RUN: /bin/echo ['echo', 'Forking build subprocess...'] Forking build subprocess... RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', '1295764-2708701', '/home/buildd/filecache-default/86e9cf8fa85bed6dabc0ee684d22dc14fb02e5a3'] Synching the system clock with the buildd NTP service... 17 Oct 05:45:36 ntpdate[27781]: adjust time server 10.122.37.1 offset 0.000128 sec Unpacking chroot for build 1295764-2708701 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', '1295764-2708701'] Mounting chroot for build 1295764-2708701 RUN: /usr/share/launchpad-buildd/slavebin/apply-ogre-model ['apply-ogre-model', '1295764-2708701', 'universe'] Attempting OGRE for universe in build-1295764-2708701 No OGRE sources.list found. RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', '1295764-2708701', 'deb http://ftpmaster.internal/ubuntu karmic main universe'] Overriding sources.list in build-1295764-2708701 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', '1295764-2708701'] Updating debian chroot for build 1295764-2708701 Get:1 http://ftpmaster.internal karmic Release.gpg [189B] Get:2 http://ftpmaster.internal karmic Release [65.9kB] Get:3 http://ftpmaster.internal karmic/main Packages [1356kB] Get:4 http://ftpmaster.internal karmic/universe Packages [5129kB] Fetched 6551kB in 4s (1336kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: apt apt-transport-https binutils cpp-4.4 e2fslibs e2fsprogs g++-4.4 gcc-4.4 gcc-4.4-base initscripts libcomerr2 libgcc1 libgomp1 libncurses5 libselinux1 libss2 libstdc++6 libstdc++6-4.4-dev libudev0 linux-libc-dev locales lsb-base mountall ncurses-base ncurses-bin python-minimal python2.6-minimal sysv-rc sysvinit-utils upstart 30 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 0B/24.8MB of archives. After this operation, 426kB disk space will be freed. WARNING: The following packages cannot be authenticated! e2fslibs e2fsprogs ncurses-bin libncurses5 ncurses-base python2.6-minimal python-minimal mountall libselinux1 sysvinit-utils sysv-rc lsb-base initscripts upstart libgomp1 cpp-4.4 gcc-4.4-base libgcc1 gcc-4.4 g++-4.4 libstdc++6-4.4-dev libstdc++6 binutils apt libcomerr2 libss2 libudev0 locales apt-transport-https linux-libc-dev debconf: delaying package configuration, since apt-utils is not installed Authentication warning overridden. (Reading database ... 10575 files and directories currently installed.) Preparing to replace e2fslibs 1.41.9-1ubuntu1 (using .../e2fslibs_1.41.9-1ubuntu2_i386.deb) ... Unpacking replacement e2fslibs ... Setting up e2fslibs (1.41.9-1ubuntu2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10575 files and directories currently installed.) Preparing to replace e2fsprogs 1.41.9-1ubuntu1 (using .../e2fsprogs_1.41.9-1ubuntu2_i386.deb) ... Unpacking replacement e2fsprogs ... Setting up e2fsprogs (1.41.9-1ubuntu2) ... (Reading database ... 10575 files and directories currently installed.) Preparing to replace ncurses-bin 5.7+20090803-2ubuntu1 (using .../ncurses-bin_5.7+20090803-2ubuntu2_i386.deb) ... Unpacking replacement ncurses-bin ... Setting up ncurses-bin (5.7+20090803-2ubuntu2) ... (Reading database ... 10575 files and directories currently installed.) Preparing to replace libncurses5 5.7+20090803-2ubuntu1 (using .../libncurses5_5.7+20090803-2ubuntu2_i386.deb) ... Unpacking replacement libncurses5 ... Setting up libncurses5 (5.7+20090803-2ubuntu2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10575 files and directories currently installed.) Preparing to replace ncurses-base 5.7+20090803-2ubuntu1 (using .../ncurses-base_5.7+20090803-2ubuntu2_all.deb) ... Unpacking replacement ncurses-base ... Setting up ncurses-base (5.7+20090803-2ubuntu2) ... (Reading database ... 10575 files and directories currently installed.) Preparing to replace python2.6-minimal 2.6.3-0ubuntu2 (using .../python2.6-minimal_2.6.4~rc1-1ubuntu1_i386.deb) ... Unpacking replacement python2.6-minimal ... Setting up python2.6-minimal (2.6.4~rc1-1ubuntu1) ... (Reading database ... 10579 files and directories currently installed.) Preparing to replace python-minimal 2.6.3-0ubuntu1 (using .../python-minimal_2.6.4~rc1-0ubuntu1_all.deb) ... Unpacking replacement python-minimal ... Setting up python-minimal (2.6.4~rc1-0ubuntu1) ... (Reading database ... 10579 files and directories currently installed.) Preparing to replace mountall 0.1.8 (using .../mountall_0.2.2_i386.deb) ... Unpacking replacement mountall ... Setting up mountall (0.2.2) ... Installing new version of config file /etc/init/mountall-shell.conf ... (Reading database ... 10579 files and directories currently installed.) Preparing to replace libselinux1 2.0.85-2 (using .../libselinux1_2.0.85-2ubuntu1_i386.deb) ... Unpacking replacement libselinux1 ... Setting up libselinux1 (2.0.85-2ubuntu1) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10579 files and directories currently installed.) Preparing to replace sysvinit-utils 2.87dsf-4ubuntu8 (using .../sysvinit-utils_2.87dsf-4ubuntu10_i386.deb) ... Unpacking replacement sysvinit-utils ... Setting up sysvinit-utils (2.87dsf-4ubuntu10) ... (Reading database ... 10579 files and directories currently installed.) Preparing to replace sysv-rc 2.87dsf-4ubuntu8 (using .../sysv-rc_2.87dsf-4ubuntu10_all.deb) ... Unpacking replacement sysv-rc ... Setting up sysv-rc (2.87dsf-4ubuntu10) ... (Reading database ... 10579 files and directories currently installed.) Preparing to replace lsb-base 4.0-0ubuntu4 (using .../lsb-base_4.0-0ubuntu5_all.deb) ... Unpacking replacement lsb-base ... Setting up lsb-base (4.0-0ubuntu5) ... Installing new version of config file /etc/lsb-base-logging.sh ... (Reading database ... 10579 files and directories currently installed.) Preparing to replace initscripts 2.87dsf-4ubuntu8 (using .../initscripts_2.87dsf-4ubuntu10_i386.deb) ... Unpacking replacement initscripts ... Setting up initscripts (2.87dsf-4ubuntu10) ... Installing new version of config file /etc/init.d/umountfs ... Installing new version of config file /etc/init.d/umountnfs.sh ... Installing new version of config file /etc/init.d/umountroot ... (Reading database ... 10580 files and directories currently installed.) Preparing to replace upstart 0.6.3-7 (using .../upstart_0.6.3-10_i386.deb) ... Unpacking replacement upstart ... Setting up upstart (0.6.3-10) ... Installing new version of config file /etc/init/rc-sysinit.conf ... (Reading database ... 10580 files and directories currently installed.) Preparing to replace libgomp1 4.4.1-4ubuntu7 (using .../libgomp1_4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement libgomp1 ... Preparing to replace cpp-4.4 4.4.1-4ubuntu7 (using .../cpp-4.4_4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement cpp-4.4 ... Preparing to replace gcc-4.4-base 4.4.1-4ubuntu7 (using .../gcc-4.4-base_4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement gcc-4.4-base ... Setting up gcc-4.4-base (4.4.1-4ubuntu8) ... (Reading database ... 10580 files and directories currently installed.) Preparing to replace libgcc1 1:4.4.1-4ubuntu7 (using .../libgcc1_1%3a4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement libgcc1 ... Setting up libgcc1 (1:4.4.1-4ubuntu8) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10580 files and directories currently installed.) Preparing to replace gcc-4.4 4.4.1-4ubuntu7 (using .../gcc-4.4_4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement gcc-4.4 ... Preparing to replace g++-4.4 4.4.1-4ubuntu7 (using .../g++-4.4_4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement g++-4.4 ... Preparing to replace libstdc++6-4.4-dev 4.4.1-4ubuntu7 (using .../libstdc++6-4.4-dev_4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement libstdc++6-4.4-dev ... Preparing to replace libstdc++6 4.4.1-4ubuntu7 (using .../libstdc++6_4.4.1-4ubuntu8_i386.deb) ... Unpacking replacement libstdc++6 ... Setting up libstdc++6 (4.4.1-4ubuntu8) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10580 files and directories currently installed.) Preparing to replace binutils 2.19.91.20091006-0ubuntu1 (using .../binutils_2.19.91.20091014-0ubuntu1_i386.deb) ... Unpacking replacement binutils ... Preparing to replace apt 0.7.23.1ubuntu1 (using .../apt_0.7.23.1ubuntu2_i386.deb) ... Unpacking replacement apt ... Setting up apt (0.7.23.1ubuntu2) ... Installing new version of config file /etc/cron.daily/apt ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10580 files and directories currently installed.) Preparing to replace libcomerr2 1.41.9-1ubuntu1 (using .../libcomerr2_1.41.9-1ubuntu2_i386.deb) ... Unpacking replacement libcomerr2 ... Setting up libcomerr2 (1.41.9-1ubuntu2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10580 files and directories currently installed.) Preparing to replace libss2 1.41.9-1ubuntu1 (using .../libss2_1.41.9-1ubuntu2_i386.deb) ... Unpacking replacement libss2 ... Setting up libss2 (1.41.9-1ubuntu2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10580 files and directories currently installed.) Preparing to replace libudev0 147~-5 (using .../libudev0_147~-6_i386.deb) ... Unpacking replacement libudev0 ... Setting up libudev0 (147~-6) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 10580 files and directories currently installed.) Preparing to replace locales 2.9+git20090617-2 (using .../locales_2.9+git20090617-3_all.deb) ... Unpacking replacement locales ... Preparing to replace apt-transport-https 0.7.23.1ubuntu1 (using .../apt-transport-https_0.7.23.1ubuntu2_i386.deb) ... Unpacking replacement apt-transport-https ... Preparing to replace linux-libc-dev 2.6.31-12.41 (using .../linux-libc-dev_2.6.31-14.48_i386.deb) ... Unpacking replacement linux-libc-dev ... Setting up libgomp1 (4.4.1-4ubuntu8) ... Setting up cpp-4.4 (4.4.1-4ubuntu8) ... Setting up binutils (2.19.91.20091014-0ubuntu1) ... Setting up gcc-4.4 (4.4.1-4ubuntu8) ... Setting up locales (2.9+git20090617-3) ... Setting up apt-transport-https (0.7.23.1ubuntu2) ... Setting up linux-libc-dev (2.6.31-14.48) ... Setting up libstdc++6-4.4-dev (4.4.1-4ubuntu8) ... Setting up g++-4.4 (4.4.1-4ubuntu8) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', '1295764-2708701', '--nolog', '--batch', '--archive=ubuntu', '-A', '--purpose=PRIMARY', '--dist=karmic', '--comp=universe', 'r-base_2.9.2-3ubuntu1.dsc'] Initiating build 1295764-2708701 with 2 processor cores. Automatic build of r-base_2.9.2-3ubuntu1 on palmer by sbuild/i386 1.170.5 Build started at 20091017-0546 ****************************************************************************** r-base_2.9.2-3ubuntu1.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: gcc (>= 4:4.1.0), g++ (>= 4:4.1.0), gfortran (>= 4:4.1.0), libblas-dev, liblapack-dev (>= 3.1.1), tcl8.5-dev, tk8.5-dev, bison, groff-base, libncurses5-dev, libreadline-dev, debhelper (>= 7.2.3), texi2html, texinfo (>= 4.1-2), libbz2-dev, libpcre3-dev, xdg-utils, zlib1g-dev, libpng12-dev, libjpeg62-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff4-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-generic-recommended, texlive-fonts-recommended, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, openjdk-6-jdk [!arm !hppa !kfreebsd-i386 !kfreebsd-amd64 !hurd-i386] Checking for already installed source dependencies... gcc: already installed (4:4.4.1-1ubuntu2 >= 4:4.1.0 is satisfied) g++: already installed (4:4.4.1-1ubuntu2 >= 4:4.1.0 is satisfied) gfortran: missing libblas-dev: missing liblapack-dev: missing tcl8.5-dev: missing tk8.5-dev: missing bison: missing groff-base: missing libncurses5-dev: missing libreadline-dev: missing debhelper: missing texi2html: missing texinfo: missing libbz2-dev: missing libpcre3-dev: missing xdg-utils: missing zlib1g-dev: missing libpng12-dev: missing libjpeg62-dev: missing libx11-dev: missing libxt-dev: missing x11proto-core-dev: missing libpango1.0-dev: missing libcairo2-dev: missing libtiff4-dev: missing xvfb: missing xauth: missing xfonts-base: missing texlive-base: missing texlive-latex-base: missing texlive-generic-recommended: missing texlive-fonts-recommended: missing texlive-extra-utils: missing texlive-latex-recommended: missing texlive-latex-extra: missing openjdk-6-jdk: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install gfortran libblas-dev liblapack-dev tcl8.5-dev tk8.5-dev bison groff-base libncurses5-dev libreadline-dev debhelper texi2html texinfo libbz2-dev libpcre3-dev xdg-utils zlib1g-dev libpng12-dev libjpeg62-dev libx11-dev libxt-dev x11proto-core-dev libpango1.0-dev libcairo2-dev libtiff4-dev xvfb xauth xfonts-base texlive-base texlive-latex-base texlive-generic-recommended texlive-fonts-recommended texlive-extra-utils texlive-latex-recommended texlive-latex-extra openjdk-6-jdk Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils ca-certificates-java defoma ed file fontconfig fontconfig-config gettext gettext-base gfortran-4.4 html2text intltool-debian java-common libaccess-bridge-java libaccess-bridge-java-jni libasound2 libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libblas3gf libcairo2 libcroco3 libcups2 libdatrie1 libdirectfb-1.2-0 libdirectfb-dev libdirectfb-extra libexpat1 libexpat1-dev libflac8 libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype6 libfreetype6-dev libgfortran3 libgif4 libglib2.0-0 libglib2.0-dev libgtk2.0-0 libgtk2.0-common libhal1 libice-dev libice6 libjasper1 libjline-java libjpeg62 libkpathsea4 liblapack3gf liblcms1 libmagic1 libncursesw5 libnewt0.52 libnspr4-0d libnss3-1d libogg0 libpango1.0-0 libpango1.0-common libpcre3 libpcrecpp0 libpixman-1-0 libpixman-1-dev libpng12-0 libpoppler5 libpopt0 libpthread-stubs0 libpthread-stubs0-dev libpulse0 libpython2.6 libreadline6-dev libsm-dev libsm6 libsndfile1 libsqlite3-0 libsysfs-dev libsysfs2 libthai-data libthai0 libtiff4 libtiffxx0c2 libts-0.0-0 libvorbis0a libvorbisenc2 libwrap0 libx11-6 libx11-data libxau-dev libxau6 libxaw7 libxcb-render-util0 libxcb-render-util0-dev libxcb-render0 libxcb-render0-dev libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont1 libxft-dev libxft2 libxi6 libxinerama1 libxml2 libxmu6 libxmuu1 libxpm4 libxrandr2 libxrender-dev libxrender1 libxss-dev libxss1 libxt6 libxtst6 m4 man-db mime-support openjdk-6-jre openjdk-6-jre-headless openjdk-6-jre-lib pkg-config po-debconf preview-latex-style python2.6 rhino shared-mime-info tcl8.5 tex-common texlive-base-bin texlive-common texlive-doc-base texlive-pictures tk8.5 tsconf ttf-dejavu ttf-dejavu-core ttf-dejavu-extra tzdata-java ucf whiptail x11-common x11proto-input-dev x11proto-kb-dev x11proto-render-dev x11proto-scrnsaver-dev x11proto-xext-dev xfonts-encodings xfonts-utils xserver-common xtrans-dev Suggested packages: bison-doc wamerican wordlist whois vacation dh-make defoma-doc psfontmgr x-ttcidfont-conf dfontmgr libft-perl gettext-doc gfortran-multilib gfortran-doc gfortran-4.4-multilib gfortran-4.4-doc libgfortran3-dbg groff equivs libasound2-plugins libcairo2-doc cups-common libglib2.0-doc librsvg2-common gvfs libjasper-runtime libjline-java-doc liblcms-utils ttf-japanese-gothic ttf-japanese-mincho ttf-thryomanes ttf-baekmuk ttf-arphic-gbsn00lp ttf-arphic-bsmi00lp ttf-arphic-gkai00mp ttf-arphic-bkai00mp libpango1.0-doc imagemagick pulseaudio less www-browser openjdk-6-demo openjdk-6-source visualvm icedtea6-plugin libnss-mdns sun-java6-fonts ttf-kochi-gothic ttf-sazanami-gothic ttf-kochi-mincho ttf-sazanami-mincho ttf-wqy-zenhei ttf-indic-fonts-core ttf-telugu-fonts ttf-oriya-fonts ttf-kannada-fonts ttf-bengali-fonts libmail-box-perl python2.6-doc python2.6-profiler rhino-doc tclreadline tcl8.5-doc latex2html texinfo-doc-nonfree perl-tk ghostscript xpdf-reader pdf-viewer gv postscript-viewer dvi2tty dvidvi texpower tk8.5-doc desktop-file-utils libgnome2-0 exo-utils libgnomevfs2-bin kdelibs4c2a konqueror xfs xserver Recommended packages: curl wget lynx cvs libatk1.0-data libglib2.0-data python hicolor-icon-theme libgtk2.0-bin libgpm2 libfribidi0 tcpd xml-core icedtea-6-jre-cacao libmail-sendmail-perl doc-base dvipdfmx lmodern texlive-base-bin-doc lacheck texlive-fonts-recommended-doc tipa texlive-latex-base-doc texlive-humanities texlive-generic-extra texlive-latex-extra-doc texlive-latex-recommended-doc prosper latex-beamer latex-xcolor texlive-pictures-doc pgf xterm x-terminal-emulator x11-utils x11-xserver-utils The following NEW packages will be installed: bison bsdmainutils ca-certificates-java debhelper defoma ed file fontconfig fontconfig-config gettext gettext-base gfortran gfortran-4.4 groff-base html2text intltool-debian java-common libaccess-bridge-java libaccess-bridge-java-jni libasound2 libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libblas-dev libblas3gf libbz2-dev libcairo2 libcairo2-dev libcroco3 libcups2 libdatrie1 libdirectfb-1.2-0 libdirectfb-dev libdirectfb-extra libexpat1 libexpat1-dev libflac8 libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype6 libfreetype6-dev libgfortran3 libgif4 libglib2.0-0 libglib2.0-dev libgtk2.0-0 libgtk2.0-common libhal1 libice-dev libice6 libjasper1 libjline-java libjpeg62 libjpeg62-dev libkpathsea4 liblapack-dev liblapack3gf liblcms1 libmagic1 libncurses5-dev libncursesw5 libnewt0.52 libnspr4-0d libnss3-1d libogg0 libpango1.0-0 libpango1.0-common libpango1.0-dev libpcre3 libpcre3-dev libpcrecpp0 libpixman-1-0 libpixman-1-dev libpng12-0 libpng12-dev libpoppler5 libpopt0 libpthread-stubs0 libpthread-stubs0-dev libpulse0 libpython2.6 libreadline-dev libreadline6-dev libsm-dev libsm6 libsndfile1 libsqlite3-0 libsysfs-dev libsysfs2 libthai-data libthai0 libtiff4 libtiff4-dev libtiffxx0c2 libts-0.0-0 libvorbis0a libvorbisenc2 libwrap0 libx11-6 libx11-data libx11-dev libxau-dev libxau6 libxaw7 libxcb-render-util0 libxcb-render-util0-dev libxcb-render0 libxcb-render0-dev libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont1 libxft-dev libxft2 libxi6 libxinerama1 libxml2 libxmu6 libxmuu1 libxpm4 libxrandr2 libxrender-dev libxrender1 libxss-dev libxss1 libxt-dev libxt6 libxtst6 m4 man-db mime-support openjdk-6-jdk openjdk-6-jre openjdk-6-jre-headless openjdk-6-jre-lib pkg-config po-debconf preview-latex-style python2.6 rhino shared-mime-info tcl8.5 tcl8.5-dev tex-common texi2html texinfo texlive-base texlive-base-bin texlive-common texlive-doc-base texlive-extra-utils texlive-fonts-recommended texlive-generic-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures tk8.5 tk8.5-dev tsconf ttf-dejavu ttf-dejavu-core ttf-dejavu-extra tzdata-java ucf whiptail x11-common x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-render-dev x11proto-scrnsaver-dev x11proto-xext-dev xauth xdg-utils xfonts-base xfonts-encodings xfonts-utils xserver-common xtrans-dev xvfb zlib1g-dev 0 upgraded, 191 newly installed, 0 to remove and 0 not upgraded. Need to get 20.7MB/135MB of archives. After this operation, 436MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! x11-common libxau6 libxdmcp6 libxcb1 libx11-data libx11-6 libxext6 libxmuu1 xauth libice6 x11proto-core-dev libice-dev libsm6 libsm-dev libxau-dev libxdmcp-dev x11proto-input-dev x11proto-kb-dev xtrans-dev libpthread-stubs0 libpthread-stubs0-dev libxcb1-dev libx11-dev x11proto-xext-dev libxext-dev libxfixes3 libexpat1 libfreetype6 ucf libnewt0.52 libpopt0 whiptail libmagic1 file defoma ttf-dejavu-core ttf-dejavu-extra ttf-dejavu fontconfig-config libfontconfig1 libxrender1 libxft2 libexpat1-dev zlib1g-dev libfreetype6-dev libpcre3 libglib2.0-0 pkg-config libfontconfig1-dev x11proto-render-dev libxrender-dev libxft-dev libxss1 x11proto-scrnsaver-dev libxss-dev libxt6 libxt-dev openjdk-6-jre-lib ca-certificates-java tzdata-java libjline-java rhino java-common libavahi-common-data libavahi-common3 libavahi-client3 libcups2 liblcms1 libjpeg62 libnspr4-0d libsqlite3-0 libnss3-1d openjdk-6-jre-headless mime-support libncursesw5 python2.6 libpython2.6 libasound2 libgif4 libpng12-0 libogg0 libflac8 libvorbis0a libvorbisenc2 libsndfile1 libwrap0 libxtst6 libpulse0 libxi6 libatk1.0-0 libsysfs2 tsconf libts-0.0-0 libdirectfb-1.2-0 libpixman-1-0 libxcb-render0 libxcb-render-util0 libcairo2 libgtk2.0-common libjasper1 fontconfig libpango1.0-common libdatrie1 libthai-data libthai0 libpango1.0-0 libtiff4 libxcomposite1 libxcursor1 libxdamage1 libxinerama1 libxrandr2 libxml2 shared-mime-info libgtk2.0-0 libaccess-bridge-java libaccess-bridge-java-jni openjdk-6-jre openjdk-6-jdk bsdmainutils ed gettext-base groff-base man-db m4 bison html2text libcroco3 gettext intltool-debian po-debconf debhelper libgfortran3 gfortran-4.4 gfortran libblas3gf libblas-dev libbz2-dev libpng12-dev libdirectfb-extra libjpeg62-dev libsysfs-dev libdirectfb-dev libpixman-1-dev libxcb-render0-dev libxcb-render-util0-dev libcairo2-dev libfontenc1 libglib2.0-dev libhal1 libkpathsea4 liblapack3gf liblapack-dev libncurses5-dev libpango1.0-dev libpcrecpp0 libpcre3-dev libpoppler5 libreadline6-dev libreadline-dev libtiffxx0c2 libtiff4-dev libxmu6 libxpm4 libxaw7 libxfont1 tex-common texlive-common texlive-base-bin preview-latex-style tcl8.5 tcl8.5-dev texi2html texinfo texlive-doc-base texlive-base texlive-extra-utils texlive-fonts-recommended texlive-generic-recommended texlive-latex-base texlive-pictures texlive-latex-extra texlive-latex-recommended tk8.5 tk8.5-dev xdg-utils xfonts-encodings xfonts-utils xfonts-base xserver-common xvfb Authentication warning overridden. Get:1 http://ftpmaster.internal karmic/main gfortran-4.4 4.4.1-4ubuntu8 [4022kB] Get:2 http://ftpmaster.internal karmic/main gfortran 4:4.4.1-1ubuntu2 [1198B] Get:3 http://ftpmaster.internal karmic/main libblas-dev 1.2-2 [222kB] Get:4 http://ftpmaster.internal karmic/main liblapack-dev 3.2.1-1 [3281kB] Get:5 http://ftpmaster.internal karmic/main libreadline6-dev 6.0-5 [237kB] Get:6 http://ftpmaster.internal karmic/main libreadline-dev 6.0-5 [906B] Get:7 http://ftpmaster.internal karmic/main tcl8.5 8.5.7-1 [1586kB] Get:8 http://ftpmaster.internal karmic/main tcl8.5-dev 8.5.7-1 [1029kB] Get:9 http://ftpmaster.internal karmic/main texlive-generic-recommended 2007.dfsg.2-4ubuntu1 [454kB] Get:10 http://ftpmaster.internal karmic/main tk8.5 8.5.7-1 [1152kB] Get:11 http://ftpmaster.internal karmic/main tk8.5-dev 8.5.7-1 [977kB] Get:12 http://ftpmaster.internal karmic/main xfonts-base 1:1.0.0-6 [6133kB] Get:13 http://ftpmaster.internal karmic/main xserver-common 2:1.6.4-2ubuntu3 [74.5kB] Get:14 http://ftpmaster.internal karmic/main xvfb 2:1.6.4-2ubuntu3 [1550kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 20.7MB in 0s (24.9MB/s) Selecting previously deselected package x11-common. (Reading database ... 10580 files and directories currently installed.) Unpacking x11-common (from .../x11-common_1%3a7.4+3ubuntu5_all.deb) ... Selecting previously deselected package libxau6. Unpacking libxau6 (from .../libxau6_1%3a1.0.4-2_i386.deb) ... Selecting previously deselected package libxdmcp6. Unpacking libxdmcp6 (from .../libxdmcp6_1%3a1.0.2-3_i386.deb) ... Selecting previously deselected package libxcb1. Unpacking libxcb1 (from .../libxcb1_1.4-1_i386.deb) ... Selecting previously deselected package libx11-data. Unpacking libx11-data (from .../libx11-data_2%3a1.2.2-1ubuntu1_all.deb) ... Selecting previously deselected package libx11-6. Unpacking libx11-6 (from .../libx11-6_2%3a1.2.2-1ubuntu1_i386.deb) ... Selecting previously deselected package libxext6. Unpacking libxext6 (from .../libxext6_2%3a1.0.99.1-0ubuntu4_i386.deb) ... Selecting previously deselected package libxmuu1. Unpacking libxmuu1 (from .../libxmuu1_2%3a1.0.4-2_i386.deb) ... Setting up x11-common (1:7.4+3ubuntu5) ... Selecting previously deselected package xauth. (Reading database ... 10943 files and directories currently installed.) Unpacking xauth (from .../xauth_1%3a1.0.3-2_i386.deb) ... Selecting previously deselected package libice6. Unpacking libice6 (from .../libice6_2%3a1.0.5-1_i386.deb) ... Selecting previously deselected package x11proto-core-dev. Unpacking x11proto-core-dev (from .../x11proto-core-dev_7.0.15-1_all.deb) ... Selecting previously deselected package libice-dev. Unpacking libice-dev (from .../libice-dev_2%3a1.0.5-1_i386.deb) ... Selecting previously deselected package libsm6. Unpacking libsm6 (from .../libsm6_2%3a1.1.0-2_i386.deb) ... Selecting previously deselected package libsm-dev. Unpacking libsm-dev (from .../libsm-dev_2%3a1.1.0-2_i386.deb) ... Selecting previously deselected package libxau-dev. Unpacking libxau-dev (from .../libxau-dev_1%3a1.0.4-2_i386.deb) ... Selecting previously deselected package libxdmcp-dev. 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Unpacking xfonts-base (from .../xfonts-base_1%3a1.0.0-6_all.deb) ... dpkg: warning: obsolete option '--print-installation-architecture', please use '--print-architecture' instead. Selecting previously deselected package xserver-common. Unpacking xserver-common (from .../xserver-common_2%3a1.6.4-2ubuntu3_all.deb) ... Selecting previously deselected package xvfb. Unpacking xvfb (from .../xvfb_2%3a1.6.4-2ubuntu3_i386.deb) ... Setting up libxau6 (1:1.0.4-2) ... Setting up libxdmcp6 (1:1.0.2-3) ... Setting up libxcb1 (1.4-1) ... Setting up libx11-data (2:1.2.2-1ubuntu1) ... Setting up libx11-6 (2:1.2.2-1ubuntu1) ... Setting up libxext6 (2:1.0.99.1-0ubuntu4) ... Setting up libxmuu1 (2:1.0.4-2) ... Setting up xauth (1:1.0.3-2) ... Setting up libice6 (2:1.0.5-1) ... Setting up x11proto-core-dev (7.0.15-1) ... Setting up libice-dev (2:1.0.5-1) ... Setting up libsm6 (2:1.1.0-2) ... Setting up libsm-dev (2:1.1.0-2) ... Setting up libxau-dev (1:1.0.4-2) ... Setting up libxdmcp-dev (1:1.0.2-3) ... 