--7144 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2160] Underfull \hbox (badness 1424) in paragraph at lines 7232--7235 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2161] Underfull \hbox (badness 3219) in paragraph at lines 7303--7310 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7303--7310 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7311--7314 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2162] Underfull \hbox (badness 1024) in paragraph at lines 7438--7441 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2163] Underfull \hbox (badness 10000) in paragraph at lines 7471--7476 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] Underfull \hbox (badness 10000) in paragraph at lines 8175--8177 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] Underfull \hbox (badness 2310) in paragraph at lines 8935--8940 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] Underfull \hbox (badness 1248) in paragraph at lines 9461--9465 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2196] Underfull \hbox (badness 1789) in paragraph at lines 9541--9543 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 1097) in paragraph at lines 10378--10381 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2210] [2211] Underfull \hbox (badness 3000) in paragraph at lines 10514--10519 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 2134) in paragraph at lines 11103--11108 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2221] Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] Underfull \hbox (badness 2469) in paragraph at lines 11653--11657 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11653--11657 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2230] [2231] [2232] [2233] [2234] [2235] Underfull \hbox (badness 4060) in paragraph at lines 12077--12080 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12100--12100 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2236] [2237] [2238] [2239] Underfull \hbox (badness 2150) in paragraph at lines 12355--12357 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2240] [2241] [2242] [2243] Underfull \hbox (badness 10000) in paragraph at lines 12575--12579 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12608--12614 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2244] Underfull \hbox (badness 2762) in paragraph at lines 12623--12631 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2245] [2246] Underfull \hbox (badness 1009) in paragraph at lines 12802--12814 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12842--12844 []\T1/ptm/m/n/10 The file `\T1/zi4/m/it/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/it/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2247] Underfull \hbox (badness 1077) in paragraph at lines 12872--12879 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2248] [2249] [2250] [2251] [2252] [2253] [2254] Underfull \hbox (badness 3780) in paragraph at lines 13280--13284 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/it/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 13296--13299 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/it/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2255] [2256] [2257] Underfull \hbox (badness 2302) in paragraph at lines 13501--13503 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2258] [2259] [2260] [2261] [2262] Underfull \hbox (badness 10000) in paragraph at lines 13800--13805 []\T1/ptm/m/n/10 logical; if []\T1/zi4/m/it/10 TRUE []\T1/ptm/m/n/10 (de-fault) , [][][]\T1/zi4/m/it/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13809--13812 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2263] [2264] [2265] [2266] [2267] [2268] [2269] Underfull \hbox (badness 2932) in paragraph at lines 14242--14249 []\T1/ptm/m/n/10 If []\T1/zi4/m/it/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fa ult) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 14242--14249 \T1/ptm/m/n/10 and se-lected if their []\T1/zi4/m/it/10 extension []\T1/ptm/m/n /10 com-po-nent matches (as a reg-exp) the file name. Ob- [2270] [2271] [2272] Underfull \hbox (badness 1460) in paragraph at lines 14407--14415 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). 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Transcript written on fullrefman.log. This is makeindex, version 2.15 [TeX Live 2019] (kpathsea + Thai support). Scanning input file fullrefman.idx..................done (14737 entries accepted, 36 rejected). Sorting entries...........................................................................................................................................................done (227925 comparisons). Generating output file fullrefman.ind.................done (14699 lines written, 58 warnings). Output written in fullrefman.ind. Transcript written in fullrefman.ilg. 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 143--151 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . 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This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14099--14101 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14175--14179 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14219--14221 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14321--14326 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14368--14371 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14499--14503 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14510--14513 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14807--14811 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15588--15591 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15694--15696 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15767--15771 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16379--16383 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16379--16383 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16552--16557 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16805--16809 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18257--18260 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18529--18531 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18535--18544 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19143--19145 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19474--19480 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19719--19722 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19982--19984 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20209--20212 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21066--21071 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21154--21163 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21164--21179 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21214--21217 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21214--21217 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21348--21353 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22197--22205 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22231--22234 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23028--23030 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24941--24944 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25148--25154 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25538--25541 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26159--26161 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27054--27057 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27078--27080 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27219--27223 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27276--27281 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27583--27586 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27609--27611 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27651--27656 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27669--27672 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28069--28073 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28216--28219 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28297--28301 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28297--28301 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28302--28311 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29298--29301 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30048--30051 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31085--31088 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31248--31259 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32932--32934 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32935--32939 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33529--33531 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34735--34740 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35855--35866 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37386--37388 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37806--37810 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38052--38056 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38057--38061 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38112--38119 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38347--38351 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38500--38506 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39801--39803 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40391--40397 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40410--40415 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40530--40535 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41077--41080 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 42003--42007 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42254--42257 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42438--42442 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43064--43067 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43986--43994 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43986--43994 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44955--44961 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45353--45355 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45483--45487 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45691--45696 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45937--45939 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46302--46306 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46363--46367 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] Underfull \vbox (badness 1448) has occurred while \output is active [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] Overfull \vbox (19.74611pt too high) has occurred while \output is active [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \vbox (badness 10000) has occurred while \output is active [787] [788] [789] [790] Underfull \vbox (badness 10000) has occurred while \output is active [791] [792] [793] [794] [795] [796] [797] [798] [799] [800]) (./grDevices-pkg.tex Chapter 4. [801] [802] [803] [804] [805] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [816] [817] [818] [819] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [820] [821] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [822] [823] [824] [825] [826] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [827] [828] [829] [830] [831] [832] [833] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [834] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [835] [836] [837] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [838] [839] [840] [841] [842] [843] [844] [845] [846] [847] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] Underfull \vbox (badness 3803) has occurred while \output is active [860] [861] [862] [863] Underfull \vbox (badness 3803) has occurred while \output is active [864] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \vbox (badness 3803) has occurred while \output is active [877] [878] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [879] [880] [881] [882] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [883] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [884] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [885] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [886] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [887] Underfull \vbox (badness 3803) has occurred while \output is active [888] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [889] [890] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [891] [892] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [893] [894] [895] [896] [897] [898] [899] [900] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [901] [902] Underfull \vbox (badness 3803) has occurred while \output is active [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [915] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [916] [917] [918] [919] [920] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [921] [922] [923] [924] [925] [926]) (./graphics-pkg.tex Chapter 5. [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [943] [944] [945] [946] [947] [948] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [966] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] Underfull \vbox (badness 10000) has occurred while \output is active [990] Underfull \vbox (badness 10000) has occurred while \output is active [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1003] [1004] [1005] [1006] [1007] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1008] [1009] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1010 >/library/graphics/help/figures/mai.pdf> ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1011] [1012 >/library/graphics/help/figures/oma.pdf> ] [1013] [1014] Underfull \vbox (badness 3803) has occurred while \output is active [1015] [1016] [1017] [1018] [1019] [1020] [1021]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1036 >/library/graphics/help/figures/pch.pdf> ] [1037] Underfull \vbox (badness 3803) has occurred while \output is active [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1071]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1072] [1073] [1074] [1075]) (./grid-pkg.tex [1076] Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1086] [1087] [1088] [1089] [1090] Overfull \vbox (10.43605pt too high) has occurred while \output is active [1091] [1092] [1093] [1094] [1095] [1096] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1157] [1158] [1159] [1160] [1161] [1162] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1163] [1164] [1165] [1166] [1167] [1168] [1169] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1170] [1171] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203]) (./methods-pkg.tex [1204] Chapter 7. [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] Underfull \vbox (badness 10000) has occurred while \output is active [1213] Underfull \vbox (badness 10000) has occurred while \output is active [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1233] [1234] [1235] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1236] [1237] [1238] [1239] [1240] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1241] [1242] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1243] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1244] [1245] [1246] [1247] [1248] [1249] [1250] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1251] [1252] [1253] [1254] [1255] [1256] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1257] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1258] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \vbox (badness 10000) has occurred while \output is active [1279] [1280] [1281] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1282] [1283] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1284] [1285] [1286] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1296] [1297] [1298] [1299] Underfull \vbox (badness 10000) has occurred while \output is active [1300] [1301] [1302]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1303] [1304] [1305]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1306] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1307] [1308] [1309] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] Underfull \vbox (badness 10000) has occurred while \output is active [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1352] [1353] [1354] [1355]) (./parallel-pkg.tex [1356] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1379] [1380] [1381]) (./splines-pkg.tex [1382] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398]) (./stats-pkg.tex Chapter 10. [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1485] [1486] [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1518] [1519] [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] Underfull \vbox (badness 10000) has occurred while \output is active [1540] [1541] [1542] [1543] [1544] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1545] [1546] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1568] [1569] [1570] [1571] [1572] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1573] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1574] [1575] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1588] [1589] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1600] [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1606] [1607] [1608] [1609] [1610] [1611] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1612] [1613] [1614] [1615] [1616] [1617] [1618] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1629] [1630] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1649] [1650] Underfull \vbox (badness 10000) has occurred while \output is active [1651] [1652] [1653] [1654] [1655] [1656] [1657] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1684] [1685] Underfull \vbox (badness 3803) has occurred while \output is active [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Underfull \vbox (badness 10000) has occurred while \output is active [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1702] [1703] [1704] Underfull \vbox (badness 10000) has occurred while \output is active [1705] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1706] [1707] [1708] [1709] [1710] [1711] [1712] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1713] [1714] [1715] [1716] [1717] [1718] [1719] [1720] [1721] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1722] [1723] [1724] [1725] [1726] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1733] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1775] [1776] [1777] [1778] [1779] [1780] [1781] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1782] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1783] [1784] [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1799] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1800] Underfull \vbox (badness 3803) has occurred while \output is active [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1809] [1810] [1811] [1812] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] Underfull \vbox (badness 10000) has occurred while \output is active [1838] [1839] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1840] [1841] [1842] [1843] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1844] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1845] [1846] [1847] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1851] [1852] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1873] [1874] [1875] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1876] [1877] [1878] [1879] [1880] [1881] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1882] [1883] [1884] [1885] [1886] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1906] [1907] [1908] Underfull \vbox (badness 10000) has occurred while \output is active [1909] [1910] [1911] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1912] [1913] [1914] [1915] [1916] [1917] [1918] [1919] [1920] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1921] [1922] [1923] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1924] [1925] [1926] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1927] [1928] [1929] [1930] [1931]) (./stats4-pkg.tex [1932] Chapter 11. [1933] [1934] [1935] Underfull \vbox (badness 10000) has occurred while \output is active [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1941] [1942] [1943]) (./tcltk-pkg.tex [1944] Chapter 12. [1945] [1946] [1947] [1948] [1949] [1950] [1951] Underfull \vbox (badness 10000) has occurred while \output is active [1952] Underfull \vbox (badness 10000) has occurred while \output is active [1953] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1954] [1955] [1956] [1957] [1958] Underfull \vbox (badness 10000) has occurred while \output is active [1959] [1960] [1961] [1962] [1963] [1964] [1965] [1966]) (./tools-pkg.tex Chapter 13. [1967] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1968] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1969] [1970] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1971] [1972] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1973] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1974] [1975] [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1986] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1987] [1988] [1989] [1990] [1991] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1992] Underfull \hbox (badness 10000) in paragraph at lines 1595--1598 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1993] [1994] Underfull \hbox (badness 4096) in paragraph at lines 1714--1722 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1724--1726 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1995] [1996] [1997]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1998] [1999] [2000] [2001] [2002] [2003] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2229--2229 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2004] [2005] [2006] Underfull \hbox (badness 4096) in paragraph at lines 2398--2406 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2007] [2008] [2009] [2010] [2011] [2012] [2013] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2892. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1424) in paragraph at lines 3195--3197 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] Underfull \hbox (badness 10000) in paragraph at lines 3897--3899 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 4036--4039 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2032] [2033] Underfull \hbox (badness 1137) in paragraph at lines 4138--4140 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1796) in paragraph at lines 4446--4451 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2039] Underfull \hbox (badness 4699) in paragraph at lines 4496--4500 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4496--4500 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4524--4530 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4524--4530 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 2197) in paragraph at lines 4799--4809 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4865--4869 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2045] [2046] [2047] [2048]) (./utils-pkg.tex Chapter 14. [2049] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2060] [2061] [2062] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2063] [2064] [2065] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2066] [2067] [2068] [2069] [2070] [2071] [2072] [2073] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2074] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2075] [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2085] [2086] [2087] [2088] [2089] [2090]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2710 ... the Clipboard in MS Windows}{clipboard} [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] Underfull \hbox (badness 6842) in paragraph at lines 4007--4012 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2111] Underfull \hbox (badness 1430) in paragraph at lines 4070--4078 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2112] [2113] [2114] Underfull \hbox (badness 10000) in paragraph at lines 4275--4277 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2115] [2116] [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} [2127] [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 1622) in paragraph at lines 5567--5571 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2136] [2137] [2138] [2139] [2140] [2141] Underfull \hbox (badness 1448) in paragraph at lines 5946--5951 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6492. Underfull \hbox (badness 1371) in paragraph at lines 6496--6498 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2150] Underfull \hbox (badness 1502) in paragraph at lines 6585--6590 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6585--6590 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2151] [2152] [2153] Underfull \hbox (badness 10000) in paragraph at lines 6758--6767 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2154] Underfull \hbox (badness 2150) in paragraph at lines 6822--6825 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2155] [2156] Underfull \hbox (badness 3118) in paragraph at lines 6961--6963 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2157] [2158] [2159] Underfull \hbox (badness 1325) in paragraph at lines 7140--7144 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2160] Underfull \hbox (badness 1424) in paragraph at lines 7232--7235 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2161] Underfull \hbox (badness 3219) in paragraph at lines 7303--7310 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7303--7310 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7311--7314 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2162] Underfull \hbox (badness 1024) in paragraph at lines 7438--7441 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2163] Underfull \hbox (badness 10000) in paragraph at lines 7471--7476 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] Underfull \hbox (badness 10000) in paragraph at lines 8175--8177 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] Underfull \hbox (badness 2310) in paragraph at lines 8935--8940 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] Underfull \hbox (badness 1248) in paragraph at lines 9461--9465 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2196] Underfull \hbox (badness 1789) in paragraph at lines 9541--9543 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 1097) in paragraph at lines 10378--10381 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2210] [2211] Underfull \hbox (badness 3000) in paragraph at lines 10514--10519 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 2134) in paragraph at lines 11103--11108 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2221] Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] Underfull \hbox (badness 2469) in paragraph at lines 11653--11657 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11653--11657 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2230] [2231] [2232] [2233] [2234] [2235] Underfull \hbox (badness 4060) in paragraph at lines 12077--12080 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12100--12100 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2236] [2237] [2238] [2239] Underfull \hbox (badness 2150) in paragraph at lines 12355--12357 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2240] [2241] [2242] [2243] Underfull \hbox (badness 10000) in paragraph at lines 12575--12579 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12608--12614 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2244] Underfull \hbox (badness 2762) in paragraph at lines 12623--12631 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2245] [2246] Underfull \hbox (badness 1009) in paragraph at lines 12802--12814 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12842--12844 []\T1/ptm/m/n/10 The file `\T1/zi4/m/it/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/it/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2247] Underfull \hbox (badness 1077) in paragraph at lines 12872--12879 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2248] [2249] [2250] [2251] [2252] [2253] [2254] Underfull \hbox (badness 3780) in paragraph at lines 13280--13284 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/it/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 13296--13299 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/it/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2255] [2256] [2257] Underfull \hbox (badness 2302) in paragraph at lines 13501--13503 []\T1/ptm/m/n/10 Convert file paths to the short form. 