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Setting up libavahi-client3 (0.6.25-1ubuntu4) ... Setting up libcups2 (1.4.1-5ubuntu2) ... Setting up liblcms1 (1.18.dfsg-1ubuntu1) ... Setting up libjpeg62 (6b-14build1) ... Setting up libnspr4-0d (4.8-0ubuntu1) ... Setting up libsqlite3-0 (3.6.16-1ubuntu1) ... Setting up libnss3-1d (3.12.3.1-0ubuntu2) ... Setting up mime-support (3.46-1ubuntu1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode. Setting up libncursesw5 (5.7+20090803-2ubuntu2) ... Setting up python2.6 (2.6.4~rc1-1ubuntu1) ... Setting up libpython2.6 (2.6.4~rc1-1ubuntu1) ... Setting up libasound2 (1.0.20-3ubuntu6) ... Setting up libgif4 (4.1.6-6) ... Setting up libpng12-0 (1.2.37-1) ... Setting up libogg0 (1.1.4~dfsg-1) ... Setting up libflac8 (1.2.1-2build1) ... Setting up libvorbis0a (1.2.0.dfsg-6) ... Setting up libvorbisenc2 (1.2.0.dfsg-6) ... Setting up libsndfile1 (1.0.20-1ubuntu1) ... Setting up libwrap0 (7.6.q-16) ... Setting up libxtst6 (2:1.0.3-1ubuntu2) ... Setting up libpulse0 (1:0.9.19-0ubuntu2) ... Setting up libxi6 (2:1.2.1-2ubuntu1) ... Setting up libatk1.0-0 (1.28.0-0ubuntu1) ... Setting up libsysfs2 (2.1.0-5) ... Setting up tsconf (1.0-7) ... Setting up libts-0.0-0 (1.0-7) ... Setting up libdirectfb-1.2-0 (1.2.7-2ubuntu1) ... Setting up libpixman-1-0 (0.14.0-1) ... Setting up libxcb-render0 (1.4-1) ... Setting up libxcb-render-util0 (0.3.6-1) ... Setting up libcairo2 (1.8.8-2ubuntu1) ... Setting up libgtk2.0-common (2.18.2-1) ... Setting up libjasper1 (1.900.1-6) ... Setting up fontconfig (2.6.0-1ubuntu12) ... Updating font configuration of fontconfig... Cleaning up category cid.. Cleaning up category truetype.. Cleaning up category type1.. Updating category type1.. Updating category truetype.. Updating category cid.. Updating fontconfig cache for /usr/share/fonts/truetype/ttf-dejavu Cleaning up old fontconfig caches... done. Regenerating fonts cache... done. Setting up libpango1.0-common (1.26.0-1) ... Cleaning up font configuration of pango... Updating font configuration of pango... Cleaning up category xfont.. Updating category xfont.. *** You don't have any defomized font packages. *** So we are trying to force to generate pangox.aliases... Setting up libdatrie1 (0.2.2-1) ... Setting up libthai-data (0.1.12-1) ... Setting up libthai0 (0.1.12-1) ... Setting up libpango1.0-0 (1.26.0-1) ... Setting up libtiff4 (3.8.2-13) ... Setting up libxcomposite1 (1:0.4.0-4) ... Setting up libxcursor1 (1:1.1.9-1build1) ... Setting up libxdamage1 (1:1.1.1-4) ... Setting up libxinerama1 (2:1.0.3-2) ... Setting up libxrandr2 (2:1.3.0-2) ... Setting up libxml2 (2.7.5.dfsg-1ubuntu1) ... Setting up shared-mime-info (0.70-0ubuntu1) ... Setting up libgtk2.0-0 (2.18.2-1) ... Setting up bsdmainutils (6.1.10ubuntu4) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode. Setting up ed (1.4-1) ... install-info: warning: maintainer scripts should not call install-info anymore, install-info: warning: this is handled now by a dpkg trigger provided by the install-info: warning: install-info package; package ed should be updated. Setting up gettext-base (0.17-8ubuntu1) ... Setting up groff-base (1.20.1-5) ... Setting up man-db (2.5.6-2) ... Building database of manual pages ... ... skipping, since this is a buildd Setting up m4 (1.4.13-2) ... Setting up bison (1:2.4.1.dfsg-1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode. update-alternatives: warning: not replacing /usr/share/man/man1/yacc.1.gz with a link. Setting up html2text (1.3.2a-14) ... Setting up libcroco3 (0.6.1-2) ... Setting up gettext (0.17-8ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16) ... Setting up debhelper (7.3.15ubuntu3) ... Setting up libgfortran3 (4.4.1-4ubuntu8) ... Setting up gfortran-4.4 (4.4.1-4ubuntu8) ... Setting up gfortran (4:4.4.1-1ubuntu2) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode. Setting up libblas3gf (1.2-2) ... Setting up libblas-dev (1.2-2) ... update-alternatives: using /usr/lib/libblas.so to provide /usr/lib/libblas-3gf.so (libblas-3gf.so) in auto mode. Setting up libbz2-dev (1.0.5-3) ... Setting up libpng12-dev (1.2.37-1) ... Setting up libdirectfb-extra (1.2.7-2ubuntu1) ... Setting up libjpeg62-dev (6b-14build1) ... Setting up libsysfs-dev (2.1.0-5) ... Setting up libdirectfb-dev (1.2.7-2ubuntu1) ... Setting up libpixman-1-dev (0.14.0-1) ... Setting up libxcb-render0-dev (1.4-1) ... Setting up libxcb-render-util0-dev (0.3.6-1) ... Setting up libcairo2-dev (1.8.8-2ubuntu1) ... Setting up libfontenc1 (1:1.0.4-3) ... Setting up libglib2.0-dev (2.22.2-0ubuntu1) ... Setting up libhal1 (0.5.13-1ubuntu8) ... Setting up libkpathsea4 (2007.dfsg.2-7ubuntu1) ... Setting up liblapack3gf (3.2.1-1) ... Setting up liblapack-dev (3.2.1-1) ... update-alternatives: using /usr/lib/liblapack.so to provide /usr/lib/liblapackgf-3.so (liblapackgf-3.so) in auto mode. Setting up libncurses5-dev (5.7+20090803-2ubuntu2) ... Setting up libpango1.0-dev (1.26.0-1) ... Setting up libpcrecpp0 (7.8-3) ... Setting up libpcre3-dev (7.8-3) ... Setting up libpoppler5 (0.12.0-0ubuntu1) ... Setting up libreadline6-dev (6.0-5) ... Setting up libreadline-dev (6.0-5) ... Setting up libtiffxx0c2 (3.8.2-13) ... Setting up libtiff4-dev (3.8.2-13) ... Setting up libxmu6 (2:1.0.4-2) ... Setting up libxpm4 (1:3.5.7-2) ... Setting up libxaw7 (2:1.0.6-1) ... Setting up libxfont1 (1:1.4.0-1ubuntu1) ... Setting up tex-common (1.20) ... Creating config file /etc/texmf/texmf.d/05TeXMF.cnf with new version Creating config file /etc/texmf/texmf.d/15Plain.cnf with new version Creating config file /etc/texmf/texmf.d/45TeXinputs.cnf with new version Creating config file /etc/texmf/texmf.d/55Fonts.cnf with new version Creating config file /etc/texmf/texmf.d/65BibTeX.cnf with new version Creating config file /etc/texmf/texmf.d/75DviPS.cnf with new version Creating config file /etc/texmf/texmf.d/85Misc.cnf with new version Creating config file /etc/texmf/texmf.d/90TeXDoc.cnf with new version Creating config file /etc/texmf/texmf.d/95NonPath.cnf with new version Creating config file /etc/texmf/updmap.d/00updmap.cfg with new version Creating config file /etc/texmf/texmf.cnf with new version Running mktexlsr. This may take some time... done. Running updmap-sys. This may take some time... done. Building format(s) --all. This may take some time... done. Setting up texlive-common (2007.dfsg.2-4ubuntu1) ... Setting up texlive-base-bin (2007.dfsg.2-7ubuntu1) ... Running mktexlsr. This may take some time... done. Building format(s) --all. This may take some time... done. update-alternatives: using /usr/bin/xdvi-xaw.bin to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode. Setting up preview-latex-style (11.84-0ubuntu3) ... Setting up tcl8.5 (8.5.7-1) ... update-alternatives: using /usr/bin/tclsh8.5 to provide /usr/bin/tclsh (tclsh) in auto mode. Setting up tcl8.5-dev (8.5.7-1) ... Setting up texi2html (1.78-1) ... install-info: warning: maintainer scripts should not call install-info anymore, install-info: warning: this is handled now by a dpkg trigger provided by the install-info: warning: install-info package; package texi2html should be updated. Setting up texinfo (4.13a.dfsg.1-4) ... Running mktexlsr. This may take some time. ... done. Setting up texlive-doc-base (2007.dfsg.2-2) ... Running mktexlsr. This may take some time... done. Setting up texlive-base (2007.dfsg.2-4ubuntu1) ... Running mktexlsr. This may take some time... done. Building format(s) --all. This may take some time... done. Setting up tk8.5 (8.5.7-1) ... update-alternatives: using /usr/bin/wish8.5 to provide /usr/bin/wish (wish) in auto mode. Setting up tk8.5-dev (8.5.7-1) ... Setting up xdg-utils (1.0.2-6.1) ... Setting up xfonts-encodings (1:1.0.2-3) ... Setting up xfonts-utils (1:7.4+1ubuntu1) ... dpkg: warning: obsolete option '--print-installation-architecture', please use '--print-architecture' instead. Setting up xfonts-base (1:1.0.0-6) ... dpkg: warning: obsolete option '--print-installation-architecture', please use '--print-architecture' instead. Setting up xserver-common (2:1.6.4-2ubuntu3) ... Setting up xvfb (2:1.6.4-2ubuntu3) ... Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Running updmap-sys. This may take some time... done. Setting up texlive-extra-utils (2007.dfsg.2-7ubuntu1) ... Running mktexlsr. This may take some time... done. Setting up texlive-fonts-recommended (2007.dfsg.2-4ubuntu1) ... Running mktexlsr. This may take some time... done. Setting up texlive-generic-recommended (2007.dfsg.2-4ubuntu1) ... Running mktexlsr. This may take some time... done. Setting up texlive-latex-base (2007.dfsg.2-4ubuntu1) ... Running mktexlsr. This may take some time... done. Building format(s) --all --cnffile /etc/texmf/fmt.d/10texlive-latex-base.cnf. This may take some time... done. Setting up texlive-pictures (2007.dfsg.2-4ubuntu1) ... Running mktexlsr. This may take some time... done. Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Running updmap-sys. This may take some time... done. Setting up texlive-latex-extra (2007.dfsg.17-2ubuntu1) ... Running mktexlsr. This may take some time... done. Setting up texlive-latex-recommended (2007.dfsg.2-4ubuntu1) ... Running mktexlsr. This may take some time... done. Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Running updmap-sys. This may take some time... done. Setting up openjdk-6-jre-lib (6b16-1.6.1-1ubuntu3) ... Setting up openjdk-6-jre-headless (6b16-1.6.1-1ubuntu3) ... update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/java to provide /usr/bin/java (java) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/orbd to provide /usr/bin/orbd (orbd) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/servertool to provide /usr/bin/servertool (servertool) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/tnameserv to provide /usr/bin/tnameserv (tnameserv) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode. Setting up libaccess-bridge-java (1.26.2-1ubuntu1) ... Setting up libaccess-bridge-java-jni (1.26.2-1ubuntu1) ... Setting up openjdk-6-jre (6b16-1.6.1-1ubuntu3) ... update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/javaws to provide /usr/bin/javaws (javaws) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/pluginappletviewer to provide /usr/bin/pluginappletviewer (pluginappletviewer) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/jre/bin/policytool to provide /usr/bin/policytool (policytool) in auto mode. Setting up openjdk-6-jdk (6b16-1.6.1-1ubuntu3) ... update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/appletviewer to provide /usr/bin/appletviewer (appletviewer) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/apt to provide /usr/bin/apt (apt) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/extcheck to provide /usr/bin/extcheck (extcheck) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/idlj to provide /usr/bin/idlj (idlj) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jar to provide /usr/bin/jar (jar) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/javac to provide /usr/bin/javac (javac) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/javah to provide /usr/bin/javah (javah) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/javap to provide /usr/bin/javap (javap) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jhat to provide /usr/bin/jhat (jhat) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jps to provide /usr/bin/jps (jps) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jsadebugd to provide /usr/bin/jsadebugd (jsadebugd) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/native2ascii to provide /usr/bin/native2ascii (native2ascii) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/rmic to provide /usr/bin/rmic (rmic) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/schemagen to provide /usr/bin/schemagen (schemagen) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/wsgen to provide /usr/bin/wsgen (wsgen) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/wsimport to provide /usr/bin/wsimport (wsimport) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk/bin/xjc to provide /usr/bin/xjc (xjc) in auto mode. Setting up ca-certificates-java (20090928) ... creating /etc/ssl/certs/java/cacerts... done. Setting up libjline-java (0.9.94-1ubuntu1) ... Setting up rhino (1.7R2-1ubuntu1) ... update-alternatives: using /usr/bin/rhino to provide /usr/bin/js (js) in auto mode. Processing triggers for libc-bin ... ldconfig deferred processing now taking place Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.10.1-0ubuntu15 make_3.81-6 dpkg-dev_1.15.4ubuntu2 g++-4.4_4.4.1-4ubuntu8 gcc-4.4_4.4.1-4ubuntu8 binutils_2.19.91.20091014-0ubuntu1 libstdc++6_4.4.1-4ubuntu8 libstdc++6-4.4-dev_4.4.1-4ubuntu8 ------------------------------------------------------------------------------ sh: gcc: not found dpkg-source: warning: Couldn't determine gcc system type, falling back to default (native compilation) gpg: Signature made Sat Oct 17 04:37:06 2009 BST using DSA key ID 387EE263 gpg: Can't check signature: public key not found dpkg-source: extracting r-base in r-base-2.9.2 dpkg-source: unpacking r-base_2.9.2.orig.tar.gz dpkg-source: applying /home/buildd/build-1295764-2708701/r-base_2.9.2-3ubuntu1.diff.gz dpkg-buildpackage: set CFLAGS to default value: -g -O2 dpkg-buildpackage: set CPPFLAGS to default value: dpkg-buildpackage: set LDFLAGS to default value: -Wl,-Bsymbolic-functions dpkg-buildpackage: set FFLAGS to default value: -g -O2 dpkg-buildpackage: set CXXFLAGS to default value: -g -O2 dpkg-buildpackage: source package r-base dpkg-buildpackage: source version 2.9.2-3ubuntu1 dpkg-buildpackage: host architecture i386 /usr/bin/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* 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 *** dh_testdir R_PAPERSIZE=letter \ R_BROWSER=sensible-browser \ PAGER=/usr/bin/pager \ PERL=/usr/bin/perl \ R_UNZIPCMD=/usr/bin/unzip \ R_ZIPCMD=/usr/bin/zip \ R_PRINTCMD=/usr/bin/lpr \ LIBnn=lib \ AWK=/usr/bin/awk \ CC=gcc \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CPPFLAGS= \ LDFLAGS= \ FLIBS= \ rsharedir=/usr/share/R/share \ rincludedir=/usr/share/R/include \ rdocdir=/usr/share/R/doc \ ./configure --prefix=/usr \ --with-cairo \ --with-jpeglib \ --with-pango \ --with-png \ --with-readline \ --with-tcltk \ --with-system-bzlib \ --with-system-pcre \ --with-system-zlib \ --mandir=/usr/share/man \ --infodir=/usr/share/info \ --datadir=/usr/share/R/share \ --includedir=/usr/share/R/include \ --with-blas \ --with-lapack \ --without-gnome \ --enable-R-profiling \ --enable-R-shlib \ --enable-memory-profiling \ --without-recommended-packages \ --build i486-linux-gnu checking build system type... i486-pc-linux-gnu checking host system type... i486-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 for working aclocal... missing checking for working autoconf... missing checking for working automake... missing checking for working autoheader... missing checking for gawk... /usr/bin/awk checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking whether ln -s works... yes checking for bison... bison -y checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /bin/sed checking for /usr/bin/pager... /usr/bin/pager checking for /usr/bin/perl... /usr/bin/perl checking whether perl version is at least 5.8.0... yes checking for dvips... /usr/bin/dvips checking for tex... /usr/bin/tex checking for latex... /usr/bin/latex checking for makeindex... /usr/bin/makeindex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeinfo... /usr/bin/makeinfo checking whether makeinfo version is at least 4.7... yes checking for texi2dvi... /usr/bin/texi2dvi checking for unzip... /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... /bin/gzip using default browser ... sensible-browser checking for acroread... no checking for acroread4... no checking for evince... no checking for xdg-open... /usr/bin/xdg-open checking for pkg-config... /usr/bin/pkg-config checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking whether gcc needs -traditional... no checking how to run the C preprocessor... gcc -E defining F77 to be gfortran checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking how to run the C++ preprocessor... g++ -E checking whether __attribute__((visibility())) is supported... yes checking whether gcc accepts -fvisibility... yes checking whether gfortran accepts -fvisibility... yes checking for gcc... gcc checking whether we are using the GNU Objective C compiler... no checking whether gcc accepts -g... no checking for Objective C++ compiler... trying some possibilities checking whether g++ can compile ObjC++... no checking whether can compile ObjC++... no no working compiler found checking for a sed that does not truncate output... (cached) /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... 805306365 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking whether we are using the GNU C++ compiler... (cached) yes checking whether g++ accepts -g... (cached) yes checking how to run the C++ preprocessor... g++ -E checking whether we are using the GNU Fortran 77 compiler... (cached) yes checking whether gfortran accepts -g... (cached) yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... 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GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... yes checking if gfortran supports -c -o file.o... yes checking if gfortran supports -c -o file.o... (cached) yes checking whether the gfortran linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for cos in -lm... yes checking for sin in -lm... yes checking for dlopen in -ldl... yes checking readline/history.h usability... yes checking readline/history.h presence... yes checking for readline/history.h... yes checking readline/readline.h usability... yes checking readline/readline.h presence... yes checking for readline/readline.h... yes checking for rl_callback_read_char in -lreadline... yes checking for history_truncate_file... yes checking whether rl_completion_matches exists and is declared... yes checking for ANSI C header files... (cached) yes checking whether time.h and sys/time.h may both be included... yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for sys/wait.h that is POSIX.1 compatible... yes checking arpa/inet.h usability... yes checking arpa/inet.h presence... yes checking for arpa/inet.h... yes checking dl.h usability... no checking dl.h presence... no checking for dl.h... no checking for dlfcn.h... (cached) yes checking elf.h usability... yes checking elf.h presence... yes checking for elf.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking floatingpoint.h usability... no checking floatingpoint.h presence... no checking for floatingpoint.h... no checking fpu_control.h usability... yes checking fpu_control.h presence... yes checking for fpu_control.h... yes checking glob.h usability... yes checking glob.h presence... yes checking for glob.h... yes checking grp.h usability... yes checking grp.h presence... yes checking for grp.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking locale.h usability... yes checking locale.h presence... yes checking for locale.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking pwd.h usability... yes checking pwd.h presence... yes checking for pwd.h... yes checking stdbool.h usability... yes checking stdbool.h presence... yes checking for stdbool.h... yes checking for strings.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking sys/select.h usability... yes checking sys/select.h presence... yes checking for sys/select.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking for sys/stat.h... (cached) yes checking sys/resource.h usability... yes checking sys/resource.h presence... yes checking for sys/resource.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking sys/times.h usability... yes checking sys/times.h presence... yes checking for sys/times.h... yes checking sys/utsname.h usability... yes checking sys/utsname.h presence... yes checking for sys/utsname.h... yes checking time.h usability... yes checking time.h presence... yes checking for time.h... yes checking for unistd.h... (cached) yes checking errno.h usability... yes checking errno.h presence... yes checking for errno.h... yes checking for inttypes.h... (cached) yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking for stdint.h... (cached) yes checking for string.h... (cached) yes checking whether setjmp.h is POSIX.1 compatible... yes checking whether sigsetjmp is declared... yes checking whether siglongjmp is declared... yes checking for GNU C library with version >= 2... yes checking return type of signal handlers... void checking for pid_t... yes checking for size_t... yes checking whether SIZE_MAX is declared... yes checking for blkcnt_t... yes checking for type of socket length... socklen_t * checking for stack_t... yes checking for intptr_t... yes checking for uintptr_t... yes checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for gcc option to accept ISO C99... -std=gnu99 checking for gcc -std=gnu99 option to accept ISO Standard C... (cached) -std=gnu99 checking for inline... inline checking for int... yes checking size of int... 4 checking for long... yes checking size of long... 4 checking for long long... yes checking size of long long... 8 checking for double... yes checking size of double... 8 checking for long double... yes checking size of long double... 12 checking for size_t... (cached) yes checking size of size_t... 4 checking whether we can compute C Make dependencies... yes, using gcc -std=gnu99 -MM checking whether gcc -std=gnu99 supports -c -o FILE.lo... yes checking how to get verbose linking output from gfortran... -v checking for Fortran 77 libraries of gfortran... -L/usr/lib/gcc/i486-linux-gnu/4.4.1 -L/usr/lib/gcc/i486-linux-gnu/4.4.1/../../../../lib -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/i486-linux-gnu/4.4.1/../../.. -lgfortranbegin -lgfortran -lm checking how to get verbose linking output from gcc -std=gnu99... -v checking for C libraries of gcc -std=gnu99... -L/usr/lib/gcc/i486-linux-gnu/4.4.1 -L/usr/lib/gcc/i486-linux-gnu/4.4.1/../../../../lib -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/i486-linux-gnu/4.4.1/../../.. -lgcc_s checking for dummy main to link with Fortran 77 libraries... none checking for Fortran 77 name-mangling scheme... lower case, underscore, no extra underscore checking whether gfortran appends underscores to external 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vsnprintf is declared... yes checking for library containing connect... none required checking for library containing gethostbyname... none required checking for library containing xdr_string... none required checking for __setfpucw... no checking for working calloc... yes checking for working isfinite... yes checking for working log1p... yes checking whether ftell works correctly on files opened for append... yes checking for working sigaction... yes checking whether mktime sets errno... no checking whether C99 double complex is supported... checking complex.h usability... yes checking complex.h presence... yes checking for complex.h... yes checking for double complex... yes checking whether cexp exists and is declared... yes checking whether clog exists and is declared... yes checking whether csqrt exists and is declared... yes checking whether cpow exists and is declared... yes checking whether ccos exists and is declared... yes checking whether csin exists and is declared... yes 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(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 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/html/search/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/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile.in 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/bzip2/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/pcre/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/extra/zlib/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/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/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/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/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/utils/DESCRIPTION config.status: creating src/library/utils/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/modules/vfonts/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/Rdconv config.status: creating src/scripts/Rdiff config.status: creating src/scripts/Rprof config.status: creating src/scripts/Sd2Rd config.status: creating src/scripts/build config.status: creating src/scripts/check config.status: creating src/scripts/f77_f2c config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager 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 tests/Native/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing po-directories commands config.status: creating po/POTFILES config.status: creating po/Makefile config.status: executing stamp-h commands R is now configured for i486-pc-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -std=gnu99 -g -O2 Fortran 77 compiler: gfortran -g -O2 C++ compiler: g++ -g -O2 Fortran 90/95 compiler: gfortran -g -O2 Obj-C compiler: Interfaces supported: X11, tcltk External libraries: readline, BLAS(generic), LAPACK(generic) Additional capabilities: PNG, JPEG, TIFF, iconv, MBCS, NLS, cairo Options enabled: shared R library, R profiling, memory profiling, Java Recommended packages: no touch configure-stamp *** make-arch *** /usr/bin/make CFLAGS="-std=gnu99 -O3 -pipe -g" \ CXXFLAGS="-O3 -pipe -g" \ FFLAGS="-O3 -pipe -g" \ CC=gcc \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-O1" \ R make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/m4' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/m4' make[2]: Entering directory `/build/buildd/r-base-2.9.2/tools' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/tools' make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/html' make[4]: Entering directory `/build/buildd/r-base-2.9.2/doc/html/search' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/doc/html/search' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/html' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' make[3]: Nothing to be done for `R'. make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc' make[2]: Entering directory `/build/buildd/r-base-2.9.2/etc' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/etc' make[2]: Entering directory `/build/buildd/r-base-2.9.2/share' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/share' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/scripts' creating src/scripts/R.fe make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/scripts' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/scripts' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/include' mkdir -p -- ../../include make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/include/R_ext' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/include' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/extra' make[3]: Nothing to be done for `R'. make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/appl' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/appl' making bakslv.d from bakslv.c making binning.d from binning.c making cpoly.d from cpoly.c making cumsum.d from cumsum.c making fft.d from fft.c making fmin.d from fmin.c making integrate.d from integrate.c making interv.d from interv.c making lbfgsb.d from lbfgsb.c making machar.d from machar.c making maxcol.d from maxcol.c making pretty.d from pretty.c making rcont.d from rcont.c making rowsum.d from rowsum.c making stem.d from stem.c making strsignif.d from strsignif.c making tabulate.d from tabulate.c making uncmin.d from uncmin.c making zeroin.d from zeroin.c make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/appl' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c bakslv.c -o bakslv.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c binning.c -o binning.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c cpoly.c -o cpoly.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c cumsum.c -o cumsum.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fft.c -o fft.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fmin.c -o fmin.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c integrate.c -o integrate.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c interv.c -o interv.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c lbfgsb.c -o lbfgsb.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c machar.c -o machar.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c maxcol.c -o maxcol.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pretty.c -o pretty.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rcont.c -o rcont.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rowsum.c -o rowsum.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c stem.c -o stem.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c strsignif.c -o strsignif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c tabulate.c -o tabulate.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c uncmin.c -o uncmin.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c zeroin.c -o zeroin.o gfortran -fpic -O3 -pipe -g -c ch2inv.f -o ch2inv.o gfortran -fpic -O3 -pipe -g -c chol.f -o chol.o gfortran -fpic -O3 -pipe -g -c dchdc.f -o dchdc.o gfortran -fpic -O3 -pipe -g -c dpbfa.f -o dpbfa.o gfortran -fpic -O3 -pipe -g -c dpbsl.f -o dpbsl.o gfortran -fpic -O3 -pipe -g -c dpoco.f -o dpoco.o gfortran -fpic -O3 -pipe -g -c dpodi.f -o dpodi.o gfortran -fpic -O3 -pipe -g -c dpofa.f -o dpofa.o gfortran -fpic -O3 -pipe -g -c dposl.f -o dposl.o gfortran -fpic -O3 -pipe -g -c dqrdc.f -o dqrdc.o gfortran -fpic -O3 -pipe -g -c dqrdc2.f -o dqrdc2.o gfortran -fpic -O3 -pipe -g -c dqrls.f -o dqrls.o gfortran -fpic -O3 -pipe -g -c dqrsl.f -o dqrsl.o gfortran -fpic -O3 -pipe -g -c dqrutl.f -o dqrutl.o gfortran -fpic -O3 -pipe -g -c dsvdc.f -o dsvdc.o gfortran -fpic -O3 -pipe -g -c dtrco.f -o dtrco.o gfortran -fpic -O3 -pipe -g -c dtrsl.f -o dtrsl.o gfortran -fpic -O3 -pipe -g -c eigen.f -o eigen.o rm -f libappl.a ar cr libappl.a bakslv.o binning.o cpoly.o cumsum.o fft.o fmin.o integrate.o interv.o lbfgsb.o machar.o maxcol.o pretty.o rcont.o rowsum.o stem.o strsignif.o tabulate.o uncmin.o zeroin.o ch2inv.o chol.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 eigen.o ranlib libappl.a make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: Entering directory `/build/buildd/r-base-2.9.2/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 expm1.d from expm1.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 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 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]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c mlutils.c -o mlutils.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c d1mach.c -o d1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c i1mach.c -o i1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fmax2.c -o fmax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fmin2.c -o fmin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fprec.c -o fprec.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fround.c -o fround.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c ftrunc.c -o ftrunc.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c sign.c -o sign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fsign.c -o fsign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c imax2.c -o imax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c imin2.c -o imin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c chebyshev.c -o chebyshev.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c log1p.c -o log1p.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c expm1.c -o expm1.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c lgammacor.c -o lgammacor.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c gammalims.c -o gammalims.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c stirlerr.c -o stirlerr.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c bd0.c -o bd0.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c gamma.c -o gamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c lgamma.c -o lgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c beta.c -o beta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c lbeta.c -o lbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c polygamma.c -o polygamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c bessel_i.c -o bessel_i.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c bessel_j.c -o bessel_j.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c bessel_k.c -o bessel_k.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c bessel_y.c -o bessel_y.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c choose.c -o choose.