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Ob- [2270] [2271] [2272] Underfull \hbox (badness 1460) in paragraph at lines 14407--14415 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). 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Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 567--573 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1578--1584 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2056--2056 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 1721) in paragraph at lines 2720--2724 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 3901--3903 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Underfull \hbox (badness 2521) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6387--6387 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] Underfull \hbox (badness 1303) in paragraph at lines 7281--7288 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14099--14101 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14175--14179 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14219--14221 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14321--14326 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14368--14371 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14499--14503 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14510--14513 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14807--14811 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15588--15591 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15694--15696 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15767--15771 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16379--16383 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16379--16383 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16552--16557 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16805--16809 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18257--18260 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18529--18531 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18535--18544 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19143--19145 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19474--19480 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19719--19722 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19982--19984 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20209--20212 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21066--21071 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21154--21163 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21164--21179 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21214--21217 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21214--21217 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21348--21353 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22197--22205 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22231--22234 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23028--23030 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24121--24127 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24618--24621 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24941--24944 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25148--25154 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25538--25541 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26159--26161 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27054--27057 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27078--27080 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27219--27223 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27276--27281 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27570--27576 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27583--27586 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27609--27611 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27651--27656 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27657--27668 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27669--27672 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28069--28073 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28216--28219 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28297--28301 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28297--28301 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28302--28311 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29298--29301 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30048--30051 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31085--31088 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31248--31259 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32911--32915 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32932--32934 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32935--32939 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33529--33531 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34735--34740 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35855--35866 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37386--37388 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37806--37810 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38052--38056 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38057--38061 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38097--38103 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38112--38119 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38112--38119 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38347--38351 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38500--38506 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39801--39803 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40391--40397 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40410--40415 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40530--40535 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41077--41080 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 42003--42007 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42254--42257 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42438--42442 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43064--43067 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43986--43994 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43986--43994 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44955--44961 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45353--45355 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45483--45487 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45691--45696 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45937--45939 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46302--46306 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46363--46367 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] Underfull \vbox (badness 1448) has occurred while \output is active [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] Overfull \vbox (19.74611pt too high) has occurred while \output is active [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \vbox (badness 10000) has occurred while \output is active [787] [788] [789] [790] Underfull \vbox (badness 10000) has occurred while \output is active [791] [792] [793] [794] [795] [796] [797] [798] [799] [800]) (./grDevices-pkg.tex Chapter 4. [801] [802] [803] [804] [805] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [806] [807] [808] [809] [810] [811] [812] [813] [814] [815] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [816] [817] [818] [819] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [820] [821] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [822] [823] [824] [825] [826] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [827] [828] [829] [830] [831] [832] [833] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [834] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [835] [836] [837] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [838] [839] [840] [841] [842] [843] [844] [845] [846] [847] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] Underfull \vbox (badness 3803) has occurred while \output is active [860] [861] [862] [863] Underfull \vbox (badness 3803) has occurred while \output is active [864] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [865] [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] Underfull \vbox (badness 3803) has occurred while \output is active [877] [878] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [879] [880] [881] [882] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [883] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [884] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [885] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [886] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [887] Underfull \vbox (badness 3803) has occurred while \output is active [888] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [889] [890] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [891] [892] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [893] [894] [895] [896] [897] [898] [899] [900] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [901] [902] Underfull \vbox (badness 3803) has occurred while \output is active [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [915] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [916] [917] [918] [919] [920] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [921] [922] [923] [924] [925] [926]) (./graphics-pkg.tex Chapter 5. [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [943] [944] [945] [946] [947] [948] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [966] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] Underfull \vbox (badness 10000) has occurred while \output is active [990] Underfull \vbox (badness 10000) has occurred while \output is active [991] [992] [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1003] [1004] [1005] [1006] [1007] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1008] [1009] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1010 >/library/graphics/help/figures/mai.pdf> ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1011] [1012 >/library/graphics/help/figures/oma.pdf> ] [1013] [1014] Underfull \vbox (badness 3803) has occurred while \output is active [1015] [1016] [1017] [1018] [1019] [1020] [1021]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1036 >/library/graphics/help/figures/pch.pdf> ] [1037] Underfull \vbox (badness 3803) has occurred while \output is active [1038] [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1071]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1072] [1073] [1074] [1075]) (./grid-pkg.tex [1076] Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1086] [1087] [1088] [1089] [1090] Overfull \vbox (10.43605pt too high) has occurred while \output is active [1091] [1092] [1093] [1094] [1095] [1096] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1097] [1098] [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1157] [1158] [1159] [1160] [1161] [1162] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1163] [1164] [1165] [1166] [1167] [1168] [1169] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1170] [1171] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203]) (./methods-pkg.tex [1204] Chapter 7. [1205] [1206] [1207] [1208] [1209] [1210] [1211] [1212] Underfull \vbox (badness 10000) has occurred while \output is active [1213] Underfull \vbox (badness 10000) has occurred while \output is active [1214] [1215] [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1224] [1225] [1226] [1227] [1228] [1229] [1230] [1231] [1232] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1233] [1234] [1235] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1236] [1237] [1238] [1239] [1240] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1241] [1242] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1243] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1244] [1245] [1246] [1247] [1248] [1249] [1250] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1251] [1252] [1253] [1254] [1255] [1256] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1257] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1258] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1259] [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \vbox (badness 10000) has occurred