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c snorm.c -o snorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c sexp.c -o sexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dgamma.c -o dgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pgamma.c -o pgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qgamma.c -o qgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rgamma.c -o rgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dbeta.c -o dbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pbeta.c -o pbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qbeta.c -o qbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rbeta.c -o rbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dunif.c -o dunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c punif.c -o punif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qunif.c -o qunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c runif.c -o runif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dnorm.c -o dnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pnorm.c -o pnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qnorm.c -o qnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rnorm.c -o rnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dlnorm.c -o dlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c plnorm.c -o plnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qlnorm.c -o qlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rlnorm.c -o rlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c df.c -o df.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pf.c -o pf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qf.c -o qf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rf.c -o rf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dnf.c -o dnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dt.c -o dt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pt.c -o pt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qt.c -o qt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rt.c -o rt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dnt.c -o dnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dchisq.c -o dchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pchisq.c -o pchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qchisq.c -o qchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rchisq.c -o rchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rnchisq.c -o rnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dbinom.c -o dbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pbinom.c -o pbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qbinom.c -o qbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rbinom.c -o rbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rmultinom.c -o rmultinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dcauchy.c -o dcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pcauchy.c -o pcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qcauchy.c -o qcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rcauchy.c -o rcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dexp.c -o dexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pexp.c -o pexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qexp.c -o qexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rexp.c -o rexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dgeom.c -o dgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pgeom.c -o pgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qgeom.c -o qgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rgeom.c -o rgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dhyper.c -o dhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c phyper.c -o phyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qhyper.c -o qhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rhyper.c -o rhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dnbinom.c -o dnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pnbinom.c -o pnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qnbinom.c -o qnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rnbinom.c -o rnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dpois.c -o dpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c ppois.c -o ppois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qpois.c -o qpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rpois.c -o rpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dweibull.c -o dweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pweibull.c -o pweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qweibull.c -o qweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rweibull.c -o rweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dlogis.c -o dlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c plogis.c -o plogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qlogis.c -o qlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rlogis.c -o rlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dnchisq.c -o dnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pnchisq.c -o pnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qnchisq.c -o qnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dnbeta.c -o dnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pnbeta.c -o pnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qnbeta.c -o qnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pnf.c -o pnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pnt.c -o pnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qnf.c -o qnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qnt.c -o qnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c ptukey.c -o ptukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qtukey.c -o qtukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c toms708.c -o toms708.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c wilcox.c -o wilcox.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c signrank.c -o signrank.o rm -rf libnmath.a 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 expm1.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.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 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 `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' config.status: creating src/unix/Makefile make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' making dynload.d from dynload.c making edit.d from edit.c making stubs.d from stubs.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 making aqua.d from aqua.c making Rembedded.d from Rembedded.c make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dynload.c -o dynload.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c edit.c -o edit.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c stubs.c -o stubs.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c system.c -o system.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c sys-unix.c -o sys-unix.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c sys-std.c -o sys-std.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c X11.c -o X11.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c aqua.c -o aqua.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c Rembedded.c -o Rembedded.o rm -rf libunix.a ar cr libunix.a dynload.o edit.o stubs.o system.o sys-unix.o sys-std.o X11.o aqua.o Rembedded.o ranlib libunix.a make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -DR_HOME='"/build/buildd/r-base-2.9.2"' -o Rscript \ ./Rscript.c make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/main' config.status: creating src/main/Makefile make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' making CConverters.d from CConverters.c 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 apply.d from apply.c making apse.d from apse.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making base.d from base.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.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 cov.d from cov.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 deriv.d from deriv.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 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 fourier.d from fourier.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making gramRd.d from gramRd.c making graphics.d from graphics.c making identical.d from identical.c making inspect.d from inspect.c making inlined.d from inlined.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 match.d from match.c making memory.d from memory.c making model.d from model.c making names.d from names.c making objects.d from objects.c making optim.d from optim.c making optimize.d from optimize.c making options.d from options.c making par.d from par.c making paste.d from paste.c making pcre.d from pcre.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 random.d from random.c making regex.d from regex.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 size.d from size.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 unique.d from unique.c making util.d from util.c making version.d from version.c making vfonts.d from vfonts.c making Rmain.d from Rmain.c making alloca.d from alloca.c making acosh.d from acosh.c making asinh.d from asinh.c making atanh.d from atanh.c making mkdtemp.d from mkdtemp.c making snprintf.d from snprintf.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c making vsnprintf.d from vsnprintf.c making xspline.d from xspline.c make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c CConverters.c -o CConverters.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c CommandLineArgs.c -o CommandLineArgs.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c Rdynload.c -o Rdynload.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c Renviron.c -o Renviron.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c RNG.c -o RNG.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c apply.c -o apply.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c apse.c -o apse.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c arithmetic.c -o arithmetic.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c array.c -o array.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c attrib.c -o attrib.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c base.c -o base.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c bind.c -o bind.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c builtin.c -o builtin.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c character.c -o character.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c coerce.c -o coerce.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c colors.c -o colors.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c complex.c -o complex.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c connections.c -o connections.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c context.c -o context.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c cov.c -o cov.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c cum.c -o cum.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dcf.c -o dcf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c datetime.c -o datetime.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c debug.c -o debug.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c deparse.c -o deparse.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c deriv.c -o deriv.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c devices.c -o devices.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dotcode.c -o dotcode.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dounzip.c -o dounzip.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dstruct.c -o dstruct.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c duplicate.c -o duplicate.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c engine.c -o engine.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c envir.c -o envir.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c errors.c -o errors.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c eval.c -o eval.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c format.c -o format.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c fourier.c -o fourier.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c gevents.c -o gevents.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c gram.c -o gram.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c gram-ex.c -o gram-ex.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c gramRd.c -o gramRd.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c graphics.c -o graphics.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c identical.c -o identical.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c inspect.c -o inspect.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c inlined.c -o inlined.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c internet.c -o internet.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c iosupport.c -o iosupport.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c lapack.c -o lapack.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c list.c -o list.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c localecharset.c -o localecharset.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c logic.c -o logic.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c main.c -o main.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c mapply.c -o mapply.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c match.c -o match.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c memory.c -o memory.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c model.c -o model.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c names.c -o names.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c objects.c -o objects.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c optim.c -o optim.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c optimize.c -o optimize.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c options.c -o options.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c par.c -o par.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c paste.c -o paste.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c pcre.c -o pcre.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c platform.c -o platform.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c plot.c -o plot.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c plot3d.c -o plot3d.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c plotmath.c -o plotmath.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c print.c -o print.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c printarray.c -o printarray.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c printvector.c -o printvector.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c printutils.c -o printutils.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c qsort.c -o qsort.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c random.c -o random.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c regex.c -o regex.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c registration.c -o registration.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c relop.c -o relop.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rlocale.c -o rlocale.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c saveload.c -o saveload.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c scan.c -o scan.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c seq.c -o seq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c serialize.c -o serialize.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c size.c -o size.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c sort.c -o sort.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c source.c -o source.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c split.c -o split.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c sprintf.c -o sprintf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c startup.c -o startup.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c subassign.c -o subassign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c subscript.c -o subscript.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c subset.c -o subset.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c summary.c -o summary.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c sysutils.c -o sysutils.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c unique.c -o unique.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c util.c -o util.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c version.c -o version.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c vfonts.c -o vfonts.o gfortran -fpic -O3 -pipe -g -c xxxpr.f -o xxxpr.o gcc -std=gnu99 -shared -Wl,-O1 -o libR.so CConverters.o CommandLineArgs.o Rdynload.o Renviron.o RNG.o apply.o apse.o arithmetic.o array.o attrib.o base.o bind.o builtin.o character.o coerce.o colors.o complex.o connections.o context.o cov.o cum.o dcf.o datetime.o debug.o deparse.o deriv.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o engine.o envir.o errors.o eval.o format.o fourier.o gevents.o gram.o gram-ex.o gramRd.o graphics.o identical.o inspect.o inlined.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o main.o mapply.o match.o memory.o model.o names.o objects.o optim.o optimize.o options.o par.o paste.o pcre.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o random.o regex.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o size.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o unique.o util.o version.o vfonts.o xxxpr.o ../unix/Rembedded.o ../unix/libunix.a ../appl/libappl.a ../nmath/libnmath.a -lblas -lgfortran -lm -lreadline -lpcre -lbz2 -lz -ldl -lm make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/main' mkdir -p -- /build/buildd/r-base-2.9.2/bin/exec mkdir -p -- /build/buildd/r-base-2.9.2/lib make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c Rmain.c -o Rmain.o gcc -std=gnu99 -Wl,--export-dynamic -Wl,-O1 -o R.bin Rmain.o -L../../lib -lR make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/modules' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' making Rsock.d from Rsock.c making internet.d from internet.c making nanoftp.d from nanoftp.c making nanohttp.d from nanohttp.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -fvisibility=hidden -c internet.c -o internet.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -fvisibility=hidden -c nanoftp.c -o nanoftp.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -fvisibility=hidden -c nanohttp.c -o nanohttp.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -fvisibility=hidden -c sock.c -o sock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -std=gnu99 -shared -Wl,-O1 -o internet.so Rsock.o internet.o nanoftp.o nanohttp.o sock.o sockconn.o -L../../../lib -lR make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' mkdir -p -- /build/buildd/r-base-2.9.2/modules make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c Lapack.c -o Lapack.o gcc -std=gnu99 -shared -Wl,-O1 -o lapack.so Lapack.o -L../../../lib -lR -llapack -lblas -lgfortran -lm make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' 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 make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c g_alab_her.c -o g_alab_her.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c g_cntrlify.c -o g_cntrlify.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c g_fontdb.c -o g_fontdb.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c g_her_glyph.c -o g_her_glyph.o gcc -std=gnu99 -shared -Wl,-O1 -o vfonts.so g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o -L../../../lib -lR -lm make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' making dataentry.d from dataentry.c making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' gcc -I. -I../../../src/include -I../../../src/include -D_REENTRANT -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/directfb -I/usr/include/libpng12 -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c dataentry.c -o dataentry.o gcc -I. -I../../../src/include -I../../../src/include -D_REENTRANT -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/directfb -I/usr/include/libpng12 -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c devX11.c -o devX11.o gcc -I. -I../../../src/include -I../../../src/include -D_REENTRANT -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/directfb -I/usr/include/libpng12 -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rotated.c -o rotated.o gcc -I. -I../../../src/include -I../../../src/include -D_REENTRANT -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/directfb -I/usr/include/libpng12 -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c rbitmap.c -o rbitmap.o gcc -std=gnu99 -shared -Wl,-O1 -o R_X11.so dataentry.o devX11.o rotated.o rbitmap.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lX11 -lpng12 -lz -lcairo -lX11 -lXt -ljpeg -lpng -lz -ltiff -L../../../lib -lR -lm make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/library' mkdir -p -- ../../library make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/profile' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/base' building package 'base' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/base' mkdir -p -- ../../../library/base/demo mkdir -p -- ../../../library/base/po mkdir -p -- ../../../library/base/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/base' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/base' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools' mkdir -p -- ../../../library/tools/R mkdir -p -- ../../../library/tools/po mkdir -p -- ../../../library/tools/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools' make[6]: Entering directory `/build/buildd/r-base-2.9.2/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 gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c text.c -o text.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c init.c -o init.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c Rmd5.c -o Rmd5.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c md5.c -o md5.o gcc -std=gnu99 -shared -Wl,-O1 -o tools.so text.o init.o Rmd5.o md5.o -L../../../../lib -lR make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/utils' mkdir -p -- ../../../library/utils/R mkdir -p -- ../../../library/utils/po mkdir -p -- ../../../library/utils/man mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/utils' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/utils' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/utils' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/utils' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R mkdir -p -- ../../../library/grDevices/po mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' making chull.d from chull.c making devNull.d from devNull.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c making init.d from init.c gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c chull.c -o chull.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c devNull.c -o devNull.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c devPicTeX.c -o devPicTeX.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c devPS.c -o devPS.o devPS.c: In function 'PSEncodeFonts': devPS.c:2497: warning: format not a string literal and no format arguments devPS.c:2498: warning: format not a string literal and no format arguments gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c devQuartz.c -o devQuartz.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -c init.c -o init.o gcc -std=gnu99 -shared -Wl,-O1 -o grDevices.so chull.o devNull.o devPicTeX.o devPS.o devQuartz.o init.o -L../../../../lib -lR make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/graphics' mkdir -p -- ../../../library/graphics/R mkdir -p -- ../../../library/graphics/po mkdir -p -- ../../../library/graphics/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/graphics' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/graphics' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/graphics' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/graphics' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats' mkdir -p -- ../../../library/stats/R mkdir -p -- ../../../library/stats/po mkdir -p -- ../../../library/stats/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats' make[6]: Entering directory `/build/buildd/r-base-2.9.2/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 isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making Trunmed.d from Trunmed.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 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 gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c init.c -o init.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c kmeans.c -o kmeans.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c ansari.c -o ansari.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c bandwidths.c -o bandwidths.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c chisqsim.c -o chisqsim.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c d2x2xk.c -o d2x2xk.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c fexact.c -o fexact.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c kendall.c -o kendall.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c ks.c -o ks.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c line.c -o line.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c smooth.c -o smooth.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c prho.c -o prho.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c swilk.c -o swilk.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c ksmooth.c -o ksmooth.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c loessc.c -o loessc.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c isoreg.c -o isoreg.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c Srunmed.c -o Srunmed.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c Trunmed.c -o Trunmed.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c dblcen.c -o dblcen.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c distance.c -o distance.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c hclust-utils.c -o hclust-utils.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c nls.c -o nls.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c HoltWinters.c -o HoltWinters.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c PPsum.c -o PPsum.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c arima.c -o arima.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c burg.c -o burg.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c filter.c -o filter.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c mAR.c -o mAR.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c pacf.c -o pacf.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c starma.c -o starma.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c port.c -o port.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c family.c -o family.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c sbart.c -o sbart.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c approx.c -o approx.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c loglin.c -o loglin.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c lowess.c -o lowess.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c massdist.c -o massdist.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c splines.c -o splines.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c bsplvd.f -o bsplvd.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c bvalue.f -o bvalue.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c bvalus.f -o bvalus.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c loessf.f -o loessf.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c ppr.f -o ppr.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c qsbart.f -o qsbart.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c sgram.f -o sgram.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c sinerp.f -o sinerp.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c sslvrg.f -o sslvrg.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c stxwx.f -o stxwx.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c hclust.f -o hclust.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c kmns.f -o kmns.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c eureka.f -o eureka.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c stl.f -o stl.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c portsrc.f -o portsrc.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c lminfl.f -o lminfl.o gcc -std=gnu99 -shared -Wl,-O1 -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 isoreg.o Srunmed.o Trunmed.o dblcen.o distance.o hclust-utils.o nls.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 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 -lblas -lgfortran -lm -L../../../../lib -lR make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/datasets' mkdir -p -- ../../../library/datasets/R mkdir -p -- ../../../library/datasets/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/datasets' mkdir -p -- ../../../library/datasets/data make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/datasets' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods' mkdir -p -- ../../../library/methods/R mkdir -p -- ../../../library/methods/po mkdir -p -- ../../../library/methods/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods' make[6]: Entering directory `/build/buildd/r-base-2.9.2/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 gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c do_substitute_direct.c -o do_substitute_direct.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c init.c -o init.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c slot.c -o slot.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c class_support.c -o class_support.o gcc -I../../../../include -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c tests.c -o tests.o gcc -std=gnu99 -shared -Wl,-O1 -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o -L../../../../lib -lR make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods' dumping R code in package 'methods' initializing class and method definitions ...done make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grid' mkdir -p -- ../../../library/grid/R mkdir -p -- ../../../library/grid/doc mkdir -p -- ../../../library/grid/po mkdir -p -- ../../../library/grid/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grid' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grid' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grid/src' 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 matrix.d from matrix.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 -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c gpar.c -o gpar.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c grid.c -o grid.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c just.c -o just.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c layout.c -o layout.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c matrix.c -o matrix.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c register.c -o register.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c state.c -o state.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c unit.c -o unit.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c util.c -o util.o gcc -I../../../../include -fvisibility=hidden -fpic -std=gnu99 -O3 -pipe -g -c viewport.c -o viewport.o gcc -std=gnu99 -shared -Wl,-O1 -o grid.so gpar.o grid.o just.o layout.o matrix.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grid/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grid/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grid/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grid/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grid' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grid' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grid' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grid' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines' mkdir -p -- ../../../library/splines/R mkdir -p -- ../../../library/splines/po mkdir -p -- ../../../library/splines/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines/src' making splines.d from splines.c gcc -I../../../../include -fpic -std=gnu99 -O3 -pipe -g -c splines.c -o splines.o gcc -std=gnu99 -shared -Wl,-O1 -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats4' mkdir -p -- ../../../library/stats4/R mkdir -p -- ../../../library/stats4/po mkdir -p -- ../../../library/stats4/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats4' Creating a new generic function for "coef" in "stats4" Creating a new generic function for "summary" in "stats4" Creating a new generic function for "profile" in "stats4" Creating a new generic function for "plot" in "stats4" Creating a new generic function for "confint" in "stats4" Creating a new generic function for "logLik" in "stats4" Creating a new generic function for "vcov" in "stats4" Creating a new generic function for "update" in "stats4" make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec mkdir -p -- ../../../library/tcltk/po mkdir -p -- ../../../library/tcltk/man make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[5]: Entering directory `/build/buildd/r-base-2.9.2/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 -I/usr/include/tcl8.5 -I/usr/include/tcl8.5 -fpic -std=gnu99 -O3 -pipe -g -c init.c -o init.o gcc -I../../../../include -I/usr/include/tcl8.5 -I/usr/include/tcl8.5 -fpic -std=gnu99 -O3 -pipe -g -c tcltk.c -o tcltk.o gcc -I../../../../include -I/usr/include/tcl8.5 -I/usr/include/tcl8.5 -fpic -std=gnu99 -O3 -pipe -g -c tcltk_unix.c -o tcltk_unix.o gcc -std=gnu99 -shared -Wl,-O1 -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib -ltcl8.5 -L/usr/lib -ltk8.5 -lX11 -lXss -lXext -lm -L../../../../lib -lR make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: `Makedeps' is up to date. make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/base' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src' make[2]: Entering directory `/build/buildd/r-base-2.9.2/tests' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/tests' make[2]: Entering directory `/build/buildd/r-base-2.9.2/po' make[3]: Entering directory `/build/buildd/r-base-2.9.2/po' installing translations: mkdir -p -- ../share/locale/en/LC_MESSAGES en mkdir -p -- ../share/locale/en_GB/LC_MESSAGES en_GB mkdir -p -- ../share/locale/es/LC_MESSAGES es mkdir -p -- ../share/locale/fr/LC_MESSAGES fr mkdir -p -- ../share/locale/de/LC_MESSAGES de mkdir -p -- ../share/locale/it/LC_MESSAGES it mkdir -p -- ../share/locale/ja/LC_MESSAGES ja mkdir -p -- ../share/locale/ko/LC_MESSAGES ko mkdir -p -- ../share/locale/pt_BR/LC_MESSAGES pt_BR mkdir -p -- ../share/locale/ru/LC_MESSAGES ru mkdir -p -- ../share/locale/zh_CN/LC_MESSAGES zh_CN mkdir -p -- ../share/locale/zh_TW/LC_MESSAGES zh_TW mkdir -p -- ../share/locale/en@quot/LC_MESSAGES en@quot make[3]: Leaving directory `/build/buildd/r-base-2.9.2/po' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/po' you should 'make docs' now ... make[1]: Leaving directory `/build/buildd/r-base-2.9.2' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="-std=gnu99 -O3 -pipe -g -D_REENTRANT" \ CXXFLAGS="-O3 -pipe -g -D_REENTRANT" \ FFLAGS="-O3 -pipe -g -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ libRmath_la_LDFLAGS=-Wl,-soname,libRmath.so.1 \ shared static ) make[1]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory `/build/buildd/r-base-2.9.2/src/include' make[2]: `Rmath.h' is up to date. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src/include' Copying source files make[2]: Entering directory `/build/buildd/r-base-2.9.2/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 expm1.d from expm1.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 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 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 `/build/buildd/r-base-2.9.2/src/nmath/standalone' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fprec.c -o fprec.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fround.c -o fround.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c sign.c -o sign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fsign.c -o fsign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c imax2.c -o imax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c imin2.c -o imin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c log1p.c -o log1p.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c expm1.c -o expm1.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c bd0.c -o bd0.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c gamma.c -o gamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -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 -std=gnu99 -O3 -pipe -g -D_REENTRANT -c beta.c -o beta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -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 -std=gnu99 -O3 -pipe -g -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 -std=gnu99 -O3 -pipe -g -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 -std=gnu99 -O3 -pipe -g -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 -std=gnu99 -O3 -pipe -g -D_REENTRANT -c choose.c -o choose.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c snorm.c -o snorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c sexp.c -o sexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dunif.c -o dunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c punif.c -o punif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qunif.c -o qunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c runif.c -o runif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c df.c -o df.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pf.c -o pf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qf.c -o qf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rf.c -o rf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnf.c -o dnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dt.c -o dt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pt.c -o pt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qt.c -o qt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rt.c -o rt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnt.c -o dnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dchisq.c -o dchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pchisq.c -o pchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qchisq.c -o qchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pbinom.c -o pbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qbinom.c -o qbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rbinom.c -o rbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rmultinom.c -o rmultinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dcauchy.c -o dcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pcauchy.c -o pcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dexp.c -o dexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pexp.c -o pexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qexp.c -o qexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rexp.c -o rexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dgeom.c -o dgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dhyper.c -o dhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c phyper.c -o phyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qhyper.c -o qhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rhyper.c -o rhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnbinom.c -o dnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnbinom.c -o pnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnbinom.c -o qnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rnbinom.c -o rnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dpois.c -o dpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c ppois.c -o ppois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qpois.c -o qpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rpois.c -o rpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c plogis.c -o plogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnf.c -o pnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnt.c -o pnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnf.c -o qnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnt.c -o qnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c ptukey.c -o ptukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qtukey.c -o qtukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c toms708.c -o toms708.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c signrank.c -o signrank.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -std=gnu99 -shared -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 expm1.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.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 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 make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath/standalone' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c mlutils.c -o mlutils.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c d1mach.c -o d1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c i1mach.c -o i1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fmax2.c -o fmax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fmin2.c -o fmin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fprec.c -o fprec.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fround.c -o fround.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c sign.c -o sign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c fsign.c -o fsign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c imax2.c -o imax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c imin2.c -o imin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c log1p.c -o log1p.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c expm1.c -o expm1.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c gammalims.c -o gammalims.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c bd0.c -o bd0.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c gamma.c -o gamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c lgamma.c -o lgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c beta.c -o beta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c lbeta.c -o lbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c polygamma.c -o polygamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c choose.c -o choose.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c snorm.c -o snorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c sexp.c -o sexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dgamma.c -o dgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pgamma.c -o pgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qgamma.c -o qgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rgamma.c -o rgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dbeta.c -o dbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pbeta.c -o pbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qbeta.c -o qbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rbeta.c -o rbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dunif.c -o dunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c punif.c -o punif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qunif.c -o qunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c runif.c -o runif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnorm.c -o dnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnorm.c -o pnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnorm.c -o qnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rnorm.c -o rnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c plnorm.c -o plnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c df.c -o df.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pf.c -o pf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qf.c -o qf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rf.c -o rf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnf.c -o dnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dt.c -o dt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pt.c -o pt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qt.c -o qt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rt.c -o rt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnt.c -o dnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dchisq.c -o dchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pchisq.c -o pchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qchisq.c -o qchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rchisq.c -o rchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dbinom.c -o dbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pbinom.c -o pbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qbinom.c -o qbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rbinom.c -o rbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pcauchy.c -o pcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qcauchy.c -o qcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rcauchy.c -o rcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dexp.c -o dexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pexp.c -o pexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qexp.c -o qexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rexp.c -o rexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dgeom.c -o dgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pgeom.c -o pgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qgeom.c -o qgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rgeom.c -o rgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dhyper.c -o dhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c phyper.c -o phyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qhyper.c -o qhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rhyper.c -o rhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dpois.c -o dpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c ppois.c -o ppois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qpois.c -o qpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rpois.c -o rpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dweibull.c -o dweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c pweibull.c -o pweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qweibull.c -o qweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rweibull.c -o rweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c dlogis.c -o dlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c plogis.c -o plogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c qlogis.c -o qlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 -pipe -g -D_REENTRANT -c rlogis.c -o rlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -std=gnu99 -O3 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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 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 `/build/buildd/r-base-2.9.2/src/nmath/standalone' make[1]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath/standalone' /usr/bin/make docs R_CMD_BUILD_HELP_OPTS="--txt --example" make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/m4' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/m4' make[2]: Entering directory `/build/buildd/r-base-2.9.2/tools' 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directory `/build/buildd/r-base-2.9.2/src/appl' make[4]: `libappl.a' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: `libnmath.a' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: `libunix.a' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -DR_HOME='"/build/buildd/r-base-2.9.2"' -o Rscript \ ./Rscript.c make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/main' /build/buildd/r-base-2.9.2/lib/libR.so is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/main' /build/buildd/r-base-2.9.2/bin/exec/R is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/modules' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: `internet.so' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: `lapack.so' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: `vfonts.so' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[4]: Leaving directory 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`/build/buildd/r-base-2.9.2/src/library/base' all.R is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/base' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/base' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools' building package 'tools' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools' all.R is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tools' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/utils' building package 'utils' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/utils' all.R is unchanged make[5]: Nothing to be done for `iconvlist'. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/utils' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/utils' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/utils' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/utils' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' building package 'grDevices' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' all.R is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/grDevices' make[5]: Leaving directory 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`/build/buildd/r-base-2.9.2/src/library/datasets' all.R is unchanged ../../../library/datasets/R/datasets is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/datasets' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/datasets' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods' building package 'methods' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods' all.R is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/methods/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/methods/src' 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`/build/buildd/r-base-2.9.2/src/library/splines' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[7]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/splines' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/splines' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats4' building package 'stats4' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats4' all.R is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[5]: Nothing to be done for `Rfiles'. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: `Makedeps' is up to date. make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/base' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src' make[2]: Entering directory `/build/buildd/r-base-2.9.2/tests' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/tests' make[2]: Entering directory `/build/buildd/r-base-2.9.2/po' make[3]: Entering directory `/build/buildd/r-base-2.9.2/po' installing translations: en en_GB es fr de it ja ko pt_BR ru zh_CN zh_TW en@quot make[3]: Leaving directory `/build/buildd/r-base-2.9.2/po' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/po' you should 'make docs' now ... make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi 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 `/build/buildd/r-base-2.9.2/doc/html' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/doc/html' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/library' building/updating package metadata ... make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' building all R documentation indices make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' building all R object docs (text, HTML, LaTeX, examples) make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'base' Formats: text example Arithmetic text example AsIs text Bessel text example Colon text example Comparison text example Constants text example Control text example Cstack_info text example DateTimeClasses text example Dates text example Defunct text Deprecated text Encoding text example EnvVar text Extract text example Extract.data.frame text example Extract.factor text example Extremes text example Foreign text Hyperbolic text Internal text Last.value text example Log text example Logic text example MathFun text example Memory-limits text Memory text example NA text example NULL text example NumericConstants text example Ops.Date text example Paren text example Platform text example Primitive text example Quotes text Random-user text example Random text example RdUtils text Recall text example Reserved text Rhome text Round text example Special text example Startup text example Syntax text Sys.getenv text example Sys.getpid text example Sys.glob text example Sys.info text example Sys.localeconv text example Sys.setenv text example Sys.sleep text example Sys.time text example Sys.which text example Trig text UseMethod text Version text example abbreviate text example agrep text example all text example all.equal text example allnames text example any text example aperm text example append text example apply text example args text example array text example as.POSIXlt text example as.data.frame text as.environment text example as.function text example assign text example assignOps text attach text example attr text example attributes text example autoload text example backsolve text example base-defunct text base-deprecated text base-internal text base-package text basename text example bindenv text example body text example bquote text example browser text builtins text by text example c text example call text example callCC text example capabilities text example cat text example cbind text example char.expand text example character text example charmatch text example chartr text example chol text example chol2inv text example class text example col text example colSums text example colnames text example commandArgs text example comment text example complex text example conditions text example conflicts text example connections text example contributors text converters text example copyright text crossprod text example cumsum text example cut.POSIXt text example cut text example data.class text example data.frame text example data.matrix text example dataframeHelpers text date text example dcf text example debug text delayedAssign text example deparse text example deparseOpts text det text example detach text example dev text diag text example diff text example difftime text example dim text example dimnames text example do.call text example double text example dput text example drop text example dump text example duplicated text example dynload text example eapply text example eigen text example encodeString text example environment text example eval text example exists text example expand.grid text example expression text example factor text example file.access text example file.choose text file.info text example file.path text file.show text example files text example files2 text findInt text example force text example formals text example format.Date text example format text example format.info text example format.pval text example formatDL text example formatc text example function text example funprog text example gc text example gc.time text example gctorture text get text example getCallingDLL text example getDLLRegisteredRoutines text example getLoadedDLLs text example getNativeSymbolInfo text example gettext text example getwd text example gl text example grep text example groupGeneric text example gzcon text example hexmode text iconv text example icuSetCollate text example identical text example identity text ifelse text example integer text example interaction text example interactive text example invisible text example is.finite text example is.function text example is.language text example is.object text example is.recursive text example is.single text is.unsorted text isR text example isS4 text example isSymmetric text example jitter text example kappa text example kronecker text example l10n_info text example labels text lapply text example lazyload text length text example levels text example libPaths text example library text example library.dynam text example license text list text example list.files text example load text example locales text example logical text lower.tri text example ls text example make.names text example make.unique text example mapply text example margin.table text example mat.or.vec text example match text example match.arg text example match.call text example match.fun text example matmult text example matrix text example maxCol text example mean text example memory.profile text example merge text example message text example missing text example mode text example name text example names text example nargs text example nchar text example nlevels text example noquote text example notyet text example nrow text example ns-alt text example ns-dblcolon text example ns-hooks text ns-internal text ns-load text ns-lowlev text ns-reflect text ns-topenv text example numeric text example numeric_version text example octmode text example on.exit text example options text example order text example outer text example parse text example paste text example path.expand text example pmatch text example polyroot text example pos.to.env text example pretty text example print text example print.dataframe text example print.default text example prmatrix text example proc.time text example prod text example prop.table text example pushBack text example qr text example qraux text example quit text example range text example rank text example rapply text example raw text example rawConnection text example rawConversion text example readBin text example readChar text example readLines text example readRDS text readline text example real text reg.finalizer text example regex text rep text example replace text rev text example rle text example rm text example round.POSIXt text example row text example row.names text rowsum text example sQuote text example sample text example save text example scale text example scan text example search text example seek text seq.Date text example seq.POSIXt text example seq text example sequence text example serialize text example setTimeLimit text sets text example shQuote text example showConnections text example sign text example sink text example slice.index text example slotOp text socketSelect text example solve text example sort text example source text example split text example sprintf text example srcfile text example standardGeneric text stop text example stopifnot text example strptime text example strsplit text example strtrim text example structure text example strwrap text example subset text example substitute text example substr text example sum text summary text example svd text example sweep text example switch text example sys.parent