while \output is active [1279] [1280] [1281] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1282] [1283] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1284] [1285] [1286] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] [1295] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1296] [1297] [1298] [1299] Underfull \vbox (badness 10000) has occurred while \output is active [1300] [1301] [1302]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1303] [1304] [1305]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1306] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1307] [1308] [1309] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] Underfull \vbox (badness 10000) has occurred while \output is active [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1352] [1353] [1354] [1355]) (./parallel-pkg.tex [1356] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1362] [1363] [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1379] [1380] [1381]) (./splines-pkg.tex [1382] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398]) (./stats-pkg.tex Chapter 10. [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1455] [1456] [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1485] [1486] [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1492] [1493] [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1518] [1519] [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] Underfull \vbox (badness 10000) has occurred while \output is active [1540] [1541] [1542] [1543] [1544] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1545] [1546] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1568] [1569] [1570] [1571] [1572] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1573] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1574] [1575] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1588] [1589] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1600] [1601] [1602] [1603] [1604] [1605] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1606] [1607] [1608] [1609] [1610] [1611] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1612] [1613] [1614] [1615] [1616] [1617] [1618] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1629] [1630] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1649] [1650] Underfull \vbox (badness 10000) has occurred while \output is active [1651] [1652] [1653] [1654] [1655] [1656] [1657] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1684] [1685] Underfull \vbox (badness 3803) has occurred while \output is active [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Underfull \vbox (badness 10000) has occurred while \output is active [1688] [1689] [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1702] [1703] [1704] Underfull \vbox (badness 10000) has occurred while \output is active [1705] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1706] [1707] [1708] [1709] [1710] [1711] [1712] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1713] [1714] [1715] [1716] [1717] [1718] [1719] [1720] [1721] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1722] [1723] [1724] [1725] [1726] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1733] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1775] [1776] [1777] [1778] [1779] [1780] [1781] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1782] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1783] [1784] [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1799] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1800] Underfull \vbox (badness 3803) has occurred while \output is active [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1809] [1810] [1811] [1812] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] Underfull \vbox (badness 10000) has occurred while \output is active [1838] [1839] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1840] [1841] [1842] [1843] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1844] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1845] [1846] [1847] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1851] [1852] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] [1857] [1858] [1859] [1860] [1861] [1862] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1873] [1874] [1875] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1876] [1877] [1878] [1879] [1880] [1881] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1882] [1883] [1884] [1885] [1886] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1906] [1907] [1908] Underfull \vbox (badness 10000) has occurred while \output is active [1909] [1910] [1911] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1912] [1913] [1914] [1915] [1916] [1917] [1918] [1919] [1920] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1921] [1922] [1923] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1924] [1925] [1926] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1927] [1928] [1929] [1930] [1931]) (./stats4-pkg.tex [1932] Chapter 11. [1933] [1934] [1935] Underfull \vbox (badness 10000) has occurred while \output is active [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1941] [1942] [1943]) (./tcltk-pkg.tex [1944] Chapter 12. [1945] [1946] [1947] [1948] [1949] [1950] [1951] Underfull \vbox (badness 10000) has occurred while \output is active [1952] Underfull \vbox (badness 10000) has occurred while \output is active [1953] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1954] [1955] [1956] [1957] [1958] Underfull \vbox (badness 10000) has occurred while \output is active [1959] [1960] [1961] [1962] [1963] [1964] [1965] [1966]) (./tools-pkg.tex Chapter 13. [1967] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1968] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1969] [1970] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1971] [1972] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1973] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1974] [1975] [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1986] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1987] [1988] [1989] [1990] [1991] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1992] Underfull \hbox (badness 10000) in paragraph at lines 1595--1598 []\T1/ptm/m/n/10 Internal func-tions []\T1/zi4/m/n/10 CRAN_aliases_db[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 CRAN_archive_db[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CR AN_current_db []\T1/ptm/m/n/10 and [1993] [1994] Underfull \hbox (badness 4096) in paragraph at lines 1714--1722 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1724--1726 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1995] [1996] [1997]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1926 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1927 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1998] [1999] [2000] [2001] [2002] [2003] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2229--2229 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2004] [2005] [2006] Underfull \hbox (badness 4096) in paragraph at lines 2398--2406 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2007] [2008] [2009] [2010] [2011] [2012] [2013] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2892. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2893. [2014] [2015] [2016] [2017] [2018] Underfull \hbox (badness 1424) in paragraph at lines 3195--3197 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2019] [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] Underfull \hbox (badness 10000) in paragraph at lines 3897--3899 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2030] [2031] Underfull \hbox (badness 10000) in paragraph at lines 4036--4039 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2032] [2033] Underfull \hbox (badness 1137) in paragraph at lines 4138--4140 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1796) in paragraph at lines 4446--4451 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2039] Underfull \hbox (badness 4699) in paragraph at lines 4496--4500 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4496--4500 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4524--4530 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4524--4530 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2040] [2041] [2042] [2043] [2044] Underfull \hbox (badness 2197) in paragraph at lines 4799--4809 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4865--4869 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2045] [2046] [2047] [2048]) (./utils-pkg.tex Chapter 14. [2049] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2050] [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2060] [2061] [2062] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2063] [2064] [2065] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2066] [2067] [2068] [2069] [2070] [2071] [2072] [2073] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2074] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2075] [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2085] [2086] [2087] [2088] [2089] [2090]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2710 ... the Clipboard in MS Windows}{clipboard} [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] Underfull \hbox (badness 6842) in paragraph at lines 4007--4012 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2111] Underfull \hbox (badness 1430) in paragraph at lines 4070--4078 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2112] [2113] [2114] Underfull \hbox (badness 10000) in paragraph at lines 4275--4277 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2115] [2116] [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.5044 ...mat Unordered and Ordered Lists}{format} [2127] [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] Underfull \hbox (badness 1622) in paragraph at lines 5567--5571 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2136] [2137] [2138] [2139] [2140] [2141] Underfull \hbox (badness 1448) in paragraph at lines 5946--5951 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2142] [2143] [2144] [2145] [2146] [2147] [2148] [2149] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6492. Underfull \hbox (badness 1371) in paragraph at lines 6496--6498 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2150] Underfull \hbox (badness 1502) in paragraph at lines 6585--6590 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6585--6590 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2151] [2152] [2153] Underfull \hbox (badness 10000) in paragraph at lines 6758--6767 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2154] Underfull \hbox (badness 2150) in paragraph at lines 6822--6825 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2155] [2156] Underfull \hbox (badness 3118) in paragraph at lines 6961--6963 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2157] [2158] [2159] Underfull \hbox (badness 1325) in paragraph at lines 7140--7144 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2160] Underfull \hbox (badness 1424) in paragraph at lines 7232--7235 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2161] Underfull \hbox (badness 3219) in paragraph at lines 7303--7310 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7303--7310 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7303--7310 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7311--7314 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2162] Underfull \hbox (badness 1024) in paragraph at lines 7438--7441 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2163] Underfull \hbox (badness 10000) in paragraph at lines 7471--7476 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2164] [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] Underfull \hbox (badness 10000) in paragraph at lines 8175--8177 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2176] [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] Underfull \hbox (badness 2310) in paragraph at lines 8935--8940 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2188] [2189] [2190] [2191] [2192] [2193] [2194] [2195] Underfull \hbox (badness 1248) in paragraph at lines 9461--9465 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2196] Underfull \hbox (badness 1789) in paragraph at lines 9541--9543 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 1097) in paragraph at lines 10378--10381 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2210] [2211] Underfull \hbox (badness 3000) in paragraph at lines 10514--10519 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2212] [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] Underfull \hbox (badness 2134) in paragraph at lines 11103--11108 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2221] Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11159--11164 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2222] [2223] [2224] [2225] [2226] [2227] [2228] [2229] Underfull \hbox (badness 2469) in paragraph at lines 11653--11657 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11653--11657 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2230] [2231] [2232] [2233] [2234] [2235] Underfull \hbox (badness 4060) in paragraph at lines 12077--12080 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12100--12100 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2236] [2237] [2238] [2239] Underfull \hbox (badness 2150) in paragraph at lines 12355--12357 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2240] [2241] [2242] [2243] Underfull \hbox (badness 10000) in paragraph at lines 12575--12579 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12608--12614 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2244] Underfull \hbox (badness 2762) in paragraph at lines 12623--12631 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2245] [2246] Underfull \hbox (badness 1009) in paragraph at lines 12802--12814 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12842--12844 []\T1/ptm/m/n/10 The file `\T1/zi4/m/it/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/it/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2247] Underfull \hbox (badness 1077) in paragraph at lines 12872--12879 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2248] [2249] [2250] [2251] [2252] [2253] [2254] Underfull \hbox (badness 3780) in paragraph at lines 13280--13284 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/it/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 13296--13299 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/it/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2255] [2256] [2257] Underfull \hbox (badness 2302) in paragraph at lines 13501--13503 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2258] [2259] [2260] [2261] [2262] Underfull \hbox (badness 10000) in paragraph at lines 13800--13805 []\T1/ptm/m/n/10 logical; if []\T1/zi4/m/it/10 TRUE []\T1/ptm/m/n/10 (de-fault) , [][][]\T1/zi4/m/it/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13809--13812 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2263] [2264] [2265] [2266] [2267] [2268] [2269] Underfull \hbox (badness 2932) in paragraph at lines 14242--14249 []\T1/ptm/m/n/10 If []\T1/zi4/m/it/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fa ult) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 14242--14249 \T1/ptm/m/n/10 and se-lected if their []\T1/zi4/m/it/10 extension []\T1/ptm/m/n /10 com-po-nent matches (as a reg-exp) the file name. Ob- [2270] [2271] [2272] Underfull \hbox (badness 1460) in paragraph at lines 14407--14415 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). []\T1/zi4/m/it/10 Rtools []\T1/ptm/m/n/10 4 and ear-lier in-cluded a []\T1/zi4/m/it/10 tar []\T1/ptm/m/n /10 which used [2273] [2274] Underfull \hbox (badness 6510) in paragraph at lines 14557--14561 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 is set to the com-mand []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-men t vari-able Underfull \hbox (badness 10000) in paragraph at lines 14564--14567 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 14564--14567 \T1/zi4/m/it/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2275] [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] [2284] Underfull \hbox (badness 10000) in paragraph at lines 15233--15238 []\T1/ptm/m/n/10 Arguments such as []\T1/zi4/m/it/10 destdir []\T1/ptm/m/n/10 a nd []\T1/zi4/m/it/10 dependencies []\T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 15233--15238 [][][]\T1/zi4/m/it/10 install.packages[][][] []\T1/ptm/m/n/10 and []\T1/zi4/m/i t/10 ignore_repo_cache[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 max_repo_cache_age [ ]\T1/ptm/m/n/10 and Underfull \hbox (badness 1052) in paragraph at lines 15239--15241 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [2285] Underfull \hbox (badness 10000) in paragraph at lines 15298--15301 [][][]\T1/zi4/m/it/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/ it/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download .packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][ ][]\T1/ptm/m/n/10 , [2286] [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294] [2295] [2296] [2297] [2298] [2299] [2300] [2301]) [2302] (./fullrefman.ind [2303] [2304] [2305] [2306] [2307] [2308] [2309] [2310] [2311] [2312] [2313] [2314] [2315] [2316] [2317] [2318] [2319] [2320] [2321] [2322] [2323] [2324] [2325] [2326] [2327] [2328] [2329] [2330] [2331] [2332] [2333] [2334] [2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343] [2344] [2345] [2346] [2347] [2348] [2349] [2350] [2351] [2352] [2353] [2354] [2355] [2356] [2357] [2358] Overfull \hbox (33.3567pt too wide) in paragraph at lines 9679--9681 []\T1/zi4/m/it/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [2359] [2360] [2361] [2362] [2363] [2364] Overfull \hbox (20.8567pt too wide) in paragraph at lines 11038--11040 []\T1/zi4/m/it/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [2365] [2366] [2367] [2368] [2369] [2370] [2371] [2372] Overfull \hbox (5.8567pt too wide) in paragraph at lines 12845--12847 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_depends Overfull \hbox (5.8567pt too wide) in paragraph at lines 12847--12849 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_results Overfull \hbox (5.8567pt too wide) in paragraph at lines 12849--12851 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_timings [2373] [2374] [2375] [2376] [2377] [2378] [2379] [2380] [2381] [2382]) (./fullrefman.aux) LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a 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Transcript written on fullrefman.log. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[1]: Leaving directory '/<>' /usr/bin/make -k vignettes make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' make[3]: Entering directory '/<>/doc/html' make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' make[4]: Entering directory 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directory '/<>/src/library/grDevices' make[4]: Leaving directory '/<>/src/library/grDevices' make[4]: Entering directory '/<>/src/library/graphics' building package 'graphics' make[5]: Entering directory '/<>/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[6]: Entering directory '/<>/src/library/graphics/src' make[7]: Entering directory '/<>/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/<>/src/library/graphics/src' make[6]: Leaving directory '/<>/src/library/graphics/src' make[5]: Leaving directory '/<>/src/library/graphics' make[5]: Entering directory '/<>/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/graphics' make[4]: Leaving directory '/<>/src/library/graphics' make[4]: Entering directory '/<>/src/library/stats' building package 'stats' make[5]: Entering directory '/<>/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[6]: Entering directory '/<>/src/library/stats/src' make[7]: Entering directory '/<>/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/<>/src/library/stats/src' make[6]: Leaving directory '/<>/src/library/stats/src' make[5]: Leaving directory '/<>/src/library/stats' make[5]: Entering directory '/<>/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats' make[4]: Leaving directory '/<>/src/library/stats' make[4]: Entering directory '/<>/src/library/datasets' building package 'datasets' make[5]: Entering directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/datasets' make[4]: Entering directory '/<>/src/library/methods' building package 'methods' make[5]: Entering directory '/<>/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[6]: Entering directory '/<>/src/library/methods/src' make[7]: Entering directory '/<>/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/<>/src/library/methods/src' make[6]: Leaving directory '/<>/src/library/methods/src' make[5]: Leaving directory '/<>/src/library/methods' make[5]: Entering directory '/<>/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/<>/src/library/methods' make[4]: Leaving directory '/<>/src/library/methods' make[4]: Entering directory '/<>/src/library/grid' building package 'grid' make[5]: Entering directory '/<>/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[6]: Entering directory '/<>/src/library/grid/src' make[7]: Entering directory '/<>/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/<>/src/library/grid/src' make[6]: Leaving directory '/<>/src/library/grid/src' make[5]: Leaving directory '/<>/src/library/grid' make[5]: Entering directory '/<>/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/grid' make[4]: Leaving directory '/<>/src/library/grid' make[4]: Entering directory '/<>/src/library/splines' building package 'splines' make[5]: Entering directory '/<>/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[6]: Entering directory '/<>/src/library/splines/src' make[7]: Entering directory '/<>/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/<>/src/library/splines/src' make[6]: Leaving directory '/<>/src/library/splines/src' make[5]: Leaving directory '/<>/src/library/splines' make[5]: Entering directory '/<>/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/splines' make[4]: Leaving directory '/<>/src/library/splines' make[4]: Entering directory '/<>/src/library/stats4' building package 'stats4' make[5]: Entering directory '/<>/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/stats4' make[5]: Entering directory '/<>/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/stats4' make[4]: Leaving directory '/<>/src/library/stats4' make[4]: Entering directory '/<>/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/<>/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/tcltk' make[5]: Entering directory '/<>/src/library/tcltk/src' make[6]: Entering directory '/<>/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Leaving directory '/<>/src/library/tcltk/src' make[5]: Entering directory '/<>/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/tcltk' make[4]: Leaving directory '/<>/src/library/tcltk' make[4]: Entering directory '/<>/src/library/parallel' building package 'parallel' make[5]: Entering directory '/<>/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[6]: Entering directory '/<>/src/library/parallel/src' make[7]: Entering directory '/<>/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/<>/src/library/parallel/src' make[6]: Leaving directory '/<>/src/library/parallel/src' make[5]: Leaving directory '/<>/src/library/parallel' make[5]: Entering directory '/<>/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/<>/src/library/parallel' make[4]: Leaving directory '/<>/src/library/parallel' make[4]: Entering directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[4]: Leaving directory '/<>/src/library/base' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/<>/tests' make[2]: Entering directory '/<>/src/library' building/updating vignettes for package 'grid' ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory building/updating vignettes for package 'parallel' ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory building/updating vignettes for package 'utils' ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory building/updating vignettes for package 'stats' ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory processing 'reshape.Rnw' make[2]: Leaving directory '/<>/src/library' make[1]: Leaving directory '/<>' touch make-indep-stamp fakeroot debian/rules binary *** check *** xvfb-run make check-all make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/tests' make[3]: Entering directory '/<>/tests' make[4]: Entering directory '/<>/tests/Examples' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘base’ Testing examples for package ‘tools’ comparing ‘tools-Ex.Rout’ to ‘tools-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘utils’ Testing examples for package ‘grDevices’ comparing ‘grDevices-Ex.Rout’ to ‘grDevices-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘graphics’ comparing ‘graphics-Ex.Rout’ to ‘graphics-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘stats’ comparing ‘stats-Ex.Rout’ to ‘stats-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘datasets’ comparing ‘datasets-Ex.Rout’ to ‘datasets-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘methods’ Testing examples for package ‘grid’ comparing ‘grid-Ex.Rout’ to ‘grid-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘splines’ comparing ‘splines-Ex.Rout’ to ‘splines-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘stats4’ comparing ‘stats4-Ex.Rout’ to ‘stats4-Ex.Rout.save’ ... NOTE Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Testing examples for package ‘tcltk’ Testing examples for package ‘compiler’ Testing examples for package ‘parallel’ make[4]: Leaving directory '/<>/tests/Examples' make[3]: Leaving directory '/<>/tests' make[3]: Entering directory '/<>/tests' running strict specific tests make[4]: Entering directory '/<>/tests' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory running code in 'eval-etc.R' ... OK comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ...1,6d0 < Warning message: < In normalizePath("~") : < path[1]="/sbuild-nonexistent": No such file or directory < Warning message: < In normalizePath("~") : < path[1]="/sbuild-nonexistent": No such file or directory make[4]: *** [Makefile.common:114: eval-etc.Rout] Error 1 make[4]: Leaving directory '/<>/tests' make[3]: *** [Makefile.common:207: test-Specific] Error 2 make[3]: Leaving directory '/<>/tests' make[2]: *** [Makefile.common:185: test-all-basics] Error 1 make[2]: Leaving directory '/<>/tests' make[1]: *** [Makefile:305: check-all] Error 2 make[1]: Leaving directory '/<>' make: [debian/rules:396: check-stamp] Error 2 (ignored) touch check-stamp *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /<>/debian/r-base-core /usr/bin/make DESTDIR=/<>/debian/r-base-core install make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/m4' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/<>/m4' make[2]: Entering directory '/<>/tools' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/<>/tools' make[2]: Entering directory '/<>/doc' installing doc ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc mkdir -p -- /<>/debian/r-base-core/usr/share/man/man1 make[3]: Entering directory '/<>/doc/html' installing doc/html ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc/html make[3]: Leaving directory '/<>/doc/html' make[3]: Entering directory '/<>/doc/manual' installing doc/manual ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc/manual mkdir -p -- /<>/debian/r-base-core/usr/share/R/doc/manual/images make[3]: Leaving directory '/<>/doc/manual' make[2]: Leaving directory '/<>/doc' make[2]: Entering directory '/<>/etc' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/etc installing etc ... make[2]: Leaving directory '/<>/etc' make[2]: Entering directory '/<>/share' installing share ... mkdir -p -- /<>/debian/r-base-core/usr/share/R/share mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/R mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/dictionaries mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/encodings mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/java mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/licenses mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/make mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/Rd mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/Rd/macros mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf/bibtex/bib mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf/bibtex/bst mkdir -p -- /<>/debian/r-base-core/usr/share/R/share/texmf/tex/latex make[2]: Leaving directory '/<>/share' make[2]: Entering directory '/<>/src' make[3]: Entering directory '/<>/src/scripts' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory '/<>/src/scripts' make[3]: Entering directory '/<>/src/include' make[4]: Entering directory '/<>/src/include/R_ext' mkdir -p -- /<>/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory '/<>/src/include/R_ext' make[3]: Leaving directory '/<>/src/include' make[3]: Entering directory '/<>/src/extra' make[4]: Entering directory '/<>/src/extra/blas' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/blas' make[4]: Entering directory '/<>/src/extra/tre' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/tre' make[4]: Entering directory '/<>/src/extra/tzone' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/tzone' make[4]: Entering directory '/<>/src/extra/xdr' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/xdr' make[4]: Entering directory '/<>/src/extra/intl' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/<>/src/extra/intl' make[3]: Leaving directory '/<>/src/extra' make[3]: Entering directory '/<>/src/appl' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/<>/src/appl' make[3]: Entering directory '/<>/src/nmath' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/<>/src/nmath' make[3]: Entering directory '/<>/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c mkdir -p -- /<>/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory '/<>/src/unix' make[3]: Entering directory '/<>/src/main' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/bin/exec make[4]: Entering directory '/<>/src/main' make[4]: Leaving directory '/<>/src/main' make[4]: Entering directory '/<>/src/main' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/lib make[4]: Leaving directory '/<>/src/main' make[3]: Leaving directory '/<>/src/main' make[3]: Entering directory '/<>/src/modules' make[4]: Entering directory '/<>/src/modules/internet' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory '/<>/src/modules/internet' make[4]: Entering directory '/<>/src/modules/lapack' make[4]: Leaving directory '/<>/src/modules/lapack' make[4]: Entering directory '/<>/src/modules/X11' make[4]: Leaving directory '/<>/src/modules/X11' make[3]: Leaving directory '/<>/src/modules' make[3]: Entering directory '/<>/src/library' mkdir -p -- /<>/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory make[3]: Leaving directory '/<>/src/library' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>/tests' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/<>/tests' make[1]: Leaving directory '/<>' (cd src/unix; \ rm -vf Rscript /<>/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ FFLAGS="-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/<>/debian/r-base-core \ install-Rscript ) removed 'Rscript' removed '/<>/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory '/<>/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -Wl,-Bsymbolic-functions -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c make[1]: Leaving directory '/<>/src/unix' #ls -ltr /<>/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /<>/debian/r-base-core/usr/bin/ 'src/unix/Rscript' -> '/<>/debian/r-base-core/usr/bin/Rscript' #ls -ltr /<>/debian/r-base-core/usr/bin/ #strings /<>/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/<>/debian/r-base-core install ) make[1]: Entering directory '/<>/src/nmath/standalone' make[2]: Entering directory '/<>/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/<>/src/include' /<>/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory '/<>/src/nmath/standalone' chmod a+x /<>/debian/r-base-core/usr/share/R/share/sh/echo.sh rm -v /<>/debian/r-base-core/usr/lib/R/COPYING removed '/<>/debian/r-base-core/usr/lib/R/COPYING' (cd /<>/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /<>/debian/r-base-core/usr/share/R/doc/COPYING removed '/<>/debian/r-base-core/usr/share/R/doc/COPYING' (cd /<>/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING) (cd /<>/debian/r-base-core/usr/share/texmf/tex/latex && \ ln -s ../../../R/share/texmf R) dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html dh_movefiles --sourcedir=debian/r-base-core -pr-base-html make prefix=/<>/debian/r-base-core/usr \ rdocdir=/<>/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc/manual' Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/sbuild-nonexistent": No such file or directory installing R manuals in PDF format ... make[2]: Leaving directory '/<>/doc/manual' make[1]: Leaving directory '/<>' make prefix=/<>/debian/r-base-core/usr \ infodir=/<>/debian/r-base-core/usr/share/info install-info make[1]: Entering directory '/<>' make[2]: Entering directory '/<>/doc/manual' mkdir -p -- /<>/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/<>/debian/r-base-core/usr/share/info" installing R info pages ... updating '/<>/debian/r-base-core/usr/share/info/dir' ... you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually you need to adjust /<>/debian/r-base-core/usr/share/info/dir manually make[2]: Leaving directory '/<>/doc/manual' make[1]: Leaving directory '/<>' dh_movefiles --sourcedir=debian/r-base-core -pr-doc-pdf dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html gunzip -9v /<>/debian/r-base-core/usr/share/info/*.gz /<>/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 67.2% -- replaced with /<>/debian/r-base-core/usr/share/info/R-FAQ.info /<>/debian/r-base-core/usr/share/info/R-admin.info.gz: 68.3% -- replaced with /<>/debian/r-base-core/usr/share/info/R-admin.info /<>/debian/r-base-core/usr/share/info/R-data.info.gz: 70.9% -- replaced with /<>/debian/r-base-core/usr/share/info/R-data.info /<>/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 66.8% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info-1 /<>/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 68.1% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info-2 /<>/debian/r-base-core/usr/share/info/R-exts.info-3.gz: 78.5% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info-3 /<>/debian/r-base-core/usr/share/info/R-exts.info.gz: 70.2% -- replaced with /<>/debian/r-base-core/usr/share/info/R-exts.info /<>/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.4% -- replaced with /<>/debian/r-base-core/usr/share/info/R-intro.info /<>/debian/r-base-core/usr/share/info/R-ints.info.gz: 68.7% -- replaced with /<>/debian/r-base-core/usr/share/info/R-ints.info /<>/debian/r-base-core/usr/share/info/R-lang.info.gz: 71.9% -- replaced with /<>/debian/r-base-core/usr/share/info/R-lang.info dh_movefiles --sourcedir=debian/r-base-core -pr-doc-info rm -vf /<>/debian/r-doc-info/usr/share/info/dir \ /<>/debian/r-doc-info/usr/share/info/dir.old removed '/<>/debian/r-doc-info/usr/share/info/dir' touch install-indep-stamp dh_installdirs -pr-mathlib usr/include usr/lib \ usr/share/lintian/overrides \ usr/lib/pkgconfig dh_movefiles --sourcedir=debian/r-base-core -pr-mathlib (cd /<>/debian/r-mathlib/usr/lib; \ ls -l ; \ mv -v libRmath.so libRmath.so.1.0.0; \ ln -sv libRmath.so.1.0.0 libRmath.so.1; \ ln -sv libRmath.so.1 libRmath.so) total 3212 -rw-rw-r-- 1 root root 2168644 Jun 23 11:46 libRmath.a -rwxrwxr-x 1 root root 1112032 Jun 23 11:46 libRmath.so drwxr-xr-x 2 root root 4096 Jun 23 11:46 pkgconfig renamed 'libRmath.so' -> 'libRmath.so.1.0.0' 'libRmath.so.1' -> 'libRmath.so.1.0.0' 'libRmath.so' -> 'libRmath.so.1' install -m 0644 src/include/Rmath.h \ /<>/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /<>/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /<>/debian/r-base-core/etc/R (cd /<>/debian/r-base-core/usr/lib/R/etc; \ cat /<>/debian/Renviron-R_LIBS.patch | patch --dry-run; \ mv Makeconf repositories ldpaths ../../../../etc/R/; \ mv Renviron Renviron.ucf; \ ln -s /etc/R/Makeconf .; \ ln -s /etc/R/Renviron .; \ ln -s /etc/R/Renviron.site .; \ ln -s /etc/R/Rprofile.site .; \ ln -s /etc/R/ldpaths .; \ ln -s /etc/R/repositories . ) checking file Renviron Hunk #1 succeeded at 51 with fuzz 2 (offset 18 lines). dh_bash-completion # edd 12 Jan 2016 new location #install -m 0644 debian/R.bash-completion \ # debian/r-base-core/usr/share/bash-completion/completions/R (cd /<>/debian/r-base-core/usr/lib/; \ ln -sv R/lib/libR.so . ) './libR.so' -> 'R/lib/libR.so' (cd debian/icon-class-patch && munpack rlogo_icon.png.mpack) rlogo_icon.png (application/octet-stream) install -m 0644 debian/icon-class-patch/rlogo_icon.png \ debian/r-base-core/usr/share/icons/hicolor/48x48/apps install -m 0644 debian/icon-class-patch/Rlogo.svg \ debian/r-base-core/usr/share/icons/hicolor/scalable/apps/rlogo_icon.svg install -m 0644 debian/icon-class-patch/R.desktop \ debian/r-base-core/usr/share/applications rm debian/icon-class-patch/rlogo_icon.png touch install-arch-stamp *** binary-arch *** dh_testdir -a dh_testroot -a dh_installdocs -pr-base-core doc/NEWS.* README \ debian/README.Atlas \ debian/README.mathlib dh_installdocs -pr-mathlib doc/NEWS.* README \ debian/README.mathlib dh_installexamples -pr-mathlib src/nmath/standalone/test.c #dh_installmenu -a # (cd /<>/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/doc .) (cd /<>/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../R/doc .) (cd /<>/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/library .) install -p -m 0644 debian/r-base-core.lintian \ /<>/debian/r-base-core/usr/share/lintian/overrides/r-base-core install -p -m 0644 debian/r-recommended.lintian \ /<>/debian/r-recommended/usr/share/lintian/overrides/r-recommended install -p -m 0644 debian/r-mathlib.lintian \ /<>/debian/r-mathlib/usr/share/lintian/overrides/r-mathlib dh_installchangelogs -a -k doc/NEWS dh_strip -a dh_compress -a dh_fixperms -a dh_link -a dh_makeshlibs -a dh_installdeb -a dh_perl -a dh_shlibdeps -a -l /<>/debian/r-base-core/usr/lib/R/lib dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtcl8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtk8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package r-base-core: substitution variable ${perl:Depends} used, but is not defined dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package 'r-base-core' in '../r-base-core_4.2.1-0.2004.0_amd64.deb'. INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package 'r-mathlib' in '../r-mathlib_4.2.1-0.2004.0_amd64.deb'. *** binary-indep *** dh_testdir -i dh_testroot -i dh_link -i dh_installdocs -i dh_installdocs -v -pr-doc-html install -p -m0644 debian/copyright debian/r-doc-html/usr/share/doc/r-doc-html/copyright install -p -m0644 debian/r-doc-html.doc-base.data debian/r-doc-html/usr/share/doc-base/r-data install -p -m0644 debian/r-doc-html.doc-base.faq debian/r-doc-html/usr/share/doc-base/r-faq install -p -m0644 debian/r-doc-html.doc-base.lang debian/r-doc-html/usr/share/doc-base/r-language install -p -m0644 debian/r-doc-html.doc-base.ints debian/r-doc-html/usr/share/doc-base/r-ints install -p -m0644 debian/r-doc-html.doc-base.intro debian/r-doc-html/usr/share/doc-base/r-intro install -p -m0644 debian/r-doc-html.doc-base.exts debian/r-doc-html/usr/share/doc-base/r-extensions install -p -m0644 debian/r-doc-html.doc-base.admin debian/r-doc-html/usr/share/doc-base/r-admin dh_installchangelogs -i dh_installdirs -pr-base-dev usr/share/R/debian install -p -m 0755 debian/r-cran.mk \ /<>/debian/r-base-dev/usr/share/R/debian dh_compress -i dh_fixperms -i dh_installdeb -i dh_gencontrol -i dh_md5sums -i dh_builddeb -i INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build INFO: Disabling pkgstripfiles for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package 'r-base' in '../r-base_4.2.1-0.2004.0_all.deb'. dpkg-deb: building package 'r-doc-html' in '../r-doc-html_4.2.1-0.2004.0_all.deb'. dpkg-deb: building package 'r-recommended' in '../r-recommended_4.2.1-0.2004.0_all.deb'. INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package 'r-base-html' in '../r-base-html_4.2.1-0.2004.0_all.deb'. INFO: pkgstriptranslations version 144 INFO: Disabling pkgstriptranslations for PPA build INFO: pkgstriptranslations version 144 INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package 'r-base-dev' in '../r-base-dev_4.2.1-0.2004.0_all.deb'. INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package 'r-doc-pdf' in '../r-doc-pdf_4.2.1-0.2004.0_all.deb'. INFO: pkgstriptranslations version 144 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package 'r-doc-info' in '../r-doc-info_4.2.1-0.2004.0_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../r-base_4.2.1-0.2004.0_amd64.changes dpkg-genchanges: warning: the