text example sys.source text example system text example system.file text example system.time text example t text example table text example tabulate text example tapply text example taskCallback text example taskCallbackManager text example taskCallbackNames text example tempfile text example textconnections text example tilde text timezones text example toString text example trace text example traceback text example tracemem text example transform text example try text example typeof text example unique text example unlink text unlist text example unname text example userhooks text example utf8Conversion text example vector text example warning text example warnings text example weekday.POSIXt text example which text example which.min text example with text example withVisible text example write text example writeLines text xtfrm text zMachine text example zMethods text zScript text zpackages text example zutils text Signals text >>> Building/Updating help pages for package 'tools' Formats: text example QC text Rd2HTML text example Rdiff text Rdindex text Rdutils text example buildVignettes text charsets text example checkFF text example checkMD5sums text checkTnF text checkVignettes text codoc text delimMatch text example dependsOnPkgs text example encoded text example fileutils text example getDepList text example installFoundDepends text example makeLazyLoading text example md5sum text example package.dependencies text parse_Rd text example read.00Index text readNEWS text example showNonASCII text example testInstalledPackage text texi2dvi text tools-defunct text tools-deprecated text tools-package text undoc text example vignetteDepends text example writePACKAGES text example xgettext text example >>> Building/Updating help pages for package 'utils' Formats: text example INSTALL text PkgUtils text REMOVE text RShowDoc text example RSiteSearch text example Rprof text example Rprofmem text example Rscript text example Rtangle text RweaveLatex text SHLIB text example Sweave text example SweaveSyntConv text example SweaveUtils text URLencode text example View text alarm text example apropos text example browseEnv text example browseURL text example browseVignettes text example bug.report text capture.output text example chooseCRANmirror text citEntry text example citation text example close.socket text combn text example compareVersion text example count.fields text example data text example dataentry text example debugger text example demo text example download.file text edit text example edit.data.frame text example example text example file.edit text example filetest text example fix text example flush.console text format text example getAnywhere text example getFromNamespace text example getS3method text example glob2rx text example head text example help text example help.request text help.search text example help.start text example index.search text installed.packages text example localeToCharset text example ls_str text example make.socket text example menu text example methods text example mirrorAdmin text modifyList text example normalizePath text example object.size text example package.skeleton text example packageDescription text example packageStatus text example page text example person text example prompt text example promptData text example promptPackage text example rcompgen text read.DIF text example read.fortran text example read.fwf text example read.socket text example read.table text recover text example relist text example remove.packages text roman text example rtags text example savehistory text example select.list text example sessionInfo text example setRepositories text stack text example str text example summaryRprof text example toLatex text txtProgressBar text example type.convert text unzip text update.packages text example url.show text example utils-defunct text utils-deprecated text utils-package text vignette text example write.table text example zip.file.extract text BATCH text COMPILE text LINK text RHOME text make.packages.html text example memory.size text nsl text example >>> Building/Updating help pages for package 'grDevices' Formats: text example Devices text example Hershey text example Japanese text example Type1Font text example as.graphicsAnnot text boxplot.stats text example check.options text example chull text example cm text example col2rgb text example colorRamp text example colors text example contourLines text example convertColor text example densCols text example dev text example dev.interactive text example dev.size text example dev2 text example dev2bitmap text devAskNewPage text embedFonts text extendrange text example getGraphicsEvent text example grDevices-defunct text grDevices-package text gray text example gray.colors text example hcl text example hsv text example make.rgb text example n2mfrow text example nclass text example palette text example palettes text example pdf text example pdf.options text example pictex text example plotmath text example postscript text example postscriptFonts text example ps.options text example recordGraphics text example recordplot text rgb text example rgb2hsv text example trans3d text example xfig text xy.coords text example xyTable text example xyz.coords text example cairo text png text example quartz text example quartzFonts text example savePlot text x11 text example x11Fonts text example >>> Building/Updating help pages for package 'graphics' Formats: text example abline text example arrows text example assocplot text example axTicks text example axis.POSIXct text example axis text example barplot text example box text example boxplot text example boxplot.matrix text example bxp text example cdplot text example clip text example contour text example convertXY text example coplot text example curve text example dotchart text example filled.contour text example fourfoldplot text example frame text graphics-defunct text graphics-package text grid text example hist.POSIXt text example hist text example identify text example image text example layout text example legend text example lines text example locator text matplot text example mosaicplot text example mtext text example pairs text example panel.smooth text example par text example persp text example pie text example plot text example plot.dataframe text example plot.design text example plot.table text example plot.window text example plot.xy text example plotdefault text example plotfactor text example plotformula text example plothistogram text example points text example polygon text example rect text example rug text example screen text example segments text example smoothscatter text example spineplot text example stars text example stem text example stripchart text example strwidth text example sunflowerplot text example symbols text example text text example title text example units text example xspline text example zAxis text >>> Building/Updating help pages for package 'stats' Formats: text example AIC text example ARMAacf text example ARMAtoMA text example Beta text example Binomial text example Cauchy text example Chisquare text example Exponential text example Fdist text example GammaDist text example Geometric text example HoltWinters text example Hypergeometric text example IQR text example KalmanLike text Logistic text example Lognormal text example Multinom text example NLSstAsymptotic text example NLSstClosestX text example NLSstLfAsymptote text example NLSstRtAsymptote text example NegBinomial text example Normal text example Poisson text example SSD text example SSasymp text example SSasympOff text example SSasympOrig text example SSbiexp text example SSfol text example SSfpl text example SSgompertz text example SSlogis text example SSmicmen text example SSweibull text example SignRank text example StructTS text example TDist text example Tukey text example TukeyHSD text example Uniform text example Weibull text example Wilcoxon text example acf text example acf2AR text example add1 text example addmargins text example aggregate text example alias text example anova text anova.glm text example anova.lm text example anova.mlm text example ansari.test text example aov text example approxfun text example ar text example ar.ols text example arima text example arima.sim text example arima0 text example as.hclust text example asOneSidedFormula text example ave text example bandwidth text example bartlett.test text example binom.test text example biplot text biplot.princomp text example birthday text example box.test text example cancor text example case.names text example checkMFClasses text chisq.test text example clearNames text example cmdscale text example coef text example complete.cases text example confint text example constrOptim text example contrast text example contrasts text example convolve text example cophenetic text example cor text example cor.test text example cov.wt text example cpgram text example cutree text example decompose text example delete.response text example dendrapply text example dendrogram text example density text example deriv text example deviance text df.residual text diffinv text example dist text example dummy.coef text example ecdf text example eff.aovlist text example effects text example embed text example expand.model.frame text example extractAIC text example factanal text example factor.scope text example family text example fft text example filter text example fisher.test text example fitted.values text fivenum text example fligner.test text example formula text example formula.nls text example friedman.test text example ftable text example ftable.formula text example getInitial text example glm text example glm.control text example glm.summaries text hclust text example heatmap text example identify.hclust text example influence.measures text example integrate text example interaction.plot text example is.empty text example isoreg text example kernapply text example kernel text example kmeans text example kruskal.test text example ks.test text example ksmooth text example lag text example lag.plot text example line text example lm text example lm.influence text example lm.summaries text example lmfit text example loadings text loess text example loess.control text logLik text example loglin text example lowess text example ls.diag text example ls.print text lsfit text example mad text example mahalanobis text example make.link text example makepredictcall text example manova text mantelhaen.test text example mauchly.test text example mcnemar.test text example median text example medpolish text example model.extract text example model.frame text example model.matrix text example model.tables text example monthplot text example mood.test text example na.action text example na.contiguous text example na.fail text example nafns text naprint text nextn text example nlm text example nlminb text example nls text example nls.control text example numericDeriv text example offset text oneway.test text example optim text example optimize text example order.dendrogram text example p.adjust text example pairwise.prop.test text example pairwise.t.test text example pairwise.table text pairwise.wilcox.test text example plot.HoltWinters text plot.acf text example plot.density text plot.isoreg text example plot.lm text example plot.ppr text example plot.profile.nls text example plot.spec text plot.stepfun text example plot.ts text example poisson.test text example poly text example power text example power.anova.test text example power.prop.test text example power.t.test text example pp.test text example ppoints text example ppr text example prcomp text example predict.HoltWinters text example predict text example predict.arima text example predict.glm text example predict.lm text example predict.loess text example predict.nls text example predict.smooth.spline text example preplot text princomp text example print.power.htest text print.ts text example printCoefmat text example profile text profile.nls text example proj text example prop.test text example prop.trend.test text example qqnorm text example quade.test text example quantile text example r2dtable text example read.ftable text example rect.hclust text example relevel text example reorder.dendrogram text example reorder.factor text example replications text example reshape text example residuals text runmed text example scatter.smooth text example screeplot text example sd text example se.contrast text example selfStart text example setNames text example shapiro.test text example simulate text example smooth text example smooth.spline text example smoothEnds text example sortedXyData text example spec.ar text example spec.pgram text example spec.taper text spectrum text example splinefun text example start text stat.anova text example stats-defunct text stats-deprecated text stats-package text step text example stepfun text example stl text example stlmethods text summary.aov text example summary.glm text example summary.lm text example summary.manova text example summary.nls text summary.princomp text example supsmu text example symnum text example t.test text example termplot text example terms text terms.formula text terms.object text example time text example toeplitz text example ts-defunct text ts-methods text ts text example ts.plot text example ts.union text example tsSmooth text tsdiag text example tsp text uniroot text example update text example update.formula text example var.test text example varimax text example vcov text weighted.mean text example weighted.residuals text example wilcox.test text example window text example xtabs text example zC text example >>> Building/Updating help pages for package 'datasets' Formats: text example AirPassengers text example BJsales text BOD text example ChickWeight text example DNase text example EuStockMarkets text Formaldehyde text example HairEyeColor text example Harman23.cor text example Harman74.cor text example Indometh text example InsectSprays text example JohnsonJohnson text example LakeHuron text LifeCycleSavings text example Loblolly text example Nile text example Orange text example OrchardSprays text example PlantGrowth text example Puromycin text example Theoph text example Titanic text example ToothGrowth text example UCBAdmissions text example UKDriverDeaths text example UKLungDeaths text example UKgas text example USAccDeaths text USArrests text example USJudgeRatings text example USPersonalExpenditure text example VADeaths text example WWWusage text example WorldPhones text example ability.cov text example airmiles text example airquality text example anscombe text example attenu text example attitude text example austres text beavers text example cars text example chickwts text example co2 text example crimtab text example datasets-package text discoveries text example esoph text example euro text example eurodist text faithful text example freeny text example infert text example iris text example islands text example lh text longley text example lynx text morley text example mtcars text example nhtemp text example nottem text example occupationalStatus text example precip text example presidents text example pressure text example quakes text example randu text example rivers text rock text sleep text example stackloss text example state text sunspot.month text example sunspot.year text sunspots text example swiss text example treering text trees text example uspop text example volcano text example warpbreaks text example women text example zCO2 text example >>> Building/Updating help pages for package 'methods' Formats: text example BasicClasses text Classes text Documentation text EmptyMethodsList-class text EnvironmentClass text GenericFunctions text example LanguageClasses text LinearMethodsList-class text MethodDefinition-class text MethodSupport text MethodWithNext-class text Methods text example MethodsList-class text MethodsList text NextMethod text example ObjectsWithPackage-class text RClassUtils text example RMethodUtils text example S3Part text example S4groupGeneric text example SClassExtension-class text Session text StructureClasses text example TraceClasses text as text example callGeneric text example canCoerce text example cbind2 text example classRepresentation-class text classesToAM text example dotsMethods text example findClass text findMethods text example fixPrevious text genericFunction-class text getClass text example getMethod text example getPackageName text example hasArg text example implicitGeneric text example initialize-methods text is text example isSealedMethod text example languageEl text method.skeleton text example methodUtilities text methods-defunct text methods-package text new text example nonStructure-class text example promptClass text example promptMethods text representation text example selectSuperClasses text example setClass text example setClassUnion text example setGeneric text example setMethod text example setOldClass text example setSClass text show text example showMethods text example signature-class text slot text example substituteDirect text testInheritedMethods text example validObject text example zBasicFunsList text >>> Building/Updating help pages for package 'grid' Formats: text example Grid text example absolute.size text arrow text example convertNative text example current.viewport text example dataViewport text drawDetails text editDetails text gEdit text example gPath text example getNames text example gpar text example grid-internal text grid-package text grid.add text grid.arrows text example grid.circle text grid.clip text example grid.collection text grid.convert text example grid.copy text grid.curve text example grid.display.list text grid.draw text example grid.edit text example grid.frame text example grid.get text example grid.grab text example grid.grill text grid.grob text grid.layout text example grid.lines text example grid.locator text example grid.ls text example grid.move.to text example grid.newpage text grid.null text example grid.pack text grid.place text grid.plot.and.legend text example grid.points text grid.polygon text example grid.pretty text grid.prompt text grid.record text example grid.rect text grid.refresh text grid.remove text grid.roundrect text example grid.segments text grid.set text grid.show.layout text example grid.show.viewport text example grid.text text example grid.xaxis text grid.xspline text example grid.yaxis text grobName text grobWidth text grobX text plotViewport text pop.viewport text push.viewport text stringWidth text unit text example unit.c text unit.length text example unit.pmin text example unit.rep text example valid.just text validDetails text viewport text example viewports text example vpPath text example widthDetails text xDetails text >>> Building/Updating help pages for package 'splines' Formats: text example asVector text example backSpline text example bs text example interpSpline text example ns text example periodicSpline text example polySpline text example predict.bSpline text example predict.bs text example splineDesign text example splineKnots text example splineOrder text example splines-package text xyVector text example >>> Building/Updating help pages for package 'stats4' Formats: text example AIC-methods text BIC text example coef-methods text confint-methods text logLik-methods text mle-class text mle text example plot-methods text profile-methods text profile.mle-class text show-methods text stats4-package text summary-methods text summary.mle-class text update-methods text example vcov-methods text >>> Building/Updating help pages for package 'tcltk' Formats: text example TclInterface text example TkCommands text example TkWidgetcmds text example TkWidgets text example tclServiceMode text example tcltk-defunct text tcltk-package text tkProgressBar text example tkStartGUI text tk_choose.dir text example tk_choose.files text example tk_messageBox text tk_select.list text tkpager text make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' touch make-arch-stamp /usr/bin/fakeroot debian/rules binary *** make-indep *** /usr/bin/make docs make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/m4' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/m4' make[2]: Entering directory `/build/buildd/r-base-2.9.2/tools' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/tools' make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/html' make[4]: Entering directory `/build/buildd/r-base-2.9.2/doc/html/search' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/doc/html/search' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/html' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' make[3]: Nothing to be done for `R'. make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc' make[2]: Entering directory `/build/buildd/r-base-2.9.2/etc' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/etc' make[2]: Entering directory `/build/buildd/r-base-2.9.2/share' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/share' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/scripts' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/scripts' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/scripts' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/scripts' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/include' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/include/R_ext' make[4]: Nothing to be done for `R'. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/include/R_ext' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/include' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/extra' make[3]: Nothing to be done for `R'. make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/appl' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/appl' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/appl' make[4]: `libappl.a' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[4]: `libnmath.a' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: `libunix.a' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -DR_HOME='"/build/buildd/r-base-2.9.2"' -o Rscript \ ./Rscript.c make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/main' /build/buildd/r-base-2.9.2/lib/libR.so is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/main' /build/buildd/r-base-2.9.2/bin/exec/R is unchanged make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/modules' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[5]: `internet.so' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[5]: `lapack.so' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[5]: `vfonts.so' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[5]: `R_X11.so' is up to date. make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' 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Leaving directory `/build/buildd/r-base-2.9.2/src/library/stats4' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: `Makedeps' is up to date. make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[6]: Entering directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk/src' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library/tcltk' make[4]: Entering directory 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connections html latex contributors html latex converters html latex copyright html latex crossprod html latex cumsum html latex cut.POSIXt html latex cut html latex data.class html latex data.frame html latex data.matrix html latex dataframeHelpers html latex date html latex dcf html latex debug html latex delayedAssign html latex deparse html latex deparseOpts html latex det html latex detach html latex dev html latex diag html latex diff html latex difftime html latex dim html latex dimnames html latex do.call html latex double html latex dput html latex drop html latex dump html latex duplicated html latex dynload html latex eapply html latex eigen html latex encodeString html latex environment html latex eval html latex exists html latex expand.grid html latex expression html latex factor html latex file.access html latex file.choose html latex file.info html latex file.path html latex file.show html latex files html latex files2 html latex findInt html latex force html latex formals html latex format.Date html latex format html latex format.info html latex format.pval html latex formatDL html latex formatc html latex function html latex funprog html latex gc html latex gc.time html latex gctorture html latex get html latex getCallingDLL html latex getDLLRegisteredRoutines html latex getLoadedDLLs html latex getNativeSymbolInfo html latex gettext html latex getwd html latex gl html latex grep html latex groupGeneric html latex gzcon html latex hexmode html latex iconv html latex icuSetCollate html latex identical html latex identity html latex ifelse html latex integer html latex interaction html latex interactive html latex invisible html latex is.finite html latex is.function html latex is.language html latex is.object html latex is.recursive html latex is.single html latex is.unsorted html latex isR html latex isS4 html latex isSymmetric html latex jitter html latex kappa html latex kronecker html latex l10n_info html latex labels html latex lapply html latex lazyload html latex length html latex levels html latex libPaths html latex library html latex library.dynam html latex license html latex list html latex list.files html latex load html latex locales html latex logical html latex lower.tri html latex ls html latex make.names html latex make.unique html latex mapply html latex margin.table html latex mat.or.vec html latex match html latex match.arg html latex match.call html latex match.fun html latex matmult html latex matrix html latex maxCol html latex mean html latex memory.profile html latex merge html latex message html latex missing html latex mode html latex name html latex names html latex nargs html latex nchar html latex nlevels html latex noquote html latex notyet html latex nrow html latex ns-alt html latex ns-dblcolon html latex ns-hooks html latex ns-internal html latex ns-load html latex ns-lowlev html latex ns-reflect html latex ns-topenv html latex numeric html latex numeric_version html latex octmode html latex on.exit html latex options html latex order html latex outer html latex parse html latex paste html latex path.expand html latex pmatch html latex polyroot html latex pos.to.env html latex pretty html latex print html latex print.dataframe html latex print.default html latex prmatrix html latex proc.time html latex prod html latex prop.table html latex pushBack html latex qr html latex qraux html latex quit html latex range html latex rank html latex rapply html latex raw html latex rawConnection html latex rawConversion html latex readBin html latex readChar html latex readLines html latex readRDS html latex readline html latex real html latex reg.finalizer html latex regex html latex rep html latex replace html latex rev html latex rle html latex rm html latex round.POSIXt html latex row html latex row.names html latex rowsum html latex sQuote html latex sample html latex save html latex scale html latex scan html latex search html latex seek html latex seq.Date html latex seq.POSIXt html latex seq html latex sequence html latex serialize html latex setTimeLimit html latex sets html latex shQuote html latex showConnections html latex sign html latex sink html latex slice.index html latex slotOp html latex socketSelect html latex solve html latex sort html latex source html latex split html latex sprintf html latex srcfile html latex standardGeneric html latex stop html latex stopifnot html latex strptime html latex strsplit html latex strtrim html latex structure html latex strwrap html latex subset html latex substitute html latex substr html latex sum html latex summary html latex svd html latex sweep html latex switch html latex sys.parent html latex sys.source html latex system html latex system.file html latex system.time html latex t html latex table html latex tabulate html latex tapply html latex taskCallback html latex taskCallbackManager html latex taskCallbackNames html latex tempfile html latex textconnections html latex tilde html latex timezones html latex toString html latex trace html latex traceback html latex tracemem html latex transform html latex try html latex typeof html latex unique html latex unlink html latex unlist html latex unname html latex userhooks html latex utf8Conversion html latex vector html latex warning html latex warnings html latex weekday.POSIXt html latex which html latex which.min html latex with html latex withVisible html latex write html latex writeLines html latex xtfrm html latex zMachine html latex zMethods html latex zScript html latex zpackages html latex zutils html latex Signals html latex >>> Building/Updating help pages for package 'tools' Formats: text html latex example QC html latex Rd2HTML html latex Rdiff html latex Rdindex html latex Rdutils html latex buildVignettes html latex charsets html latex checkFF html latex checkMD5sums html latex checkTnF html latex checkVignettes html latex codoc html latex delimMatch html latex dependsOnPkgs html latex encoded html latex fileutils html latex getDepList html latex installFoundDepends html latex makeLazyLoading html latex md5sum html latex package.dependencies html latex parse_Rd html latex read.00Index html latex readNEWS html latex showNonASCII html latex testInstalledPackage html latex texi2dvi html latex tools-defunct html latex tools-deprecated html latex tools-package html latex undoc html latex vignetteDepends html latex writePACKAGES html latex xgettext html latex >>> Building/Updating help pages for package 'utils' Formats: text html latex example INSTALL html latex PkgUtils html latex REMOVE html latex RShowDoc html latex RSiteSearch html latex Rprof html latex Rprofmem html latex Rscript html latex Rtangle html latex RweaveLatex html latex SHLIB html latex Sweave html latex SweaveSyntConv html latex SweaveUtils html latex URLencode html latex View html latex alarm html latex apropos html latex browseEnv html latex browseURL html latex browseVignettes html latex bug.report html latex capture.output html latex chooseCRANmirror html latex citEntry html latex citation html latex close.socket html latex combn html latex compareVersion html latex count.fields html latex data html latex dataentry html latex debugger html latex demo html latex download.file html latex edit html latex edit.data.frame html latex example html latex file.edit html latex filetest html latex fix html latex flush.console html latex format html latex getAnywhere html latex getFromNamespace html latex getS3method html latex glob2rx html latex head html latex help html latex help.request html latex help.search html latex help.start html latex index.search html latex installed.packages html latex localeToCharset html latex ls_str html latex make.socket html latex menu html latex methods html latex mirrorAdmin html latex modifyList html latex normalizePath html latex object.size html latex package.skeleton html latex packageDescription html latex packageStatus html latex page html latex person html latex prompt html latex promptData html latex promptPackage html latex rcompgen html latex read.DIF html latex read.fortran html latex read.fwf html latex read.socket html latex read.table html latex recover html latex relist html latex remove.packages html latex roman html latex rtags html latex savehistory html latex select.list html latex sessionInfo html latex setRepositories html latex stack html latex str html latex summaryRprof html latex toLatex html latex txtProgressBar html latex type.convert html latex unzip html latex update.packages html latex url.show html latex utils-defunct html latex utils-deprecated html latex utils-package html latex vignette html latex write.table html latex zip.file.extract html latex BATCH html latex COMPILE html latex LINK html latex RHOME html latex make.packages.html html latex memory.size html latex nsl html latex >>> Building/Updating help pages for package 'grDevices' Formats: text html latex example Devices html latex Hershey html latex Japanese html latex Type1Font html latex as.graphicsAnnot html latex boxplot.stats html latex check.options html latex chull html latex cm html latex col2rgb html latex colorRamp html latex colors html latex contourLines html latex convertColor html latex densCols html latex dev html latex dev.interactive html latex dev.size html latex dev2 html latex dev2bitmap html latex devAskNewPage html latex embedFonts html latex extendrange html latex getGraphicsEvent html latex grDevices-defunct html latex grDevices-package html latex gray html latex gray.colors html latex hcl html latex hsv html latex make.rgb html latex n2mfrow html latex nclass html latex palette html latex palettes html latex pdf html latex pdf.options html latex pictex html latex plotmath html latex postscript html latex postscriptFonts html latex ps.options html latex recordGraphics html latex recordplot html latex rgb html latex rgb2hsv html latex trans3d html latex xfig html latex xy.coords html latex xyTable html latex xyz.coords html latex cairo html latex png html latex quartz html latex quartzFonts html latex savePlot html latex x11 html latex x11Fonts html latex >>> Building/Updating help pages for package 'graphics' Formats: text html latex example abline html latex arrows html latex assocplot html latex axTicks html latex axis.POSIXct html latex axis html latex barplot html latex box html latex boxplot html latex boxplot.matrix html latex bxp html latex cdplot html latex clip html latex contour html latex convertXY html latex coplot html latex curve html latex dotchart html latex filled.contour html latex fourfoldplot html latex frame html latex graphics-defunct html latex graphics-package html latex grid html latex hist.POSIXt html latex hist html latex identify html latex image html latex layout html latex legend html latex lines html latex locator html latex matplot html latex mosaicplot html latex mtext html latex pairs html latex panel.smooth html latex par html latex persp html latex pie html latex plot html latex plot.dataframe html latex plot.design html latex plot.table html latex plot.window html latex plot.xy html latex plotdefault html latex plotfactor html latex plotformula html latex plothistogram html latex points html latex polygon html latex rect html latex rug html latex screen html latex segments html latex smoothscatter html latex spineplot html latex stars html latex stem html latex stripchart html latex strwidth html latex sunflowerplot html latex symbols html latex text html latex title html latex units html latex xspline html latex zAxis html latex >>> Building/Updating help pages for package 'stats' Formats: text html latex example AIC html latex ARMAacf html latex ARMAtoMA html latex Beta html latex Binomial html latex Cauchy html latex Chisquare html latex Exponential html latex Fdist html latex GammaDist html latex Geometric html latex HoltWinters html latex Hypergeometric html latex IQR html latex KalmanLike html latex Logistic html latex Lognormal html latex Multinom html latex NLSstAsymptotic html latex NLSstClosestX html latex NLSstLfAsymptote html latex NLSstRtAsymptote html latex NegBinomial html latex Normal html latex Poisson html latex SSD html latex SSasymp html latex SSasympOff html latex SSasympOrig html latex SSbiexp html latex SSfol html latex SSfpl html latex SSgompertz html latex SSlogis html latex SSmicmen html latex SSweibull html latex SignRank html latex StructTS html latex TDist html latex Tukey html latex TukeyHSD html latex Uniform html latex Weibull html latex Wilcoxon html latex acf html latex acf2AR html latex add1 html latex addmargins html latex aggregate html latex alias html latex anova html latex anova.glm html latex anova.lm html latex anova.mlm html latex ansari.test html latex aov html latex approxfun html latex ar html latex ar.ols html latex arima html latex arima.sim html latex arima0 html latex as.hclust html latex asOneSidedFormula html latex ave html latex bandwidth html latex bartlett.test html latex binom.test html latex biplot html latex biplot.princomp html latex birthday html latex box.test html latex cancor html latex case.names html latex checkMFClasses html latex chisq.test html latex clearNames html latex cmdscale html latex coef html latex complete.cases html latex confint html latex constrOptim html latex contrast html latex contrasts html latex convolve html latex cophenetic html latex cor html latex cor.test html latex cov.wt html latex cpgram html latex cutree html latex decompose html latex delete.response html latex dendrapply html latex dendrogram html latex density html latex deriv html latex deviance html latex df.residual html latex diffinv html latex dist html latex dummy.coef html latex ecdf html latex eff.aovlist html latex effects html latex embed html latex expand.model.frame html latex extractAIC html latex factanal html latex factor.scope html latex family html latex fft html latex filter html latex fisher.test html latex fitted.values html latex fivenum html latex fligner.test html latex formula html latex formula.nls html latex friedman.test html latex ftable html latex ftable.formula html latex getInitial html latex glm html latex glm.control html latex glm.summaries html latex hclust html latex heatmap html latex identify.hclust html latex influence.measures html latex integrate html latex interaction.plot html latex is.empty html latex isoreg html latex kernapply html latex kernel html latex kmeans html latex kruskal.test html latex ks.test html latex ksmooth html latex lag html latex lag.plot html latex line html latex lm html latex lm.influence html latex lm.summaries html latex lmfit html latex loadings html latex loess html latex loess.control html latex logLik html latex loglin html latex lowess html latex ls.diag html latex ls.print html latex lsfit html latex mad html latex mahalanobis html latex make.link html latex makepredictcall html latex manova html latex mantelhaen.test html latex mauchly.test html latex mcnemar.test html latex median html latex medpolish html latex model.extract html latex model.frame html latex model.matrix html latex model.tables html latex monthplot html latex mood.test html latex na.action html latex na.contiguous html latex na.fail html latex nafns html latex naprint html latex nextn html latex nlm html latex nlminb html latex nls html latex nls.control html latex numericDeriv html latex offset html latex oneway.test html latex optim html latex optimize html latex order.dendrogram html latex p.adjust html latex pairwise.prop.test html latex pairwise.t.test html latex pairwise.table html latex pairwise.wilcox.test html latex plot.HoltWinters html latex plot.acf html latex plot.density html latex plot.isoreg html latex plot.lm html latex plot.ppr html latex plot.profile.nls html latex plot.spec html latex plot.stepfun html latex plot.ts html latex poisson.test html latex poly html latex power html latex power.anova.test html latex power.prop.test html latex power.t.test html latex pp.test html latex ppoints html latex ppr html latex prcomp html latex predict.HoltWinters html latex predict html latex predict.arima html latex predict.glm html latex predict.lm html latex predict.loess html latex predict.nls html latex predict.smooth.spline html latex preplot html latex princomp html latex print.power.htest html latex print.ts html latex printCoefmat html latex profile html latex profile.nls html latex proj html latex prop.test html latex prop.trend.test html latex qqnorm html latex quade.test html latex quantile html latex r2dtable html latex read.ftable html latex rect.hclust html latex relevel html latex reorder.dendrogram html latex reorder.factor html latex replications html latex reshape html latex residuals html latex runmed html latex scatter.smooth html latex screeplot html latex sd html latex se.contrast html latex selfStart html latex setNames html latex shapiro.test html latex simulate html latex smooth html latex smooth.spline html latex smoothEnds html latex sortedXyData html latex spec.ar html latex spec.pgram html latex spec.taper html latex spectrum html latex splinefun html latex start html latex stat.anova html latex stats-defunct html latex stats-deprecated html latex stats-package html latex step html latex stepfun html latex stl html latex stlmethods html latex summary.aov html latex summary.glm html latex summary.lm html latex summary.manova html latex summary.nls html latex summary.princomp html latex supsmu html latex symnum html latex t.test html latex termplot html latex terms html latex terms.formula html latex terms.object html latex time html latex toeplitz html latex ts-defunct html latex ts-methods html latex ts html latex ts.plot html latex ts.union html latex tsSmooth html latex tsdiag html latex tsp html latex uniroot html latex update html latex update.formula html latex var.test html latex varimax html latex vcov html latex weighted.mean html latex weighted.residuals html latex wilcox.test html latex window html latex xtabs html latex zC html latex >>> Building/Updating help pages for package 'datasets' Formats: text html latex example AirPassengers html latex BJsales html latex BOD html latex ChickWeight html latex DNase html latex EuStockMarkets html latex Formaldehyde html latex HairEyeColor html latex Harman23.cor html latex Harman74.cor html latex Indometh html latex InsectSprays html latex JohnsonJohnson html latex LakeHuron html latex LifeCycleSavings html latex Loblolly html latex Nile html latex Orange html latex OrchardSprays html latex PlantGrowth html latex Puromycin html latex Theoph html latex Titanic html latex ToothGrowth html latex UCBAdmissions html latex UKDriverDeaths html latex UKLungDeaths html latex UKgas html latex USAccDeaths html latex USArrests html latex USJudgeRatings html latex USPersonalExpenditure html latex VADeaths html latex WWWusage html latex WorldPhones html latex ability.cov html latex airmiles html latex airquality html latex anscombe html latex attenu html latex attitude html latex austres html latex beavers html latex cars html latex chickwts html latex co2 html latex crimtab html latex datasets-package html latex discoveries html latex esoph html latex euro html latex eurodist html latex faithful html latex freeny html latex infert html latex iris html latex islands html latex lh html latex longley html latex lynx html latex morley html latex mtcars html latex nhtemp html latex nottem html latex occupationalStatus html latex precip html latex presidents html latex pressure html latex quakes html latex randu html latex rivers html latex rock html latex sleep html latex stackloss html latex state html latex sunspot.month html latex sunspot.year html latex sunspots html latex swiss html latex treering html latex trees html latex uspop html latex volcano html latex warpbreaks html latex women html latex zCO2 html latex >>> Building/Updating help pages for package 'methods' Formats: text html latex example BasicClasses html latex Classes html latex Documentation html latex EmptyMethodsList-class html latex EnvironmentClass html latex GenericFunctions html latex LanguageClasses html latex LinearMethodsList-class html latex MethodDefinition-class html latex MethodSupport html latex MethodWithNext-class html latex Methods html latex MethodsList-class html latex MethodsList html latex NextMethod html latex ObjectsWithPackage-class html latex RClassUtils html latex RMethodUtils html latex S3Part html latex S4groupGeneric html latex SClassExtension-class html latex Session html latex StructureClasses html latex TraceClasses html latex as html latex callGeneric html latex canCoerce html latex cbind2 html latex classRepresentation-class html latex classesToAM html latex dotsMethods html latex findClass html latex findMethods html latex fixPrevious html latex genericFunction-class html latex getClass html latex getMethod html latex getPackageName html latex hasArg html latex implicitGeneric html latex initialize-methods html latex is html latex isSealedMethod html latex languageEl html latex method.skeleton html latex methodUtilities html latex methods-defunct html latex methods-package html latex new html latex nonStructure-class html latex promptClass html latex promptMethods html latex representation html latex selectSuperClasses html latex setClass html latex setClassUnion html latex setGeneric html latex setMethod html latex setOldClass html latex setSClass html latex show html latex showMethods html latex signature-class html latex slot html latex substituteDirect html latex testInheritedMethods html latex validObject html latex zBasicFunsList html latex >>> Building/Updating help pages for package 'grid' Formats: text html latex example Grid html latex absolute.size html latex arrow html latex convertNative html latex current.viewport html latex dataViewport html latex drawDetails html latex editDetails html latex gEdit html latex gPath html latex getNames html latex gpar html latex grid-internal html latex grid-package html latex grid.add html latex grid.arrows html latex grid.circle html latex grid.clip html latex grid.collection html latex grid.convert html latex grid.copy html latex grid.curve html latex grid.display.list html latex grid.draw html latex grid.edit html latex grid.frame html latex grid.get html latex grid.grab html latex grid.grill html latex grid.grob html latex grid.layout html latex grid.lines html latex grid.locator html latex grid.ls html latex grid.move.to html latex grid.newpage html latex grid.null html latex grid.pack html latex grid.place html latex grid.plot.and.legend html latex grid.points html latex grid.polygon html latex grid.pretty html latex grid.prompt html latex grid.record html latex grid.rect html latex grid.refresh html latex grid.remove html latex grid.roundrect html latex grid.segments html latex grid.set html latex grid.show.layout html latex grid.show.viewport html latex grid.text html latex grid.xaxis html latex grid.xspline html latex grid.yaxis html latex grobName html latex grobWidth html latex grobX html latex plotViewport html latex pop.viewport html latex push.viewport html latex stringWidth html latex unit html latex unit.c html latex unit.length html latex unit.pmin html latex unit.rep html latex valid.just html latex validDetails html latex viewport html latex viewports html latex vpPath html latex widthDetails html latex xDetails html latex >>> Building/Updating help pages for package 'splines' Formats: text html latex example asVector html latex backSpline html latex bs html latex interpSpline html latex ns html latex periodicSpline html latex polySpline html latex predict.bSpline html latex predict.bs html latex splineDesign html latex splineKnots html latex splineOrder html latex splines-package html latex xyVector html latex >>> Building/Updating help pages for package 'stats4' Formats: text html latex example AIC-methods html latex BIC html latex coef-methods html latex confint-methods html latex logLik-methods html latex mle-class html latex mle html latex plot-methods html latex profile-methods html latex profile.mle-class html latex show-methods html latex stats4-package html latex summary-methods html latex summary.mle-class html latex update-methods html latex vcov-methods html latex >>> Building/Updating help pages for package 'tcltk' Formats: text html latex example TclInterface html latex TkCommands html latex TkWidgetcmds html latex TkWidgets html latex tclServiceMode html latex tcltk-defunct html latex tcltk-package html latex tkProgressBar html latex tkStartGUI html latex tk_choose.dir html latex tk_choose.files html latex tk_messageBox html latex tk_select.list html latex tkpager html latex make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' /usr/bin/make html make[1]: Entering directory 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directory `/build/buildd/r-base-2.9.2/src/library' /bin/bash: line 1: ../../bin/R --vanilla --slave: No such file or directory make[2]: *** [html] Error 127 make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[1]: [html] Error 2 (ignored) make[1]: Leaving directory `/build/buildd/r-base-2.9.2' /usr/bin/make help make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'base' Formats: text >>> Building/Updating help pages for package 'tools' Formats: text >>> Building/Updating help pages for package 'utils' Formats: text >>> Building/Updating help pages for package 'grDevices' Formats: text >>> Building/Updating help pages for package 'graphics' Formats: text >>> Building/Updating help pages for package 'stats' Formats: text >>> Building/Updating help pages for package 'datasets' Formats: text >>> Building/Updating help pages for package 'methods' Formats: text >>> Building/Updating help pages for package 'grid' Formats: text >>> Building/Updating help pages for package 'splines' Formats: text >>> Building/Updating help pages for package 'stats4' Formats: text >>> Building/Updating help pages for package 'tcltk' Formats: text make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' /usr/bin/make info make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-FAQ.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-admin.texi R-admin.texi:693: warning: unlikely character ( in @var. R-admin.texi:693: warning: unlikely character ) in @var. /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-data.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-exts.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-intro.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-ints.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-lang.texi make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' /usr/bin/make pdf make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' creating doc/manual/version.tex collecting LaTeX docs for package 'base' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'base' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'datasets' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'datasets' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'grDevices' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'grDevices' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'graphics' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'graphics' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'grid' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'grid' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'methods' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'methods' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'stats' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'stats' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'tools' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'tools' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' collecting LaTeX docs for package 'utils' ... make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/library' make[5]: Entering directory `/build/buildd/r-base-2.9.2/src/library' >>> Building/Updating help pages for package 'utils' Formats: latex make[5]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' PDF/LaTeX documentation: reference index ... 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(/usr/share/texmf-texlive/tex/latex/psnfss/t1pcr.fd) [1] Underfull \hbox (badness 1248) in paragraph at lines 71--78 \T1/pcr/m/n/10 base^neg.ulp.digits \T1/ptm/m/n/10 if \T1/pcr/m/n/10 base \T1/pt m/m/n/10 is 2 or \T1/pcr/m/n/10 round \T1/ptm/m/n/10 is 0; oth-er-wise, it Underfull \hbox (badness 1117) in paragraph at lines 81--86 []\T1/ptm/m/n/10 the largest fi-nite floating-point num-ber. Typ-i-cally, it is equal to \T1/pcr/m/n/10 (1 - [2] [3] Underfull \hbox (badness 10000) in paragraph at lines 206--209 [][][]\T1/pcr/m/n/10 R.version[][][] \T1/ptm/m/n/10 and [][]\T1/pcr/m/n/10 Sys. info[][][] \T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-lar, [4] Underfull \hbox (badness 2359) in paragraph at lines 247--250 []\T1/ptm/m/n/10 logical: should \T1/pcr/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [5] [6] [7] [8] [9] (/usr/share/texmf-texlive/tex/latex/psnfss/ts1pcr.fd) [10] Overfull \hbox (0.78088pt too wide) in paragraph at lines 582--582 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F ALSE)[] [11] [12] [13] [14] Underfull \hbox (badness 1838) in paragraph at lines 808--811 []\T1/ptm/m/n/10 If the calls to \T1/pcr/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/pcr/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Underfull \hbox (badness 10000) in paragraph at lines 1355--1357 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [25] [26] [27] [28] [29] [30] [31] Underfull \hbox (badness 5878) in paragraph at lines 1798--1803 []\T1/ptm/m/n/10 The ex-trac-tion func-tion first looks for an ex-act match to \T1/pcr/m/n/10 which \T1/ptm/m/n/10 amongst the at- Underfull \hbox (badness 10000) in paragraph at lines 1798--1803 \T1/ptm/m/n/10 tributes of \T1/pcr/m/n/10 x\T1/ptm/m/n/10 , then (un-less \T1/p cr/m/n/10 exact = TRUE\T1/ptm/m/n/10 ) a unique par-tial match. (Set-ting [32] [33] [34] [35] [36] Underfull \hbox (badness 5147) in paragraph at lines 2052--2056 []\T1/ptm/m/n/10 The orig-i-nal help page for these func-tions is of-ten avail- able at \T1/pcr/m/n/10 help("oldName- [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 10000) in paragraph at lines 2495--2497 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 2521) in paragraph at lines 3369--3371 []\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 [60] [61] [62] [63] [64] Underfull \hbox (badness 1270) in paragraph at lines 3665--3673 []\T1/ptm/m/n/10 When a generic func-tion \T1/pcr/m/n/10 fun \T1/ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute \T1/pcr/m/n/10 c("first", [65] [66] [67] [68] [69] [70] [71] [72] Underfull \hbox (badness 2443) in paragraph at lines 4117--4123 []\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i n-tro-duc-tion see [][]$\T1/pcr/m/n/10 http : / / Overfull \hbox (4.38043pt too wide) in paragraph at lines 4141--4141 []\T1/pcr/m/n/9 z <- c(32:126, 160:255) # range of most 8-bit charsets, Latin- 1 in Unicode[] [73] [74] [75] [76] [77] Underfull \hbox (badness 1635) in paragraph at lines 4408--4411 []\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class \T1/pcr/m/n/1 0 interrupt \T1/ptm/m/n/10 that in-her-its di-rectly from class Underfull \hbox (badness 3009) in paragraph at lines 4412--4415 []\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. They can be es-tab-lished us-ing Underfull \hbox (badness 1102) in paragraph at lines 4429--4442 []\T1/ptm/m/n/10 New restarts for \T1/pcr/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in Underfull \hbox (badness 1308) in paragraph at lines 4443--4451 []\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i s \T1/pcr/m/n/10 interactive\T1/ptm/m/n/10 . This should [78] [79] [80] [81] Underfull \hbox (badness 10000) in paragraph at lines 4711--4721 []\T1/ptm/m/n/10 A note on \T1/pcr/m/n/10 file:// \T1/ptm/m/n/10 URLs. The most gen-eral form (from RFC1738) is [82] Underfull \hbox (badness 5817) in paragraph at lines 4782--4788 []\T1/ptm/m/n/10 Most block-ing op-er-a-tions on URLs and sock-ets are sub-ject to the time-out set by [83] Underfull \hbox (badness 10000) in paragraph at lines 4800--4807 \T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http : / / standards . freedesktop . org / Underfull \hbox (badness 10000) in paragraph at lines 4800--4807 \T1/pcr/m/n/10 clipboards-[]spec / clipboards-[]latest . txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as Underfull \hbox (badness 1735) in paragraph at lines 4800--4807 \T1/pcr/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as \ T1/pcr/m/n/10 "X11_secondary"\T1/ptm/m/n/10 . On most sys- Underfull \hbox (badness 3668) in paragraph at lines 4843--4850 []\T1/ptm/m/n/10 Functions mak-ing di-rect use of con-nec-tions are [][]\T1/pcr /m/n/10 readLines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 readBin[][][]\T1/ptm /m/n/10 , [][]\T1/pcr/m/n/10 readChar[][][]\T1/ptm/m/n/10 , [84] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4897--4897 []\T1/pcr/m/n/9 ## fifo example -- may fail, e.g. on Cygwin, even with OS supp ort for fifos[] Underfull \vbox (badness 3803) has occurred while \output is active [85] [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) in paragraph at lines 5242--5244 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 8132) in paragraph at lines 5580--5584 []\T1/ptm/m/n/10 logical: should char-ac-ter vec-tors be con-verted to fac-tors ? The Underfull \hbox (badness 4543) in paragraph at lines 5580--5584 \T1/ptm/m/n/10 `factory-fresh' de-fault is \T1/pcr/m/n/10 TRUE\T1/ptm/m/n/10 , but this can be changed by set-ting Underfull \hbox (badness 10000) in paragraph at lines 5597--5608 []\T1/pcr/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing Underfull \hbox (badness 2875) in paragraph at lines 5597--5608 [][]\T1/pcr/m/n/10 as.data.frame[][][](optional=TRUE)\T1/ptm/m/n/10 . As that i s a generic func-tion, meth-ods can be Overfull \hbox (4.63962pt too wide) in paragraph at lines 5629--5633 []\T1/pcr/m/n/10 default.stringsAsFactors \T1/ptm/m/n/10 is a util-ity that tak es [][]\T1/pcr/m/n/10 getOption[][][]("stringsAsFactors") [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 6224--6228 \T1/pcr/m/n/10 trace("plot", browser, exit=browser, signature = c("track", [108] [109] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6334--6334 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(1+2, "y", {cat(" HO ! "); pi+2})[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6350--6350 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] [110] [111] Underfull \hbox (badness 4254) in paragraph at lines 6499--6499 []\T1/ptm/m/n/10 If the ob-ject has at-tributes (other than a \T1/pcr/m/n/10 so urce \T1/ptm/m/n/10 at-tribute), use [112] [113] Underfull \hbox (badness 1603) in paragraph at lines 6593--6596 []\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t er-mi-nant if [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] Underfull \hbox (badness 2150) in paragraph at lines 7571--7574 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 5316) in paragraph at lines 7583--7591 \T1/ptm/m/n/10 and \T1/pcr/m/n/10 anyDuplicated\T1/ptm/m/n/10 , \T1/pcr/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al-ized'' short-cut for [131] Underfull \hbox (badness 10000) in paragraph at lines 7592--7594 []\T1/pcr/m/n/10 duplicated(x, fromLast=TRUE) \T1/ptm/m/n/10 is equiv-a-lent to but faster than [132] [133] [134] Underfull \hbox (badness 10000) in paragraph at lines 7783--7786 []\T1/ptm/m/n/10 Do not use \T1/pcr/m/n/10 dyn.unload \T1/ptm/m/n/10 on a DLL l oaded by [][]\T1/pcr/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 : use [135] [136] [137] [138] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [139] [140] [141] [142] [143] Underfull \hbox (badness 5288) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val ue of [144] Underfull \hbox (badness 1152) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 Options for \T1/pcr/m/n/10 latex \T1/ptm/m/n/10 pro-cess-ing o f \T1/pcr/m/n/10 Rd \T1/ptm/m/n/10 files. Used by \T1/pcr/m/n/10 R CMD Rd2dvi \ T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [145] [146] [147] [148] Underfull \hbox (badness 10000) in paragraph at lines 8644--8646 []\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing \T1/pcr/ m/n/10 where \T1/ptm/m/n/10 as [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] Underfull \hbox (badness 10000) in paragraph at lines 10058--10062 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [172] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10101--10101 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [173] Underfull \hbox (badness 10000) in paragraph at lines 10156--10159 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ex ists[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 list.files[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 unlink[][ ][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 basename[][][]\T1/ptm/m/n/10 , Overfull \hbox (0.78088pt too wide) in paragraph at lines 10175--10175 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE)[] Underfull \hbox (badness 3965) in paragraph at lines 10199--10203 []\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, [174] [175] [176] Overfull \vbox (4.54631pt too high) has occurred while \output is active [177] [178] [179] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10575--10575 [] \T1/pcr/m/n/10 decimal.mark = ".", zero.print = NULL, drop0trailing = FAL SE, ...)