current version (4.2.1-0.2004.0) is earlier than the previous one (4.2.1-1) dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2022-06-23T11:48:08Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ r-base_4.2.1-0.2004.0_amd64.changes: ------------------------------------ Format: 1.8 Date: Thu, 23 Jun 2022 05:46:14 -0500 Source: r-base Binary: r-base r-base-core r-base-dev r-base-html r-doc-html r-doc-info r-doc-pdf r-mathlib r-recommended Architecture: amd64 all Version: 4.2.1-0.2004.0 Distribution: focal Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Dirk Eddelbuettel Description: r-base - GNU R statistical computation and graphics system r-base-core - GNU R core of statistical computation and graphics system r-base-dev - GNU R installation of auxiliary GNU R packages r-base-html - GNU R html docs for statistical computing system functions r-doc-html - GNU R html manuals for statistical computing system r-doc-info - GNU R info manuals statistical computing system r-doc-pdf - GNU R pdf manuals for statistical computing system r-mathlib - GNU R standalone mathematics library r-recommended - GNU R collection of recommended packages [metapackage] Changes: r-base 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amd64 Build-Date: Thu, 23 Jun 2022 11:48:06 +0000 Build-Path: /<> Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.1-4ubuntu6), autopoint (= 0.19.8.1-10build1), autotools-dev (= 20180224.1), base-files (= 11ubuntu5.5), base-passwd (= 3.5.47), bash (= 5.0-6ubuntu1.2), bash-completion (= 1:2.10-1ubuntu1), binutils (= 2.34-6ubuntu1.3), binutils-common (= 2.34-6ubuntu1.3), binutils-x86-64-linux-gnu (= 2.34-6ubuntu1.3), bison (= 2:3.5.1+dfsg-1), bsdmainutils (= 11.1.2ubuntu3), bsdutils (= 1:2.34-0.1ubuntu9.3), build-essential (= 12.8ubuntu1.1), bzip2 (= 1.0.8-2), ca-certificates (= 20211016~20.04.1), ca-certificates-java (= 20190405ubuntu1), coreutils (= 8.30-3ubuntu2), cpp (= 4:9.3.0-1ubuntu2), cpp-9 (= 9.4.0-1ubuntu1~20.04.1), dash (= 0.5.10.2-6), debconf (= 1.5.73), debhelper (= 12.10ubuntu1), debianutils (= 4.9.1), default-jdk (= 2:1.11-72), default-jdk-headless (= 2:1.11-72), default-jre (= 2:1.11-72), default-jre-headless (= 2:1.11-72), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.7.0-1), diffutils (= 1:3.7-3), dpkg (= 1.19.7ubuntu3.2), dpkg-dev (= 1.19.7ubuntu3.2), dwz (= 0.13-5), file (= 1:5.38-4), findutils (= 4.7.0-1ubuntu1), fontconfig (= 2.13.1-2ubuntu3), fontconfig-config (= 2.13.1-2ubuntu3), fonts-dejavu-core (= 2.37-1), fonts-lmodern (= 2.004.5-6), g++ (= 4:9.3.0-1ubuntu2), g++-9 (= 9.4.0-1ubuntu1~20.04.1), gcc (= 4:9.3.0-1ubuntu2), gcc-10-base (= 10.3.0-1ubuntu1~20.04), gcc-9 (= 9.4.0-1ubuntu1~20.04.1), gcc-9-base (= 9.4.0-1ubuntu1~20.04.1), gettext (= 0.19.8.1-10build1), gettext-base (= 0.19.8.1-10build1), gfortran (= 4:9.3.0-1ubuntu2), gfortran-9 (= 9.4.0-1ubuntu1~20.04.1), gir1.2-freedesktop (= 1.64.1-1~ubuntu20.04.1), gir1.2-glib-2.0 (= 1.64.1-1~ubuntu20.04.1), gir1.2-harfbuzz-0.0 (= 2.6.4-1ubuntu4), gir1.2-pango-1.0 (= 1.44.7-2ubuntu4), grep (= 3.4-1), groff-base (= 1.22.4-4build1), gzip (= 1.10-0ubuntu4.1), hostname (= 3.23), icu-devtools (= 66.1-2ubuntu2.1), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), java-common (= 0.72), libacl1 (= 2.2.53-6), libapache-pom-java (= 18-1), libarchive-zip-perl (= 1.67-2), libasan5 (= 9.4.0-1ubuntu1~20.04.1), libasn1-8-heimdal (= 7.7.0+dfsg-1ubuntu1), libasound2 (= 1.2.2-2.1ubuntu2.5), libasound2-data (= 1.2.2-2.1ubuntu2.5), libatomic1 (= 10.3.0-1ubuntu1~20.04), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-2ubuntu6), libaudit1 (= 1:2.8.5-2ubuntu6), libavahi-client3 (= 0.7-4ubuntu7.1), libavahi-common-data (= 0.7-4ubuntu7.1), libavahi-common3 (= 0.7-4ubuntu7.1), libbinutils (= 2.34-6ubuntu1.3), libblas-dev (= 3.9.0-1build1), libblas3 (= 3.9.0-1build1), libblkid-dev (= 2.34-0.1ubuntu9.3), libblkid1 (= 2.34-0.1ubuntu9.3), libbrotli1 (= 1.0.7-6ubuntu0.1), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-2), libbz2-dev (= 1.0.8-2), libc-bin (= 2.31-0ubuntu9.9), libc-dev-bin (= 2.31-0ubuntu9.9), libc6 (= 2.31-0ubuntu9.9), libc6-dev (= 2.31-0ubuntu9.9), libcairo-gobject2 (= 1.16.0-4ubuntu1), libcairo-script-interpreter2 (= 1.16.0-4ubuntu1), libcairo2 (= 1.16.0-4ubuntu1), libcairo2-dev (= 1.16.0-4ubuntu1), libcap-ng0 (= 0.7.9-2.1build1), libcc1-0 (= 10.3.0-1ubuntu1~20.04), libcom-err2 (= 1.45.5-2ubuntu1.1), libcommons-logging-java (= 1.2-2), libcommons-parent-java (= 43-1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.10-10ubuntu4), libcrypt1 (= 1:4.4.10-10ubuntu4), libctf-nobfd0 (= 2.34-6ubuntu1.3), libctf0 (= 2.34-6ubuntu1.3), libcups2 (= 2.3.1-9ubuntu1.2), libcurl4 (= 7.68.0-1ubuntu2.11), libcurl4-openssl-dev (= 7.68.0-1ubuntu2.11), libdatrie-dev (= 0.2.12-3), libdatrie1 (= 0.2.12-3), libdb5.3 (= 5.3.28+dfsg1-0.6ubuntu2), libdbus-1-3 (= 1.12.16-2ubuntu2.2), libdebconfclient0 (= 0.251ubuntu1), libdebhelper-perl (= 12.10ubuntu1), libdpkg-perl (= 1.19.7ubuntu3.2), libdrm-amdgpu1 (= 2.4.107-8ubuntu1~20.04.2), libdrm-common (= 2.4.107-8ubuntu1~20.04.2), libdrm-intel1 (= 2.4.107-8ubuntu1~20.04.2), libdrm-nouveau2 (= 2.4.107-8ubuntu1~20.04.2), libdrm-radeon1 (= 2.4.107-8ubuntu1~20.04.2), libdrm2 (= 2.4.107-8ubuntu1~20.04.2), libedit2 (= 3.1-20191231-1), libelf1 (= 0.176-1.1build1), libexpat1 (= 2.2.9-1ubuntu0.4), libexpat1-dev (= 2.2.9-1ubuntu0.4), libffi-dev (= 3.3-4), libffi7 (= 3.3-4), libfile-stripnondeterminism-perl (= 1.7.0-1), libfontbox-java (= 1:1.8.16-2), libfontconfig1 (= 2.13.1-2ubuntu3), libfontconfig1-dev (= 2.13.1-2ubuntu3), libfontenc1 (= 1:1.1.4-0ubuntu1), libfreetype-dev (= 2.10.1-2ubuntu0.1), libfreetype6 (= 2.10.1-2ubuntu0.1), libfreetype6-dev (= 2.10.1-2ubuntu0.1), libfribidi-dev (= 1.0.8-2ubuntu0.1), libfribidi0 (= 1.0.8-2ubuntu0.1), libgcc-9-dev (= 9.4.0-1ubuntu1~20.04.1), libgcc-s1 (= 10.3.0-1ubuntu1~20.04), libgcrypt20 (= 1.8.5-5ubuntu1.1), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libgfortran-9-dev (= 9.4.0-1ubuntu1~20.04.1), libgfortran5 (= 10.3.0-1ubuntu1~20.04), libgif7 (= 5.1.9-1), libgirepository-1.0-1 (= 1.64.1-1~ubuntu20.04.1), libgl1 (= 1.3.2-1~ubuntu0.20.04.2), libgl1-mesa-dri (= 21.2.6-0ubuntu0.1~20.04.2), libglapi-mesa (= 21.2.6-0ubuntu0.1~20.04.2), libglib2.0-0 (= 2.64.6-1~ubuntu20.04.4), libglib2.0-bin (= 2.64.6-1~ubuntu20.04.4), libglib2.0-data (= 2.64.6-1~ubuntu20.04.4), libglib2.0-dev (= 2.64.6-1~ubuntu20.04.4), libglib2.0-dev-bin (= 2.64.6-1~ubuntu20.04.4), libglvnd0 (= 1.3.2-1~ubuntu0.20.04.2), libglx-mesa0 (= 21.2.6-0ubuntu0.1~20.04.2), libglx0 (= 1.3.2-1~ubuntu0.20.04.2), libgmp10 (= 2:6.2.0+dfsg-4), libgnutls30 (= 3.6.13-2ubuntu1.6), libgomp1 (= 10.3.0-1ubuntu1~20.04), libgpg-error0 (= 1.37-1), libgraphite2-3 (= 1.3.13-11build1), libgraphite2-dev (= 1.3.13-11build1), libgssapi-krb5-2 (= 1.17-6ubuntu4.1), libgssapi3-heimdal (= 7.7.0+dfsg-1ubuntu1), libharfbuzz-dev (= 2.6.4-1ubuntu4), libharfbuzz-gobject0 (= 2.6.4-1ubuntu4), libharfbuzz-icu0 (= 2.6.4-1ubuntu4), libharfbuzz0b (= 2.6.4-1ubuntu4), libhcrypto4-heimdal (= 7.7.0+dfsg-1ubuntu1), libheimbase1-heimdal (= 7.7.0+dfsg-1ubuntu1), libheimntlm0-heimdal (= 7.7.0+dfsg-1ubuntu1), libhogweed5 (= 3.5.1+really3.5.1-2ubuntu0.2), libhx509-5-heimdal (= 7.7.0+dfsg-1ubuntu1), libice-dev (= 2:1.0.10-0ubuntu1), libice6 (= 2:1.0.10-0ubuntu1), libicu-dev (= 66.1-2ubuntu2.1), libicu66 (= 66.1-2ubuntu2.1), libidn2-0 (= 2.2.0-2), libisl22 (= 0.22.1-1), libitm1 (= 10.3.0-1ubuntu1~20.04), libjbig-dev (= 2.1-3.1build1), libjbig0 (= 2.1-3.1build1), libjpeg-dev (= 8c-2ubuntu8), libjpeg-turbo8 (= 2.0.3-0ubuntu1.20.04.1), libjpeg-turbo8-dev (= 2.0.3-0ubuntu1.20.04.1), libjpeg8 (= 8c-2ubuntu8), libjpeg8-dev (= 8c-2ubuntu8), libk5crypto3 (= 1.17-6ubuntu4.1), libkeyutils1 (= 1.6-6ubuntu1.1), libkpathsea6 (= 2019.20190605.51237-3build2), libkrb5-26-heimdal (= 7.7.0+dfsg-1ubuntu1), libkrb5-3 (= 1.17-6ubuntu4.1), libkrb5support0 (= 1.17-6ubuntu4.1), liblapack-dev (= 3.9.0-1build1), liblapack3 (= 3.9.0-1build1), liblcms2-2 (= 2.9-4), libldap-2.4-2 (= 2.4.49+dfsg-2ubuntu1.9), libldap-common (= 2.4.49+dfsg-2ubuntu1.9), libllvm12 (= 1:12.0.0-3ubuntu1~20.04.5), liblsan0 (= 10.3.0-1ubuntu1~20.04), liblz4-1 (= 1.9.2-2ubuntu0.20.04.1), liblzma-dev (= 5.2.4-1ubuntu1.1), liblzma5 (= 5.2.4-1ubuntu1.1), liblzo2-2 (= 2.10-2), libmagic-mgc (= 1:5.38-4), libmagic1 (= 1:5.38-4), libmime-charset-perl (= 1.012.2-1), libmount-dev (= 2.34-0.1ubuntu9.3), libmount1 (= 2.34-0.1ubuntu9.3), libmpc3 (= 1.1.0-1), libmpdec2 (= 2.4.2-3), libmpfr6 (= 4.0.2-1), libncurses-dev (= 6.2-0ubuntu2), libncurses5-dev (= 6.2-0ubuntu2), libncurses6 (= 6.2-0ubuntu2), libncursesw6 (= 6.2-0ubuntu2), libnettle7 (= 3.5.1+really3.5.1-2ubuntu0.2), libnghttp2-14 (= 1.40.0-1build1), libnspr4 (= 2:4.25-1), libnss3 (= 2:3.49.1-1ubuntu1.7), libp11-kit0 (= 0.23.20-1ubuntu0.1), libpam-modules (= 1.3.1-5ubuntu4.3), libpam-modules-bin (= 1.3.1-5ubuntu4.3), libpam-runtime (= 1.3.1-5ubuntu4.3), libpam0g (= 1.3.1-5ubuntu4.3), libpango-1.0-0 (= 1.44.7-2ubuntu4), libpango1.0-dev (= 1.44.7-2ubuntu4), libpangocairo-1.0-0 (= 1.44.7-2ubuntu4), libpangoft2-1.0-0 (= 1.44.7-2ubuntu4), libpangoxft-1.0-0 (= 1.44.7-2ubuntu4), libpaper-utils (= 1.1.28), libpaper1 (= 1.1.28), libpciaccess0 (= 0.16-0ubuntu1), libpcre16-3 (= 2:8.39-12ubuntu0.1), libpcre2-16-0 (= 10.34-7), libpcre2-32-0 (= 10.34-7), libpcre2-8-0 (= 10.34-7), libpcre2-dev (= 10.34-7), libpcre2-posix2 (= 10.34-7), libpcre3 (= 2:8.39-12ubuntu0.1), libpcre3-dev (= 2:8.39-12ubuntu0.1), libpcre32-3 (= 2:8.39-12ubuntu0.1), libpcrecpp0v5 (= 2:8.39-12ubuntu0.1), libpcsclite1 (= 1.8.26-3), libpdfbox-java (= 1:1.8.16-2), libperl5.30 (= 5.30.0-9ubuntu0.2), libpipeline1 (= 1.5.2-2build1), libpixman-1-0 (= 0.38.4-0ubuntu1), libpixman-1-dev (= 0.38.4-0ubuntu1), libpng-dev (= 1.6.37-2), libpng16-16 (= 1.6.37-2), libpsl5 (= 0.21.0-1ubuntu1), libptexenc1 (= 2019.20190605.51237-3build2), libpthread-stubs0-dev (= 0.4-1), libpython3-stdlib (= 3.8.2-0ubuntu2), libpython3.8-minimal (= 3.8.10-0ubuntu1~20.04.4), libpython3.8-stdlib (= 3.8.10-0ubuntu1~20.04.4), libquadmath0 (= 10.3.0-1ubuntu1~20.04), libreadline-dev (= 8.0-4), libreadline8 (= 8.0-4), libroken18-heimdal (= 7.7.0+dfsg-1ubuntu1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build1), libsasl2-2 (= 2.1.27+dfsg-2ubuntu0.1), libsasl2-modules-db (= 2.1.27+dfsg-2ubuntu0.1), libseccomp2 (= 2.5.1-1ubuntu1~20.04.2), libselinux1 (= 3.0-1build2), libselinux1-dev (= 3.0-1build2), libsensors-config (= 1:3.6.0-2ubuntu1.1), libsensors5 (= 1:3.6.0-2ubuntu1.1), libsepol1 (= 3.0-1ubuntu0.1), libsepol1-dev (= 3.0-1ubuntu0.1), libsigsegv2 (= 2.12-2), libsm-dev (= 2:1.2.3-1), libsm6 (= 2:1.2.3-1), libsmartcols1 (= 2.34-0.1ubuntu9.3), libsombok3 (= 2.4.0-2), libsqlite3-0 (= 3.31.1-4ubuntu0.3), libssh-4 (= 0.9.3-2ubuntu2.2), libssl1.1 (= 1.1.1f-1ubuntu2.15), libstdc++-9-dev (= 9.4.0-1ubuntu1~20.04.1), libstdc++6 (= 10.3.0-1ubuntu1~20.04), libsub-override-perl (= 0.09-2), libsynctex2 (= 2019.20190605.51237-3build2), libsystemd0 (= 245.4-4ubuntu3.17), libtasn1-6 (= 4.16.0-2), libtcl8.6 (= 8.6.10+dfsg-1), libteckit0 (= 2.5.8+ds2-5ubuntu2), libtexlua53 (= 2019.20190605.51237-3build2), libtexluajit2 (= 2019.20190605.51237-3build2), libtext-unidecode-perl (= 1.30-1), libthai-data (= 0.1.28-3), libthai-dev (= 0.1.28-3), libthai0 (= 0.1.28-3), libtiff-dev (= 4.1.0+git191117-2ubuntu0.20.04.3), libtiff5 (= 4.1.0+git191117-2ubuntu0.20.04.3), libtiff5-dev (= 4.1.0+git191117-2ubuntu0.20.04.3), libtiffxx5 (= 4.1.0+git191117-2ubuntu0.20.04.3), libtinfo6 (= 6.2-0ubuntu2), libtk8.6 (= 8.6.10-1), libtool (= 2.4.6-14), libtsan0 (= 10.3.0-1ubuntu1~20.04), libubsan1 (= 10.3.0-1ubuntu1~20.04), libuchardet0 (= 0.0.6-3build1), libudev1 (= 245.4-4ubuntu3.17), libunicode-linebreak-perl (= 0.0.20190101-1build1), libunistring2 (= 0.9.10-2), libunwind8 (= 1.2.1-9build1), libuuid1 (= 2.34-0.1ubuntu9.3), libvulkan1 (= 1.2.131.2-1), libwebp6 (= 0.6.1-2ubuntu0.20.04.1), libwind0-heimdal (= 7.7.0+dfsg-1ubuntu1), libx11-6 (= 2:1.6.9-2ubuntu1.2), libx11-data (= 2:1.6.9-2ubuntu1.2), libx11-dev (= 2:1.6.9-2ubuntu1.2), libx11-xcb1 (= 2:1.6.9-2ubuntu1.2), libxau-dev (= 1:1.0.9-0ubuntu1), libxau6 (= 1:1.0.9-0ubuntu1), libxaw7 (= 2:1.0.13-1), libxcb-dri2-0 (= 1.14-2), libxcb-dri3-0 (= 1.14-2), libxcb-glx0 (= 1.14-2), libxcb-present0 (= 1.14-2), libxcb-render0 (= 1.14-2), libxcb-render0-dev (= 1.14-2), libxcb-shm0 (= 1.14-2), libxcb-shm0-dev (= 1.14-2), libxcb-sync1 (= 1.14-2), libxcb-xfixes0 (= 1.14-2), libxcb1 (= 1.14-2), libxcb1-dev (= 1.14-2), libxdmcp-dev (= 1:1.1.3-0ubuntu1), libxdmcp6 (= 1:1.1.3-0ubuntu1), libxext-dev (= 2:1.3.4-0ubuntu1), libxext6 (= 2:1.3.4-0ubuntu1), libxfixes3 (= 1:5.0.3-2), libxfont2 (= 1:2.0.3-1), libxft-dev (= 2.3.3-0ubuntu1), libxft2 (= 2.3.3-0ubuntu1), libxi6 (= 2:1.7.10-0ubuntu1), libxkbfile1 (= 1:1.1.0-1), libxml-libxml-perl (= 2.0134+dfsg-1build1), libxml-namespacesupport-perl (= 1.12-1), libxml-sax-base-perl (= 1.09-1), libxml-sax-perl (= 1.02+dfsg-1), libxml2 (= 2.9.10+dfsg-5ubuntu0.20.04.3), libxmu6 (= 2:1.1.3-0ubuntu1), libxmuu1 (= 2:1.1.3-0ubuntu1), libxpm4 (= 1:3.5.12-1), libxrender-dev (= 1:0.9.10-1), libxrender1 (= 1:0.9.10-1), libxshmfence1 (= 1.3-1), libxss-dev (= 1:1.2.3-1), libxss1 (= 1:1.2.3-1), libxt-dev (= 1:1.1.5-1), libxt6 (= 1:1.1.5-1), libxtst6 (= 2:1.2.3-1), libxxf86vm1 (= 1:1.1.4-1build1), libzstd1 (= 1.4.4+dfsg-3ubuntu0.1), libzzip-0-13 (= 0.13.62-3.2ubuntu1), linux-libc-dev (= 5.4.0-121.137), login (= 1:4.8.1-1ubuntu5.20.04.2), lsb-base (= 11.1.0ubuntu2), m4 (= 1.4.18-4), make (= 4.2.1-1.2), man-db (= 2.9.1-1), mawk (= 1.3.4.20200120-2), mime-support (= 3.64ubuntu1), mpack (= 1.6-8.2), ncurses-base (= 6.2-0ubuntu2), ncurses-bin (= 6.2-0ubuntu2), openjdk-11-jdk (= 11.0.15+10-0ubuntu0.20.04.1), openjdk-11-jdk-headless (= 11.0.15+10-0ubuntu0.20.04.1), openjdk-11-jre (= 11.0.15+10-0ubuntu0.20.04.1), openjdk-11-jre-headless (= 11.0.15+10-0ubuntu0.20.04.1), openssl (= 1.1.1f-1ubuntu2.15), pango1.0-tools (= 1.44.7-2ubuntu4), patch (= 2.7.6-6), perl (= 5.30.0-9ubuntu0.2), perl-base (= 5.30.0-9ubuntu0.2), perl-modules-5.30 (= 5.30.0-9ubuntu0.2), pkg-config (= 0.29.1-0ubuntu4), po-debconf (= 1.0.21), preview-latex-style (= 11.91-2ubuntu2), python3 (= 3.8.2-0ubuntu2), python3-distutils (= 3.8.10-0ubuntu1~20.04), python3-lib2to3 (= 3.8.10-0ubuntu1~20.04), python3-minimal (= 3.8.2-0ubuntu2), python3.8 (= 3.8.10-0ubuntu1~20.04.4), python3.8-minimal (= 3.8.10-0ubuntu1~20.04.4), readline-common (= 8.0-4), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-2.1ubuntu1), t1utils (= 1.41-3), tar (= 1.30+dfsg-7ubuntu0.20.04.2), tcl8.6 (= 8.6.10+dfsg-1), tcl8.6-dev (= 8.6.10+dfsg-1), tex-common (= 6.13), texinfo (= 6.7.0.dfsg.2-5), texlive-base (= 2019.20200218-1), texlive-binaries (= 2019.20190605.51237-3build2), texlive-extra-utils (= 2019.202000218-1), texlive-fonts-extra (= 2019.202000218-1), texlive-fonts-recommended (= 2019.20200218-1), texlive-latex-base (= 2019.20200218-1), texlive-latex-extra (= 2019.202000218-1), texlive-latex-recommended (= 2019.20200218-1), texlive-pictures (= 2019.20200218-1), texlive-plain-generic (= 2019.202000218-1), tk8.6 (= 8.6.10-1), tk8.6-dev (= 8.6.10-1), tzdata (= 2022a-0ubuntu0.20.04), ucf (= 3.0038+nmu1), util-linux (= 2.34-0.1ubuntu9.3), uuid-dev (= 2.34-0.1ubuntu9.3), x11-common (= 1:7.7+19ubuntu14), x11-xkb-utils (= 7.7+5), x11proto-core-dev (= 2019.2-1ubuntu1), x11proto-dev (= 2019.2-1ubuntu1), x11proto-scrnsaver-dev (= 2019.2-1ubuntu1), x11proto-xext-dev (= 2019.2-1ubuntu1), xauth (= 1:1.1-0ubuntu1), xdg-utils (= 1.1.3-2ubuntu1.20.04.2), xfonts-base (= 1:1.0.5), xfonts-encodings (= 1:1.0.5-0ubuntu1), xfonts-utils (= 1:7.7+6), xkb-data (= 2.29-2), xorg-sgml-doctools (= 1:1.11-1), xserver-common (= 2:1.20.13-1ubuntu1~20.04.2), xtrans-dev (= 1.4.0-1), xvfb (= 2:1.20.13-1ubuntu1~20.04.2), xz-utils (= 5.2.4-1ubuntu1.1), zlib1g (= 1:1.2.11.dfsg-2ubuntu1.3), zlib1g-dev (= 1:1.2.11.dfsg-2ubuntu1.3) Environment: DEB_BUILD_OPTIONS="noautodbgsym parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1655981174" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ r-base-core_4.2.1-0.2004.0_amd64.deb ------------------------------------ new Debian package, version 2.0. size 28177640 bytes: control archive=27100 bytes. 93 bytes, 5 lines conffiles 3501 bytes, 45 lines control 85591 bytes, 1067 lines md5sums 2771 bytes, 75 lines * postinst #!/bin/sh 213 bytes, 5 lines * postrm #!/bin/sh 863 bytes, 37 lines * preinst #!/bin/sh 885 bytes, 29 lines * prerm #!/bin/sh Package: r-base-core Source: r-base Version: 4.2.1-0.2004.0 Architecture: amd64 Maintainer: Dirk Eddelbuettel Installed-Size: 44670 Depends: zip, unzip, libpaper-utils, xdg-utils, libblas3 | libblas.so.3, libbz2-1.0, libc6 (>= 2.29), libcairo2 (>= 1.6.0), libcurl4 (>= 7.28.0), libglib2.0-0 (>= 2.12.0), libgomp1 (>= 4.9), libicu66 (>= 66.1-1~), libjpeg8 (>= 8c), liblapack3 | liblapack.so.3, liblzma5 (>= 5.1.1alpha+20120614), libpango-1.0-0 (>= 1.18.0), libpangocairo-1.0-0 (>= 1.14.0), libpcre2-8-0 (>= 10.22), libpng16-16 (>= 1.6.2-1), libreadline8 (>= 6.0), libtcl8.6 (>= 8.6.0), libtiff5 (>= 4.0.3), libtk8.6 (>= 8.6.0), libx11-6, libxt6, zlib1g (>= 1:1.1.4), ucf (>= 3.0), ca-certificates Recommends: r-recommended, r-base-dev, r-doc-html Suggests: elpa-ess, r-doc-info | r-doc-pdf, r-mathlib, r-base-html Conflicts: r-base-latex, r-cran-rcompgen, r-gnome Breaks: r-bioc-graph (<< 1.62.0-1~), r-cran-bbmle (<< 1.0.20-5~), r-cran-biocmanager (<< 1.30.4+dfsg-2~), r-cran-caret (<< 6.0-84-2~), r-cran-cmprsk (<< 2.2-8-1~), r-cran-coin (<< 1.3-0-1~), r-cran-dendextend (<< 1.12.0+dfsg-1~), r-cran-fields (<< 9.8-3-1~), r-cran-filehash (<< 2.4-2-2~), r-cran-future (<< 1.14.0+dfsg-1~), r-cran-genetics (<< 1.3.8.1.2-1~), r-cran-haplo.stats (<< 1.7.9-4~), r-cran-igraph (<< 1.2.4.1-1~), r-cran-lava (<< 1.6.5-1~), r-cran-libcoin (<< 1.0-4-1~), r-cran-msm (<< 1.6.7-1~), r-cran-permute (<< 0.9-5-1~), r-cran-phangorn (<< 2.5.5-1~), r-cran-popepi (<< 0.4.7-1~), r-cran-recipes (<< 0.1.6-1~), r-cran-sp (<< 1:1.3-1-2~), r-cran-spam (<< 2.2-2-1~), r-cran-units (<< 0.6-3-1~), r-cran-vegan (<< 2.5-5+dfsg-1~), r-cran-zelig (<< 5.1.6.1-1~) Replaces: r-base (<= 1.4.1-1), r-base-latex (<= 2.9.2-4), r-cran-rcompgen (<= 0.1-17-1), r-gnome (<= 2.3.1), r-recommended (<< 1.9.0) Provides: r-api-4.0, r-base-latex, r-cran-rcompgen, r-gnome Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R core of statistical computation and graphics system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the core GNU R system from which only the optional documentation packages r-base-html, r-doc-html, r-doc-pdf and r-doc-info have been split off to somewhat reduce the size of this package. drwxr-xr-x root/root 0 2022-06-23 10:46 ./ drwxr-xr-x root/root 0 2022-06-23 10:46 ./etc/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./etc/R/ -rw-r--r-- root/root 8627 2022-06-23 10:46 ./etc/R/Makeconf -rw-r--r-- root/root 1983 2022-06-23 10:46 ./etc/R/Renviron.site -rw-r--r-- root/root 988 2022-06-23 10:46 ./etc/R/Rprofile.site -rw-r--r-- root/root 783 2022-06-23 10:46 ./etc/R/ldpaths -rw-r--r-- root/root 1098 2022-06-23 10:46 ./etc/R/repositories drwxr-xr-x root/root 0 2022-06-23 10:46 ./etc/ld.so.conf.d/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/bin/ -rwxr-xr-x root/root 8960 2022-06-23 10:46 ./usr/bin/R -rwxr-xr-x root/root 14496 2022-06-23 10:46 ./usr/bin/Rscript drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/lib/ drwxr-xr-x 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--------------------------------- new Debian package, version 2.0. size 4492 bytes: control archive=1632 bytes. 2184 bytes, 39 lines control 63 bytes, 1 lines md5sums 425 bytes, 26 lines * preinst #!/bin/sh Package: r-base-dev Source: r-base Version: 4.2.1-0.2004.0 Architecture: all Maintainer: Dirk Eddelbuettel Installed-Size: 15 Depends: r-base-core (>= 4.2.1-0.2004.0), build-essential, gcc, g++, gfortran, libblas-dev | libatlas-base-dev, liblapack-dev | libatlas-base-dev, libncurses5-dev, libreadline-dev, libjpeg-dev, libpcre2-dev, libpcre3-dev, libpng-dev, zlib1g-dev, libbz2-dev, liblzma-dev, libicu-dev, xauth, pkg-config Suggests: texlive-base, texlive-latex-base, texlive-plain-generic, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, texinfo Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R installation of auxiliary GNU R packages R is a system for statistical computation and graphics. 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./usr/share/doc/r-base-html/changelog.Debian.gz -rw-r--r-- root/root 20761 2022-03-25 00:27 ./usr/share/doc/r-base-html/copyright r-base_4.2.1-0.2004.0_all.deb ----------------------------- new Debian package, version 2.0. size 44916 bytes: control archive=1464 bytes. 2054 bytes, 42 lines control 209 bytes, 3 lines md5sums Package: r-base Version: 4.2.1-0.2004.0 Architecture: all Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.2.1-0.2004.0), r-recommended (= 4.2.1-0.2004.0) Recommends: r-base-html, r-doc-html Suggests: elpa-ess, r-doc-info | r-doc-pdf Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R statistical computation and graphics system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. 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It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the R manuals in html format. 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It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. 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It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. 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It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the libRmath shared and static libraries which can be called from standalone C or C++ code. drwxr-xr-x root/root 0 2022-06-23 10:46 ./ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/include/ -rw-r--r-- root/root 17561 2022-06-23 10:46 ./usr/include/Rmath.h drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/lib/ -rw-r--r-- root/root 608164 2022-06-23 10:46 ./usr/lib/libRmath.a lrwxrwxrwx root/root 0 2022-06-23 10:46 ./usr/lib/libRmath.so -> libRmath.so.1 lrwxrwxrwx root/root 0 2022-06-23 10:46 ./usr/lib/libRmath.so.1 -> libRmath.so.1.0.0 -rw-r--r-- root/root 231848 2022-06-23 10:46 ./usr/lib/libRmath.so.1.0.0 drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/lib/pkgconfig/ -rw-r--r-- root/root 173 2022-06-23 10:46 ./usr/lib/pkgconfig/libRmath.pc drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/doc/r-mathlib/ -rw-r--r-- root/root 35933 2018-09-25 08:43 ./usr/share/doc/r-mathlib/NEWS.0.gz -rw-r--r-- root/root 108753 2018-09-25 08:43 ./usr/share/doc/r-mathlib/NEWS.1.gz -rw-r--r-- root/root 96630 2020-03-26 23:02 ./usr/share/doc/r-mathlib/NEWS.2.Rd.gz -rw-r--r-- root/root 229638 2022-03-24 23:02 ./usr/share/doc/r-mathlib/NEWS.2.gz -rw-r--r-- root/root 397778 2022-06-23 10:46 ./usr/share/doc/r-mathlib/NEWS.2.rds.gz -rw-r--r-- root/root 122261 2021-04-19 22:02 ./usr/share/doc/r-mathlib/NEWS.3.Rd.gz -rw-r--r-- root/root 113067 2021-04-19 22:02 ./usr/share/doc/r-mathlib/NEWS.3.gz -rw-r--r-- root/root 516377 2022-06-23 10:46 ./usr/share/doc/r-mathlib/NEWS.3.rds.gz -rw-r--r-- root/root 43169 2022-06-17 22:15 ./usr/share/doc/r-mathlib/NEWS.Rd.gz lrwxrwxrwx root/root 0 2022-06-23 10:46 ./usr/share/doc/r-mathlib/NEWS.gz -> changelog.gz -rw-r--r-- root/root 209877 2022-06-23 10:46 ./usr/share/doc/r-mathlib/NEWS.pdf.gz -rw-r--r-- root/root 177131 2022-06-23 10:46 ./usr/share/doc/r-mathlib/NEWS.rds.gz -rw-r--r-- root/root 2107 2018-09-25 08:47 ./usr/share/doc/r-mathlib/README.gz -rw-r--r-- root/root 3026 2022-03-25 00:27 ./usr/share/doc/r-mathlib/README.mathlib -rw-r--r-- root/root 35076 2022-06-23 10:46 ./usr/share/doc/r-mathlib/changelog.Debian.gz -rw-r--r-- root/root 39839 2022-06-23 10:46 ./usr/share/doc/r-mathlib/changelog.gz -rw-r--r-- root/root 20761 2022-03-25 00:27 ./usr/share/doc/r-mathlib/copyright drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/doc/r-mathlib/examples/ -rw-r--r-- root/root 1371 2018-09-25 08:46 ./usr/share/doc/r-mathlib/examples/test.c drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/lintian/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 364 2022-03-25 00:27 ./usr/share/lintian/overrides/r-mathlib r-recommended_4.2.1-0.2004.0_all.deb ------------------------------------ new Debian package, version 2.0. size 2780 bytes: control archive=2132 bytes. 3222 bytes, 56 lines control 76 bytes, 1 lines md5sums 434 bytes, 26 lines * preinst #!/bin/sh Package: r-recommended Source: r-base Version: 4.2.1-0.2004.0 Architecture: all Maintainer: Dirk Eddelbuettel Installed-Size: 13 Depends: r-base-core (>= 4.2.1-0.2004.0), r-cran-boot (>= 1.2.19), r-cran-cluster (>= 1.9.6-2), r-cran-foreign (>= 0.7-2), r-cran-kernsmooth (>= 2.2.14), r-cran-lattice (>= 0.10.11), r-cran-mgcv (>= 1.1.5), r-cran-nlme (>= 3.1.52), r-cran-rpart (>= 3.1.20), r-cran-survival (>= 2.13.2-1), r-cran-mass, r-cran-class, r-cran-nnet, r-cran-spatial, r-cran-codetools, r-cran-matrix Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R collection of recommended packages [metapackage] R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This Debian package is now a metapackage that depends on a set of packages that are recommended by the upstream R core team as part of a complete R distribution, and distributed along with the source of R itself, as well as directly via the CRAN network of mirrors. This set comprises the following packages (listed in their upstream names): - KernSmooth: Functions for kernel smoothing for Wand & Jones (1995) - Matrix: Classes and methods for dense and sparse matrices and operations on them using Lapack and SuiteSparse - MASS, class, nnet and spatial: packages from Venables and Ripley, `Modern Applied Statistics with S' (4th edition). - boot: Bootstrap R (S-Plus) Functions from the book "Bootstrap Methods and Their Applications" by A.C. Davison and D.V. Hinkley (1997). - cluster: Functions for clustering (by Rousseeuw et al.) - codetools: Code analysis tools for R - foreign: Read data stored by Minitab, S, SAS, SPSS, Stata, ... - lattice: Implementation of Trellis (R) graphics - mgcv: Multiple smoothing parameter estimation and GAMs by GCV - nlme: Linear and nonlinear mixed effects models - rpart: Recursive partitioning and regression trees - survival: Survival analysis, including penalised likelihood. drwxr-xr-x root/root 0 2022-06-23 10:46 ./ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/lib/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/lib/R/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/lib/R/library/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/doc/ lrwxrwxrwx root/root 0 2022-06-23 10:46 ./usr/share/doc/r-recommended -> r-base-core drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/lintian/ drwxr-xr-x root/root 0 2022-06-23 10:46 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 542 2022-03-25 00:27 ./usr/share/lintian/overrides/r-recommended +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 491044 Build-Time: 1558 Distribution: focal Host Architecture: amd64 Install-Time: 481 Job: r-base_4.2.1-0.2004.0.dsc Machine Architecture: amd64 Package: r-base Package-Time: 2046 Source-Version: 4.2.1-0.2004.0 Space: 491044 Status: successful Version: 4.2.1-0.2004.0 -------------------------------------------------------------------------------- Finished at 2022-06-23T11:48:08Z Build needed 00:34:06, 491044k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-24106401 Scanning for processes to kill in build PACKAGEBUILD-24106401