[] [180] Underfull \hbox (badness 1168) in paragraph at lines 10613--10617 []\T1/ptm/m/n/10 Either a log-i-cal spec-i-fy-ing whether el-e-ments of a real or com-plex vec- Underfull \hbox (badness 2012) in paragraph at lines 10613--10617 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see [181] Underfull \hbox (badness 6944) in paragraph at lines 10691--10694 [][][]\T1/pcr/m/n/10 formatC[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 paste[][] []\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T 1/pcr/m/n/10 sprintf[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 print[][][]\T1/pt m/m/n/10 , [][]\T1/pcr/m/n/10 prettyNum[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/1 0 toString[][][]\T1/ptm/m/n/10 , [182] Underfull \hbox (badness 2865) in paragraph at lines 10757--10760 []\T1/ptm/m/n/10 A char-ac-ter string. If not spec-i-fied, it will try \T1/pcr/ m/n/10 "%Y-%m-%d" \T1/ptm/m/n/10 then [183] [184] [185] [186] [187] Underfull \hbox (badness 1024) in paragraph at lines 11009--11013 []\T1/pcr/m/n/10 "f" \T1/ptm/m/n/10 gives num-bers in the usual \T1/pcr/m/n/10 xxx.xxx \T1/ptm/m/n/10 for-mat; \T1/pcr/m/n/10 "e" \T1/ptm/m/n/10 and \T1/pcr/m /n/10 "E" \T1/ptm/m/n/10 give [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] Underfull \hbox (badness 2418) in paragraph at lines 11923--11927 []\T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \T1/pcr/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/pcr/m/n/10 CallRoutine\T1/ptm/m/n/ 10 , Underfull \hbox (badness 6510) in paragraph at lines 11930--11933 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 name \T1/ptm/m/n/10 con-tains only one sym-b ol name and \T1/pcr/m/n/10 unlist \T1/ptm/m/n/10 is \T1/pcr/m/n/10 TRUE\T1/ptm/ m/n/10 , then the sin-gle [204] Underfull \hbox (badness 2326) in paragraph at lines 11955--11962 [][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr /m/n/10 is.loaded[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .C[][][]\T1/ptm/m/n/ 10 , [][]\T1/pcr/m/n/10 .Fortran[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .Exte rnal[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .Call[][][]\T1/ptm/m/n/10 , [205] [206] [207] [208] [209] [210] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12294--12294 [] \T1/pcr/m/n/10 perl = FALSE, value = FALSE, fixed = FALSE, useBytes = F ALSE,[] Underfull \hbox (badness 1867) in paragraph at lines 12317--12321 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] Underfull \hbox (badness 1014) in paragraph at lines 12905--12907 []\T1/ptm/m/n/10 Not all plat-forms sup-port these func-tions, al-though al-mos t all sup-port \T1/pcr/m/n/10 iconv\T1/ptm/m/n/10 . See also [221] [222] [223] [224] [225] Underfull \hbox (badness 1072) in paragraph at lines 13168--13171 []\T1/ptm/m/n/10 Sometimes it is bet-ter to use a con-struc-tion such as \T1/pc r/m/n/10 (tmp <- yes; tmp[!test] <- [226] [227] [228] [229] Underfull \hbox (badness 4217) in paragraph at lines 13403--13412 [][][]\T1/pcr/m/n/10 length[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 length<-[] [][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 dimnames[][][]\T1/ptm/m/n/10 , [][]\T1/ pcr/m/n/10 dimnames<-[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 dim[][][]\T1/ptm /m/n/10 , [][]\T1/pcr/m/n/10 dim<-[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 nam es[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 names<-[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 2057) in paragraph at lines 13418--13433 [][][]\T1/pcr/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [230] [231] [232] [233] [234] [235] [236] [237] [238] Underfull \hbox (badness 4739) in paragraph at lines 13943--13945 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 10000) in paragraph at lines 14339--14341 []\T1/pcr/m/n/10 sapply(*, simplify = FALSE, USE.NAMES = FALSE) \T1/ptm/m/n/10 is equiv-a-lent to [246] Underfull \hbox (badness 1975) in paragraph at lines 14398--14401 []\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to [247] [248] [249] [250] [251] [252] [253] Underfull \hbox (badness 10000) in paragraph at lines 14786--14790 []\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use Underfull \hbox (badness 1454) in paragraph at lines 14786--14790 [][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][]\T1/ptm/m/n/10 : this wi ll sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self [254] Underfull \hbox (badness 1221) in paragraph at lines 14833--14838 []\T1/ptm/m/n/10 Normally \T1/pcr/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of loaded pack-ages, but \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 o r \T1/pcr/m/n/10 FALSE [255] Underfull \hbox (badness 10000) in paragraph at lines 14901--14907 [][][]\T1/pcr/m/n/10 attach[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 detach[][] []\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 search[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/ m/n/10 objects[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 autoload[][][]\T1/ptm/m /n/10 , [][]\T1/pcr/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/ 10 data[][][]\T1/ptm/m/n/10 , [256] [257] Underfull \hbox (badness 10000) in paragraph at lines 15022--15026 []\T1/ptm/m/n/10 Do not use [][]\T1/pcr/m/n/10 dyn.unload[][][] \T1/ptm/m/n/10 on a DLL loaded by \T1/pcr/m/n/10 library.dynam\T1/ptm/m/n/10 : use [258] Underfull \hbox (badness 1264) in paragraph at lines 15066--15070 []\T1/phv/m/n/10 R \T1/ptm/m/n/10 is dis-tributed un-der the terms of the GNU G EN-ERAL PUB-LIC LI-CENSE Ver-sion 2, [259] [260] [261] Underfull \hbox (badness 3343) in paragraph at lines 15262--15266 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ac cess[][][] \T1/ptm/m/n/10 and [][]\T1/pcr/m/n/10 files[][][] \T1/ptm/m/n/10 for many more file han-dling func-tions and [262] [263] Underfull \hbox (badness 4036) in paragraph at lines 15365--15368 []\T1/ptm/m/n/10 These set-tings are usu-ally con-trolled by the en-vi-ron-ment vari-ables \T1/pcr/m/n/10 LC_NUMERIC \T1/ptm/m/n/10 and [264] Underfull \hbox (badness 6380) in paragraph at lines 15435--15441 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- Underfull \hbox (badness 2753) in paragraph at lines 15435--15441 \T1/pcr/m/n/10 "LC_NUMERIC" \T1/ptm/m/n/10 and \T1/pcr/m/n/10 "LC_TIME"\T1/ptm/ m/n/10 . Some sys-tems will also sup-port [265] [266] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15527--15527 []\T1/pcr/m/n/9 Sys.setlocale("LC_COLLATE", "C") # turn off locale-specific sorting, usually[] [267] [268] [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] [280] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16316--16316 []\T1/pcr/m/n/9 ## Simple version: intersect <- function(x, y) y[match(x, y, nomatch = 0)][] [281] [282] Underfull \hbox (badness 1655) in paragraph at lines 16422--16426 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [283] [284] [285] [286] [287] [288] [289] [290] Overfull \hbox (60.78088pt too wide) in paragraph at lines 16892--16892 []\T1/pcr/m/n/10 R --min-vsize=vl --max-vsize=vu --min-nsize=nl --max-nsize=nu --max-ppsize=N[] [291] [292] [293] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17077--17077 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 17078--17078 [] \T1/pcr/m/n/10 sort = TRUE, suffixes = c(".x",".y"), incomparables = N ULL, ...)[] [294] [295] [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 3849) in paragraph at lines 17560--17565 []\T1/pcr/m/n/10 as.name \T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter-na lly to a char-ac-ter vec-tor (so meth-ods for [302] [303] [304] [305] Underfull \hbox (badness 1609) in paragraph at lines 17761--17763 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of \T1/pcr/m/n/10 c("bytes", "chars", [306] [307] [308] [309] [310] [311] [312] [313] Underfull \hbox (badness 10000) in paragraph at lines 18201--18206 []\T1/pcr/m/n/10 loadNamespace \T1/ptm/m/n/10 does not at-tach the name space i t loads to the search path. Underfull \hbox (badness 1168) in paragraph at lines 18201--18206 \T1/pcr/m/n/10 attachNamespace \T1/ptm/m/n/10 can be used to at-tach a frame co n-tain-ing the ex-ported val-ues of a [314] [315] Underfull \hbox (badness 8189) in paragraph at lines 18364--18370 []\T1/ptm/m/n/10 The de-fault method for \T1/pcr/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] [316] [317] [318] Underfull \hbox (badness 1694) in paragraph at lines 18520--18523 []\T1/ptm/m/n/10 a char-ac-ter vec-tor with suit-able nu-meric ver-sion strings (see `De-tails'); [319] [320] [321] Underfull \hbox (badness 1603) in paragraph at lines 18714--18716 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [322] Underfull \hbox (badness 1210) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini- [323] [324] Underfull \hbox (badness 5475) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/pcr/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 3271) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able Underfull \hbox (badness 4048) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue \T1/pcr/m/n/10 " [325] [326] [327] Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/pcr/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2384) in paragraph at lines 19179--19179 \T1/pcr/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a CRAN Underfull \hbox (badness 2837) in paragraph at lines 19179--19179 \T1/ptm/m/n/10 mir-ror. To avoid this do set the CRAN mir-ror, by some-thing li ke \T1/pcr/m/n/10 local({r Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 \T1/pcr/m/n/10 <- getOption("repos"); r["CRAN"] <- "http://my.local.cran"; Underfull \hbox (badness 1881) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 a char-ac-ter string, the path of the com-mand used for un-zip -ping help files, or [328] [329] [330] [331] Underfull \hbox (badness 10000) in paragraph at lines 19414--19417 []\T1/pcr/m/n/10 FUN = "*" \T1/ptm/m/n/10 is han-dled in-ter-nally as a spe-cia l case, \T1/ptm/m/it/10 via \T1/pcr/m/n/10 as.vector(X) %*% [332] [333] [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] Underfull \hbox (badness 1796) in paragraph at lines 20037--20040 []\T1/ptm/m/n/10 character string (or \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/pcr/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] [357] [358] [359] Underfull \hbox (badness 7415) in paragraph at lines 21005--21009 []\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use \T1/pcr/m/n/10 R.ver sion$os \T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 1533) in paragraph at lines 21354--21357 []\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 [366] Underfull \hbox (badness 1337) in paragraph at lines 21444--21447 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 finite \T1/ptm/m/n/10 is \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 , the min-i-mum and max-i-mum of all fi-nite val-ues is com-pute d, i.e., [367] [368] Underfull \hbox (badness 1038) in paragraph at lines 21502--21512 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/pcr/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [369] [370] [371] [372] [373] [374] [375] Underfull \hbox (badness 10000) in paragraph at lines 21926--21930 \T1/pcr/m/n/10 "double", "integer", "int", "logical", "complex", [376] [377] [378] [379] [380] [381] [382] [383] [384] [385] Underfull \hbox (badness 2486) in paragraph at lines 22471--22483 []\T1/ptm/m/n/10 The pre-cise way char-ac-ter ranges are in-ter-preted de-pends on the val-ues of \T1/pcr/m/n/10 perl \T1/ptm/m/n/10 and Underfull \hbox (badness 1168) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 may in-clude `\T1/pcr/m/n/10 x\T1/ptm/m/n/10 ' and if it does ma y or may not in-clude `\T1/pcr/m/n/10 w\T1/ptm/m/n/10 '. (In most En-glish lo-c ales Underfull \hbox (badness 1199) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 the col-la-tion or-der is `\T1/pcr/m/n/10 wWxXyYzZ\T1/ptm/m/n/10 '.) For case-less match-ing the char-ac-ters in a range are Underfull \hbox (badness 1389) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 in-ter-preted as if in lower case, so in an En-glish lo-cale `\T 1/pcr/m/n/10 [W-z]\T1/ptm/m/n/10 ' matches `\T1/pcr/m/n/10 WXYZwxyz\T1/ptm/m/n/ 10 '. [386] [387] [388] Underfull \hbox (badness 5417) in paragraph at lines 22724--22727 [][][]\T1/pcr/m/n/10 grep[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 apropos[][][ ]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 browseEnv[][][]\T1/ptm/m/n/10 , [][]\T1/pc r/m/n/10 glob2rx[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 help.search[][][]\T1/ ptm/m/n/10 , [][]\T1/pcr/m/n/10 list.files[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/ n/10 ls[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 22728--22729 [][][]$\T1/pcr/m/n/10 http : / / www . opengroup . org / onlinepubs / 009695399 / basedefs / xbd _ [389] [390] [391] [392] [393] Underfull \hbox (badness 10000) in paragraph at lines 22982--22986 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [394] [395] [396] [397] [398] [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] Underfull \hbox (badness 1158) in paragraph at lines 23962--23967 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 23984--23988 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1762) in paragraph at lines 23984--23988 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 24320--24323 []\T1/ptm/m/n/10 The fourth form gen-er-ates the se-quence \T1/pcr/m/n/10 1, 2, ..., length(along.with)\T1/ptm/m/n/10 . Underfull \hbox (badness 2809) in paragraph at lines 24324--24329 []\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence \T1/pcr/m/n/10 1, 2, ..., length(from) \T1/ptm/m/n/10 (as if ar-gu-ment [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] [428] Underfull \hbox (badness 4303) in paragraph at lines 25001--25004 []\T1/pcr/m/n/10 split = TRUE \T1/ptm/m/n/10 only splits \T1/phv/m/n/10 R \T1/p tm/m/n/10 out-put (via \T1/pcr/m/n/10 Rvprintf\T1/ptm/m/n/10 ) and the de-fault out-put from [429] [430] [431] [432] [433] [434] [435] Overfull \hbox (31.3804pt too wide) in paragraph at lines 25394--25394 []\T1/pcr/m/n/9 is.unsorted(x, strictly=TRUE) #-> TRUE : is not (and cannot be ) sorted strictly[] [436] [437] [438] [439] [440] [441] [442] [443] Overfull \hbox (4.38043pt too wide) in paragraph at lines 25830--25830 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [444] Underfull \hbox (badness 10000) in paragraph at lines 25946--25946 []\T1/ptm/m/n/10 Double pre-ci-sion value, in ``\T1/ptm/b/n/10 e\T1/ptm/m/n/10 xponential'' dec-i-mal no-ta-tion of the form [445] [446] Underfull \vbox (badness 3803) has occurred while \output is active [447] [448] Underfull \hbox (badness 1087) in paragraph at lines 26159--26161 []\T1/ptm/m/n/10 Markus Kuhn, ``ASCII and Uni-code quo-ta-tion marks''. [][]$\T 1/pcr/m/n/10 http : / / www . cl . cam . ac . uk / [449] [450] [451] Underfull \hbox (badness 6526) in paragraph at lines 26344--26354 []\T1/ptm/m/n/10 Then \T1/phv/m/n/10 R \T1/ptm/m/n/10 searches for the site-wid e startup pro-file un-less the com-mand line op-tion [452] [453] [454] [455] [456] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26660--26660 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [457] [458] [459] [460] [461] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26967--26967 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [462] [463] [464] Overfull \hbox (6.78088pt too wide) in paragraph at lines 27148--27148 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] [465] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27187--27187 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 27579--27582 []\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][]\T1/pcr/m/n/10 signif[][][]() \T1/ptm/m/n/10 (for Overfull \hbox (4.38043pt too wide) in paragraph at lines 27611--27611 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau lt precision[] [473] [474] [475] [476] [477] [478] [479] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27952--27952 []\T1/pcr/m/n/9 ## whether HOST is set will be shell-dependent e.g. Solaris\TS 1/pcr/m/n/9 ' \T1/pcr/m/n/9 csh does not.[] [480] [481] [482] [483] Underfull \hbox (badness 10000) in paragraph at lines 28173--28177 []\T1/pcr/m/n/10 sys.status() \T1/ptm/m/n/10 re-turns a list with com-po-nents \T1/pcr/m/n/10 sys.calls\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sys.parents \T1/ptm/m/n /10 and Underfull \hbox (badness 1584) in paragraph at lines 28187--28190 []\T1/pcr/m/n/10 sys.call \T1/ptm/m/n/10 re-turns a call, \T1/pcr/m/n/10 sys.fu nction \T1/ptm/m/n/10 a func-tion def-i-ni-tion, and \T1/pcr/m/n/10 sys.frame \ T1/ptm/m/n/10 and [484] [485] [486] [487] Underfull \hbox (badness 1082) in paragraph at lines 28407--28410 []\T1/ptm/m/n/10 logical. If \T1/pcr/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [488] [489] [490] [491] [492] [493] [494] Overfull \hbox (6.78088pt too wide) in paragraph at lines 28801--28801 []\T1/pcr/m/n/10 table(..., exclude = if (useNA == "no") c(NA, NaN), useNA = c ("no",[] Underfull \hbox (badness 1270) in paragraph at lines 28818--28821 []\T1/ptm/m/n/10 levels to re-move from all fac-tors in \T1/pcr/m/n/10 ...\T1/p tm/m/n/10 . If set to \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 , it im-plies [495] Underfull \hbox (badness 4096) in paragraph at lines 28880--28883 []\T1/ptm/m/n/10 Use [][]\T1/pcr/m/n/10 ftable[][][] \T1/ptm/m/n/10 for print-i ng (and more) of mul-ti-di-men-sional ta-bles. [][]\T1/pcr/m/n/10 margin.table[ ][][]\T1/ptm/m/n/10 , [496] [497] [498] [499] Underfull \hbox (badness 10000) in paragraph at lines 29098--29100 []\T1/pcr/m/n/10 removeTaskCallback \T1/ptm/m/n/10 un-registers a func-tion tha t was reg-is-tered ear-lier via [500] [501] Underfull \hbox (badness 10000) in paragraph at lines 29175--29178 [][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$http : / / developer . [502] [503] Underfull \hbox (badness 5475) in paragraph at lines 29294--29298 [][][]\T1/pcr/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 http : / / [504] Underfull \hbox (badness 10000) in paragraph at lines 29351--29355 [][][]\T1/pcr/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 http : [505] [506] [507] [508] [509] Underfull \hbox (badness 1436) in paragraph at lines 29663--29667 \T1/ptm/m/n/10 file sys-tem varies, e.g. `\T1/phv/m/n/10 /usr/share/zoneinfo\T1 /ptm/m/n/10 ', `\T1/phv/m/n/10 /usr/etc/zoneinfo\T1/ptm/m/n/10 ', `\T1/phv/m/n/ 10 /usr/lib/zoneinfo\T1/ptm/m/n/10 ' or Underfull \hbox (badness 3460) in paragraph at lines 29683--29685 [][][]$\T1/pcr/m/n/10 http : / / en . wikipedia . org / wiki / Time _ zone$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 http : / / www . twinsun . com / [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] Underfull \hbox (badness 1708) in paragraph at lines 30305--30314 []\T1/pcr/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 3713) in paragraph at lines 30305--30314 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the \T1 /pcr/m/n/10 stderr \T1/ptm/m/n/10 con-nec-tion un-less Underfull \hbox (badness 4859) in paragraph at lines 30321--30326 [][][]\T1/pcr/m/n/10 options[][][] \T1/ptm/m/n/10 for set-ting er-ror han-dlers and sup-press-ing the print-ing of er-ror mes-sages; [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] Underfull \hbox (badness 3668) in paragraph at lines 31114--31116 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] Underfull \hbox (badness 2846) in paragraph at lines 31758--31762 []\T1/pcr/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [546] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31781--31781 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] Underfull \hbox (badness 3209) in paragraph at lines 31800--31804 []\T1/pcr/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [547]) (./datasets-pkg.tex [548] Chapter 2. Underfull \hbox (badness 10000) in paragraph at lines 10--12 []\T1/ptm/m/n/10 This pack-age con-tains a va-ri-ety of datasets. For a com-ple te list, use [549] [550] [551] [552] [553] Underfull \vbox (badness 10000) has occurred while \output is active [554] Overfull \hbox (4.38043pt too wide) in paragraph at lines 309--309 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi ven = FALSE)[] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [566] [567] [568] [569] [570] [571] [572] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [573] Underfull \vbox (badness 3746) has occurred while \output is active [574] Underfull \hbox (badness 10000) in paragraph at lines 1275--1278 []\T1/ptm/m/n/10 Finally, \T1/pcr/m/n/10 freeny \T1/ptm/m/n/10 is a data frame with vari-ables \T1/pcr/m/n/10 y\T1/ptm/m/n/10 , \T1/pcr/m/n/10 lag.quarterly.r evenue\T1/ptm/m/n/10 , Underfull \hbox (badness 2903) in paragraph at lines 1275--1278 \T1/pcr/m/n/10 price.index\T1/ptm/m/n/10 , \T1/pcr/m/n/10 income.level\T1/ptm/m /n/10 , and \T1/pcr/m/n/10 market.potential \T1/ptm/m/n/10 ob-tained from the a bove [575] [576] Underfull \hbox (badness 1325) in paragraph at lines 1345--1350 []\T1/ptm/m/n/10 Friendly, M. (1992a) Graph-i-cal meth-ods for cat-e-gor-i-cal data. \T1/ptm/m/it/10 SAS User Group In-ter-na- [577] [578] Overfull \vbox (18.51595pt too high) has occurred while \output is active [579] [580] [581] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1620--1620 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] [582] [583] Overfull \vbox (7.76057pt too high) has occurred while \output is active [584] [585] [586] [587] [588] [589] [590] [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [602] Underfull \vbox (badness 7415) has occurred while \output is active [603] [604] [605] [606] [607] Underfull \hbox (badness 5175) in paragraph at lines 2932--2935 []\T1/ptm/m/n/10 Files for all 182 dis-tricts in 1888 and other years have been avail-able at [][]$\T1/pcr/m/n/10 http : Underfull \hbox (badness 10000) in paragraph at lines 2932--2935 \T1/pcr/m/n/10 / / opr . princeton . edu / archive / eufert / switz . html$[][] \T1/ptm/m/n/10 or [][]$\T1/pcr/m/n/10 http : / / opr . [608] [609] [610] [611] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3141--3141 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] [612] Underfull \hbox (badness 10000) in paragraph at lines 3166--3169 []\T1/ptm/m/n/10 Time Se-ries Data Li-brary: [][]$\T1/pcr/m/n/10 http : / / www -[]personal . buseco . monash . edu . au / Underfull \vbox (badness 10000) has occurred while \output is active [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626]) (./grDevices-pkg.tex Chapter 3. [627] [628] [629] Overfull \hbox (6.78088pt too wide) in paragraph at lines 169--169 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [630] [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 5175) in paragraph at lines 651--653 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [639] Underfull \hbox (badness 10000) in paragraph at lines 745--747 []\T1/ptm/m/n/10 For the white points [][]$\T1/pcr/m/n/10 http : / / www . efg2 . com / Lab / Graphics / Colors / [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 1140--1142 []\T1/ptm/m/n/10 The de-fault for \T1/pcr/m/n/10 dev.print \T1/ptm/m/n/10 is to pro-duce and print a postscript copy, if [647] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1214--1214 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [648] Underfull \hbox (badness 1184) in paragraph at lines 1251--1264 []\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of \T1/pcr/m /n/10 ghostscript\T1/ptm/m/n/10 , but are likely to in- Underfull \hbox (badness 1694) in paragraph at lines 1251--1264 \T1/pcr/m/n/10 "pbmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pgm"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "pgmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pgnm"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "pgnmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pnm"\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 "pnmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ppm"\T1/ptm/m/n/10 , Underfull \hbox (badness 6493) in paragraph at lines 1251--1264 \T1/pcr/m/n/10 "tifflzw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "tiffpack"\T1/ptm/m/n/1 0 , \T1/pcr/m/n/10 "tiff12nc"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "tiff24nc"\T1/ptm/ m/n/10 , \T1/pcr/m/n/10 "psmono"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "psgray"\T1/ptm /m/n/10 , [649] Underfull \hbox (badness 10000) in paragraph at lines 1339--1341 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [650] [651] [652] [653] [654] [655] [656] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [657] [658] Underfull \hbox (badness 10000) in paragraph at lines 1853--1865 [659] [660] [661] [662] [663] [664] [665] [666] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [667] [668] Underfull \hbox (badness 10000) in paragraph at lines 2401--2404 [][][]\T1/pcr/m/n/10 colors[][][] \T1/ptm/m/n/10 for the vec-tor of built-in na med col-ors; [][]\T1/pcr/m/n/10 hsv[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 gr ay[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 rainbow[][][]\T1/ptm/m/n/10 , [669] [670] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [671] [672] [673] [674] Underfull \hbox (badness 1072) in paragraph at lines 2800--2805 \T1/pcr/m/n/10 encoding\T1/ptm/m/n/10 , \T1/pcr/m/n/10 pointsize\T1/ptm/m/n/10 , \T1/pcr/m/n/10 bg\T1/ptm/m/n/10 , \T1/pcr/m/n/10 fg\T1/ptm/m/n/10 , \T1/pcr/m /n/10 pagecentre\T1/ptm/m/n/10 , \T1/pcr/m/n/10 useDingbats \T1/ptm/m/n/10 and [675] [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] Underfull \hbox (badness 5077) in paragraph at lines 3426--3432 []\T1/ptm/m/n/10 For use with \T1/pcr/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a \T1/pcr/m/n/10 printf \T1/ptm/m/n/10 for-mat such as [686] [687] Underfull \hbox (badness 1755) in paragraph at lines 3578--3580 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [688] [689] Underfull \hbox (badness 7344) in paragraph at lines 3718--3720 []\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 Underfull \hbox (badness 7397) in paragraph at lines 3727--3732 [][][]\T1/pcr/m/n/10 postscriptFonts[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 D evices[][][]\T1/ptm/m/n/10 , and [][]\T1/pcr/m/n/10 check.options[][][] \T1/ptm /m/n/10 which is called from both [690] [691] Underfull \hbox (badness 2035) in paragraph at lines 3834--3843 []\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 3735) in paragraph at lines 3834--3843 \T1/ptm/m/n/10 vided: \T1/pcr/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/pcr/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/pcr/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Helvetica- Underfull \hbox (badness 10000) in paragraph at lines 3834--3843 \T1/pcr/m/n/10 "URWBookman"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "NimbusMon"\T1/ptm/m /n/10 , \T1/pcr/m/n/10 "NimbusSan" \T1/ptm/m/n/10 (syn-onym \T1/pcr/m/n/10 "URW Helvetica"\T1/ptm/m/n/10 ), [692] Underfull \hbox (badness 4686) in paragraph at lines 3874--3880 \T1/pcr/m/n/10 "Japan1"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Japan1HeiMin"\T1/ptm/m/ n/10 , \T1/pcr/m/n/10 "Japan1GothicBBB"\T1/ptm/m/n/10 , and \T1/pcr/m/n/10 "Jap an1Ryumin" \T1/ptm/m/n/10 for [693] Underfull \hbox (badness 10000) in paragraph at lines 3898--3906 []\T1/pcr/m/n/10 Baekmuk-Batang \T1/ptm/m/n/10 can be found at [][]$\T1/pcr/m/n /10 ftp : / / ftp . mizi . com / pub / baekmuk/$[][]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 3898--3906 \T1/pcr/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/pcr/m /n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 7344) in paragraph at lines 3916--3918 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [694] [695] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4030--4030 []\T1/pcr/m/n/10 quartz(title, width, height, pointsize, family, fontsmooth, a ntialias,[] [696] Underfull \hbox (badness 10000) in paragraph at lines 4119--4121 []\T1/ptm/m/n/10 Calling \T1/pcr/m/n/10 quartz() \T1/ptm/m/n/10 sets [][]\T1/pc r/m/n/10 .Device[][][] \T1/ptm/m/n/10 to \T1/pcr/m/n/10 "quartz" \T1/ptm/m/n/10 for on-screen de-vices and to [697] [698] [699] [700] [701] Underfull \hbox (badness 10000) in paragraph at lines 4387--4390 []\T1/pcr/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [702] [703] [704] [705] [706] [707] [708] Underfull \hbox (badness 1189) in paragraph at lines 4724--4726 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [709] Underfull \hbox (badness 1132) in paragraph at lines 4787--4789 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and \T1/pcr/m/n/10 "-cronyx- [710] [711] [712] Underfull \hbox (badness 2065) in paragraph at lines 5010--5016 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/pcr/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , Underfull \hbox (badness 1360) in paragraph at lines 5010--5016 \T1/pcr/m/n/10 Narrow"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "NewCenturySchoolbook"\T1 /ptm/m/n/10 , \T1/pcr/m/n/10 "Palatino" \T1/ptm/m/n/10 or \T1/pcr/m/n/10 "Times "\T1/ptm/m/n/10 . [713] Underfull \hbox (badness 1721) in paragraph at lines 5042--5045 []\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt p : / / www . schmidt-[]web-[]berlin . de / [714] [715] Underfull \hbox (badness 1231) in paragraph at lines 5185--5187 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/pcr/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [716] [717] [718]) (./graphics-pkg.tex Chapter 4. [719] [720] [721] Underfull \hbox (badness 2856) in paragraph at lines 160--163 []\T1/ptm/m/n/10 For each \T1/pcr/m/n/10 i\T1/ptm/m/n/10 , an ar-row is drawn b e-tween the point \T1/pcr/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the point (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [722] Underfull \hbox (badness 1412) in paragraph at lines 261--266 []\T1/ptm/m/n/10 Friendly, M. (1992), Graph-i-cal meth-ods for cat-e-gor-i-cal data. \T1/ptm/m/it/10 SAS User Group In-ter-na- [723] [724] [725] [726] Underfull \hbox (badness 2726) in paragraph at lines 429--435 []\T1/ptm/m/n/10 When \T1/pcr/m/n/10 at = NULL\T1/ptm/m/n/10 , pretty tick mark lo-ca-tions are com-puted in-ter-nally (the same way [727] [728] [729] Underfull \hbox (badness 10000) in paragraph at lines 617--620 []\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][]\T1/pcr/m /n/10 par[][][]("xaxp") \T1/ptm/m/n/10 or [730] [731] [732] [733] [734] [735] [736] [737] [738] [739] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1157--1157 [] \T1/pcr/m/n/10 horizontal = FALSE, add = FALSE, at = NULL, show.names = NULL,[] [740] Underfull \hbox (badness 1024) in paragraph at lines 1201--1209 \T1/pcr/m/n/10 col.main\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sub\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 cex.sub\T1/ptm/m/n/10 , \T1/pcr/m/n/10 col.sub\T1/ptm/m/n/10 , \T1/p cr/m/n/10 xlab\T1/ptm/m/n/10 , \T1/pcr/m/n/10 ylab\T1/ptm/m/n/10 , \T1/pcr/m/n/ 10 cex.lab\T1/ptm/m/n/10 , and Underfull \hbox (badness 3375) in paragraph at lines 1242--1242 []\T1/ptm/m/n/10 whisker line type (de-fault: \T1/pcr/m/n/10 "dashed"\T1/ptm/m/ n/10 ), [741] [742] [743] [744] [745] [746] Underfull \hbox (badness 10000) in paragraph at lines 1580--1585 [][][]\T1/pcr/m/n/10 contourLines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 fill ed.contour[][][] \T1/ptm/m/n/10 for color-filled con-tours, [][]\T1/pcr/m/n/10 contourplot[][][] \T1/ptm/m/n/10 (and [747] [748] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1699--1699 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns,[] [749] [750] [751] [752] Underfull \hbox (badness 4859) in paragraph at lines 1878--1881 []\T1/ptm/m/n/10 labels and graph-i-cal pa-ram-e-ters can also be spec-i-fied a s ar-gu-ments. [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] Underfull \hbox (badness 1226) in paragraph at lines 2472--2476 \T1/pcr/m/n/10 1)\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies \T1/pcr /m/n/10 counts/n \T1/ptm/m/n/10 and in gen-eral sat-isfy [764] Underfull \hbox (badness 10000) in paragraph at lines 2570--2573 []\T1/ptm/m/n/10 graphical pa-ram-e-ters, or ar-gu-ments to [][]\T1/pcr/m/n/10 hist.default[][][] \T1/ptm/m/n/10 such as [765] [766] [767] [768] Underfull \hbox (badness 1755) in paragraph at lines 2804--2808 []\T1/ptm/m/n/10 a list of col-ors such as that gen-er-ated by [][]\T1/pcr/m/n/ 10 rainbow[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 heat.colors[][][]\T1/ptm/m/ n/10 , [769] [770] [771] [772] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3032--3032 [] \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = par("fg"),[] [773] [774] [775] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3186--3186 [] \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce x = cexv[i])[] Underfull \vbox (badness 3803) has occurred while \output is active [776] Underfull \vbox (badness 10000) has occurred while \output is active [777] [778] [779] [780] Underfull \hbox (badness 1867) in paragraph at lines 3476--3480 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [781] [782] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [783] Underfull \hbox (badness 3930) in paragraph at lines 3633--3635 []\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a mul-ti-ple of [784] [785] [786] [787] [788] [789] [790] [791] Underfull \hbox (badness 1264) in paragraph at lines 4103--4115 \T1/ptm/m/n/10 func-tions such as [][]\T1/pcr/m/n/10 plot.default[][][]\T1/ptm/ m/n/10 , [][]\T1/pcr/m/n/10 plot.window[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/1 0 points[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 lines[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 abline[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 axis[][][]\T1 /ptm/m/n/10 , [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] [802] [803] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4931--4931 [] \T1/pcr/m/n/9 col = c("purple", "violetred1", "green3", "cornsilk", "cya n", "white"))[] [804] Underfull \hbox (badness 1052) in paragraph at lines 4990--4990 \T1/ptm/m/n/10 All other \T1/pcr/m/n/10 type\T1/ptm/m/n/10 s give a warn-ing or an er-ror; us-ing, e.g., \T1/pcr/m/n/10 type = [805] [806] [807] [808] [809] [810] [811] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5348--5348 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth) # numeric vec tor ~ factor[] [812] [813] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5446--5446 [] \T1/pcr/m/n/10 axes = TRUE, labels = FALSE, add = FALSE, ann = TRUE, ...)[] [814] [815] [816] Underfull \hbox (badness 10000) in paragraph at lines 5652--5654 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [817] [818] Underfull \hbox (badness 1028) in paragraph at lines 5740--5740 []\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th is works as a mul-ti-ple of [819] [820] Underfull \vbox (badness 10000) has occurred while \output is active [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6444--6444 [] \T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), space = "Lab")[] [831] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6455--6455 [] \T1/pcr/m/n/9 pairs(y, panel=function(...) {par(new=TRUE);smoothScatter(.. ., nrpoints=0)})[] [832] [833] [834] [835] [836] [837] [838] [839] [840] Overfull \hbox (30.78088pt too wide) in paragraph at lines 6932--6932 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 6933--6933 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [841] Underfull \hbox (badness 2080) in paragraph at lines 7028--7033 []\T1/ptm/m/n/10 integer vec-tor of length \T1/pcr/m/n/10 n\T1/ptm/m/n/10 . \T1 /pcr/m/n/10 number[i] \T1/ptm/m/n/10 = num-ber of repli-cates for [842] Underfull \hbox (badness 1533) in paragraph at lines 7065--7069 []\T1/ptm/m/n/10 For \T1/pcr/m/n/10 number[i]==1\T1/ptm/m/n/10 , a (slightly en -larged) usual plot-ting sym-bol (\T1/pcr/m/n/10 pch\T1/ptm/m/n/10 ) is drawn. For [843] [844] [845] [846] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [847] [848] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7410--7410 [] \T1/pcr/m/n/9 "Le français, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est façile: Règles, Liberté, Egalité, Fraternité...")[] Underfull \hbox (badness 6691) in paragraph at lines 7434--7437 []\T1/ptm/m/n/10 The main ti-tle (on top) us-ing font and size (char-ac-ter ex- pan-sion) [849] Underfull \hbox (badness 1584) in paragraph at lines 7470--7476 []\T1/ptm/m/n/10 The po-si-tions of \T1/pcr/m/n/10 xlab\T1/ptm/m/n/10 , \T1/pcr /m/n/10 ylab \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sub \T1/ptm/m/n/10 are \T1/pcr/m /n/10 line \T1/ptm/m/n/10 (de-fault for \T1/pcr/m/n/10 xlab \T1/ptm/m/n/10 and \T1/pcr/m/n/10 ylab \T1/ptm/m/n/10 be-ing [850]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.unit s}) has been already used, duplicate ignored \relax l.7515 \HeaderA{units}{Graphical Units}{units} [851] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7568--7568 []\T1/pcr/m/n/10 xspline(x, y = NULL, shape = 0, open = TRUE, repEnds = TRUE, draw = TRUE,[] Underfull \hbox (badness 1205) in paragraph at lines 7574--7576 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [852] [853] [854]) (./grid-pkg.tex Chapter 5. [855] [856] [857] [858] [859] Underfull \hbox (badness 10000) in paragraph at lines 259--265 \T1/ptm/m/n/10 (i.e., pop or up any view-ports that were pushed; again, see, fo r ex-am-ple, Underfull \hbox (badness 1024) in paragraph at lines 259--265 \T1/pcr/m/n/10 grid:::postDrawDetails.frame\T1/ptm/m/n/10 ). Note that the de-f ault be-haviour for grobs is to [860] [861] [862] [863] [864] [865] [866] [867] [868] [869] Overfull \hbox (9.78043pt too wide) in paragraph at lines 811--811 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 813--813 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 815--815 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [870] [871] Underfull \hbox (badness 2781) in paragraph at lines 949--952 []\T1/ptm/m/n/10 Both func-tions cre-ate an ar-rows grob (a graph-i-cal ob-ject de-scrib-ing ar-rows), but only [872] [873] [874] Underfull \hbox (badness 3219) in paragraph at lines 1073--1076 []\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject de-scrib-ing a cir-cle), but only [875] [876] [877] [878] [879] [880] [881] [882] [883] Underfull \hbox (badness 2961) in paragraph at lines 1585--1590 []\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio ns \T1/pcr/m/n/10 preDrawDetails\T1/ptm/m/n/10 , [884] [885] Underfull \hbox (badness 4479) in paragraph at lines 1664--1667 []\T1/ptm/m/n/10 Both func-tions call \T1/pcr/m/n/10 editDetails \T1/ptm/m/n/10 to al-low a grob to per-form cus-tom ac-tions and [886] Underfull \hbox (badness 2894) in paragraph at lines 1723--1730 []\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de -scrib-ing a frame), but only [887] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1763--1763 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [888] [889] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1907--1907 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [890] [891] [892] [893] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2119--2119 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [894] [895] [896] [897] [898] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2407--2407 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [899] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2445--2445 []\T1/pcr/m/n/10 moveToGrob(x = 0, y = 0, default.units = "npc", name = NULL, vp = NULL)[] [900] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2495--2495 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, w=0.25, h=0.25, just=c("left", "bottom")))[] [901] [902] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2607--2607 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2614--2614 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 10000) in paragraph at lines 2937--2939 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [909] [910] [911] [912] [913] Underfull \hbox (badness 1067) in paragraph at lines 3197--3200 []\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 [914] [915] [916] [917] [918] Underfull \hbox (badness 7256) in paragraph at lines 3409--3411 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] Underfull \hbox (badness 1867) in paragraph at lines 4500--4502 []\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for use in \T1/pcr/m/n/10 downViewport \T1/ptm/m/n/10 or [939] Underfull \hbox (badness 10000) in paragraph at lines 4532--4538 [][][]\T1/pcr/m/n/10 viewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 pushView port[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 seekV iewport[][][]\T1/ptm/m/n/10 , [940] [941] [942] Underfull \vbox (badness 3803) has occurred while \output is active [943] [944] [945]) (./methods-pkg.tex [946] Chapter 6. [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 1960) has occurred while \output is active [953] [954] [955] Underfull \hbox (badness 1281) in paragraph at lines 573--582 []\T1/ptm/m/n/10 Note that the pre-ced-ing def-i-ni-tion means that the next me thod is de-fined uniquely when [956] Overfull \hbox (4.38043pt too wide) in paragraph at lines 647--647 []\T1/pcr/m/n/9 setMethod("f", "B2", function(x) {x@b0 <- 111; c(x@b2, callNex tMethod())})[] [957] [958] [959] [960] [961] [962] [963] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1174--1174 []\T1/pcr/m/n/9 ## the super- and subclasses of "standardGeneric" and "derived DefaultMethod"[] [964] [965] [966] [967] [968] [969] Overfull \hbox (198.78021pt too wide) in paragraph at lines 1566--1566 []\T1/pcr/m/n/9 stopifnot(identical(cc(letters, character(), cd1), paste(lette rs, character(), cd1))) # the "character" method[] Overfull \hbox (355.38004pt too wide) in paragraph at lines 1568--1568 []\T1/pcr/m/n/9 stopifnot(identical(cc(letters, character(), cd2), c(letters, character(), cd2))) # the default, because "vdate" doesn\TS1/pcr/m/n/9 '\T1/pcr /m/n/9 t extend "character"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1570--1570 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N umber" method[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1572--1572 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 1578--1578 []\T1/pcr/m/n/9 setMethod("numMax", "numeric", function(...)max(...)) # won\TS 1/pcr/m/n/9 '\T1/pcr/m/n/9 t work for complex data[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 1579--1579 []\T1/pcr/m/n/9 setMethod("numMax", "Number", function(...) paste(...)) # shou ld not be selected w/o complex args[] [970] Underfull \hbox (badness 10000) in paragraph at lines 1615--1615 []\T1/pcr/m/n/10 signature(from = "ANY", to = "environment")\T1/ptm/m/n/10 : ca lls [971] [972] [973] [974] [975] Underfull \hbox (badness 3792) in paragraph at lines 1886--1889 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/pcr/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/pcr/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [976] [977] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1965--1965 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [978] [979] [980] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2161--2161 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [981] [982] [983] [984] [985] Underfull \hbox (badness 1552) in paragraph at lines 2491--2493 []\T1/pcr/m/n/10 packageName \T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [986] [987] [988] [989] [990] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2821--2821 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [991] [992] Underfull \hbox (badness 1394) in paragraph at lines 2893--2893 \T1/ptm/m/n/10 If ar-gu-ment \T1/pcr/m/n/10 fullInfo \T1/ptm/m/n/10 is \T1/pcr/ m/n/10 TRUE\T1/ptm/m/n/10 , the call re-turns a named list of ob-jects of class [993] [994] [995] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3103--3103 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3122--3122 []\T1/pcr/m/n/9 setClass("stringsDated", contains = "character", representatio n(stamp="POSIXt"))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3136--3136 []\T1/pcr/m/n/9 ## In contrast, a class that simply extends "factor" has no su ch ambiguities[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3137--3137 []\T1/pcr/m/n/9 setClass("factorDated", contains = "factor", representation(st amp="POSIXt"))[] [996] [997] [998] [999] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3328--3328 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3329--3329 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1000] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3381--3381 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here)[] [1001] [1002] [1003] [1004] [1005] [1006] Underfull \hbox (badness 10000) in paragraph at lines 3831--3840 []\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha t eval-u-ates a call to [1007] [1008] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3980--3980 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3994--3994 []\T1/pcr/m/n/9 mydf1[1:2, ] # a data frame object (with extra attributes "dat e" and "type")[] [1009] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4034--4034 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), 1:10)) # (version 2.9.0 or earlier fails here)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4048--4048 []\T1/pcr/m/n/9 ## S3 methods are selected from the S3 class defined; that is, "data.frame"[] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 4155--4155 []\T1/pcr/m/n/10 signature(method = "MethodWithNext")\T1/ptm/m/n/10 : used in-t er-nally by [1012] [1013] [1014] [1015] [1016] Underfull \hbox (badness 1087) in paragraph at lines 4408--4413 []\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 [1017] [1018] [1019]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.4627 \aliasA{S4}{S3Part}{S4} [1020] [1021] [1022] Overfull \hbox (52.98038pt too wide) in paragraph at lines 4837--4837 []\T1/pcr/m/n/9 ## two examples extending S3 class "lm", class "xlm" directly and "ylm" indirectly[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4849--4849 []\T1/pcr/m/n/9 ## note the these classes can insert an S3 subclass of "lm" as the S3 part:[] [1023] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4854--4854 []\T1/pcr/m/n/9 ##similar classes to "xlm" and "ylm", but extending S3 class c ("mlm", "lm")[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4863--4863 []\T1/pcr/m/n/9 setClass("dataFrameD", representation(date = "Date"), contains = "data.frame")[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.4884 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.4886 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.4887 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.4889 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.4890 \aliasA{Summary}{S4groupGeneric}{Summary} [1024] Underfull \hbox (badness 2050) in paragraph at lines 4946--4974 []\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 Underfull \hbox (badness 6708) in paragraph at lines 4974--4974 []\T1/pcr/m/n/10 "abs"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "sign"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "sqrt"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ceiling"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "floor"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "trunc"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "cummax"\T1/ptm/m/n/10 , Underfull \hbox (badness 2012) in paragraph at lines 4974--4974 \T1/pcr/m/n/10 "acosh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "asin"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "asinh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "atan"\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 "atanh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "exp"\T1/ptm/m/n/10 , \T1/pcr /m/n/10 "expm1"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "cos"\T1/ptm/m/n/10 , [1025] [1026] [1027] Underfull \hbox (badness 1694) in paragraph at lines 5100--5102 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see Underfull \hbox (badness 10000) in paragraph at lines 5122--5125 []\T1/ptm/m/n/10 The typ-i-cal user level func-tion is \T1/pcr/m/n/10 selectSup erClasses() \T1/ptm/m/n/10 which calls [1028] [1029] Underfull \hbox (badness 2111) in paragraph at lines 5223--5230 []\T1/ptm/m/n/10 The slots in a class def-i-ni-tion will be the union of all th e slots spec-i-fied di-rectly by [1030] [1031] [1032] [1033] [1034] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5530--5530 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(),[] [1035] [1036] Underfull \hbox (badness 2277) in paragraph at lines 5648--5649 []\T1/ptm/m/n/10 Note that call-ing \T1/pcr/m/n/10 setGeneric() \T1/ptm/m/n/10 in this form is not strictly nec-es-sary be-fore call-ing Underfull \hbox (badness 3128) in paragraph at lines 5673--5677 []\T1/ptm/m/n/10 If you \T1/ptm/m/it/10 don't \T1/ptm/m/n/10 want the ex-ist-in g func-tion to be taken as de-fault, sup-ply the ar-gu-ment [1037] [1038] [1039] Underfull \hbox (badness 1755) in paragraph at lines 5876--5879 []\T1/ptm/m/n/10 the en-vi-ron-ment in which to store the def-i-ni-tion of the method. For [1040] [1041] [1042] [1043] [1044] [1045] [1046] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6373--6373 []\T1/pcr/m/n/9 ## two examples extending S3 class "lm", class "xlm" directly and "ylm" indirectly[] [1047] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6401--6401 []\T1/pcr/m/n/9 setClass("stamped4", contains = "vector", representation(date = "POSIXt"))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 6409--6409 []\T1/pcr/m/n/9 someLetters <- stamped(sample(letters, 10), ISOdatetime(2008, 10, 15, 12, 0, 0))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6412--6412 []\T1/pcr/m/n/9 st # show() method prints the object\TS1/pcr/m/n/9 '\T1/pcr/m /n/9 s class, then calls the S3 print method.[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6423--6423 [] \T1/pcr/m/n/9 prototype(NA, tsp = rep(1,3))) # prototype to be a legal S3 time-series[] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Overfull \hbox (240.78088pt too wide) in paragraph at lines 6953--6953 []\T1/pcr/m/n/10 testInheritedMethods(f, signatures, test = TRUE, virtual = FA LSE, groupMethods = TRUE, where = .GlobalEnv)[] [1057] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7038--7038 []\T1/pcr/m/n/9 ## if no other attached packages have methods for \TS1/pcr/m/ n/9 `\T1/pcr/m/n/9 +\TS1/pcr/m/n/9 ` \T1/pcr/m/n/9 or its group generic[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7039--7039 []\T1/pcr/m/n/9 ## functions, this returns a 16 by 2 matrix of selection patte rns (in R 2.9.0)[] [1058] Underfull \hbox (badness 10000) in paragraph at lines 7094--7094 []\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., \T1/pcr/m/n/10 "function " \T1/ptm/m/n/10 for class Underfull \hbox (badness 1852) in paragraph at lines 7097--7101 []\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., Underfull \hbox (badness 1681) in paragraph at lines 7097--7101 \T1/pcr/m/n/10 "functionWithTrace" \T1/ptm/m/n/10 ex-tends \T1/pcr/m/n/10 "func tion"\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends [1059] Underfull \hbox (badness 1635) in paragraph at lines 7164--7170 []\T1/ptm/m/n/10 Note that va-lid-ity meth-ods do not have to check va-lid-ity of su-per-classes: the logic of [1060] [1061] [1062]) (./stats-pkg.tex Chapter 7. [1063] Underfull \hbox (badness 2781) in paragraph at lines 57--60 []\T1/pcr/m/n/10 .MFclass \T1/ptm/m/n/10 re-turns a char-ac-ter string, one of \T1/pcr/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ordered"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "factor"\T1/ptm/m/n/10 , [1064] [1065] [1066] [1067] [1068] Overfull \hbox (12.78088pt too wide) in paragraph at lines 389--389 [] \T1/pcr/m/n/10 addmargins(A, margin = 1:length(dim(A)), FUN = sum, quiet = FALSE)[] [1069] [1070] [1071] [1072] [1073] [1074] Underfull \hbox (badness 1024) in paragraph at lines 704--706 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/pcr/m/n/10 lm \T1/ptm/m/n/10 or \T1/pcr/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1075] [1076] [1077] [1078] [1079] [1080] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1009--1009 [] \T1/pcr/m/n/10 c("Pillai", "Wilks", "Hotelling-Lawley", "Roy", "Sph erical"),[] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2291--2291 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(0), ma = numeric(0), lag.max = r, pacf = FALSE)[] [1103] [1104] [1105] [1106] [1107] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2498--2498 []\T1/pcr/m/n/9 legend(40,70, c("mean","median"), lty=1,col=c("blue","green"), bg="gray90")[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2520--2520 []\T1/pcr/m/n/10 bw.ucv(x, nb = 1000, lower = 0.1 * hmax, upper = hmax, tol = 0.1 * lower)[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2522--2522 []\T1/pcr/m/n/10 bw.bcv(x, nb = 1000, lower = 0.1 * hmax, upper = hmax, tol = 0.1 * lower)[] [1108] [1109] [1110] Underfull \hbox (badness 10000) in paragraph at lines 2676--2678 []\T1/ptm/m/n/10 the char-ac-ter string \T1/pcr/m/n/10 "Bartlett test of homoge neity of [1111] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2719--2719 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2720--2720 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3247--3247 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0)[] [1121] [1122] [1123] [1124] [1125] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3503--3503 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3504--3504 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1126] [1127] [1128] Underfull \hbox (badness 10000) in paragraph at lines 3648--3650 []\T1/ptm/m/n/10 the Pear-son resid-u-als, \T1/pcr/m/n/10 (observed - expected) / Overfull \hbox (4.38043pt too wide) in paragraph at lines 3693--3693 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1129] [1130] [1131] [1132] [1133] Underfull \hbox (badness 3989) in paragraph at lines 3931--3938 []\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 = [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4437--4437 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter"))[] [1142] Underfull \hbox (badness 10000) in paragraph at lines 4466--4468 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 r <- convolve(x,y, type = "open") \T1/ptm/m/ n/10 and \T1/pcr/m/n/10 n <- length(x)\T1/ptm/m/n/10 , \T1/pcr/m/n/10 m <- [1143] [1144] [1145] Underfull \hbox (badness 1436) in paragraph at lines 4630--4635 []\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i ng co-vari-ances Underfull \hbox (badness 1377) in paragraph at lines 4630--4635 \T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi -a-tion of) Underfull \hbox (badness 1448) in paragraph at lines 4630--4635 \T1/ptm/m/n/10 one of the strings \T1/pcr/m/n/10 "everything"\T1/ptm/m/n/10 , \ T1/pcr/m/n/10 "all.obs"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "complete.obs"\T1/ptm/m/ n/10 , [1146] [1147] [1148] [1149] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4931--4931 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE,[] [1150] [1151] [1152] [1153] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5093--5093 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL)[] [1154] [1155] [1156] [1157] [1158] Underfull \hbox (badness 5954) in paragraph at lines 5400--5402 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1159] Underfull \hbox (badness 2503) in paragraph at lines 5461--5463 []\T1/ptm/m/n/10 Objects of class \T1/pcr/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/pcr/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 5563) in paragraph at lines 5464--5466 []\T1/pcr/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/pcr/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1160] [1161] [1162] [1163] [1164] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5729--5729 [] \T1/pcr/m/n/9 ylim = c(0, 1), xlab="", main="R\TS1/pcr/m/n/9 '\T1/pcr/m /n/9 s density() kernels with width = 1")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5737--5737 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] [1165] [1166] [1167] [1168] [1169] [1170] Underfull \hbox (badness 10000) in paragraph at lines 6077--6081 \T1/pcr/m/n/10 "maximum"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "manhattan"\T1/ptm/m/n/ 10 , \T1/pcr/m/n/10 "canberra"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "binary" \T1/ptm/ m/n/10 or [1171] Underfull \hbox (badness 6493) in paragraph at lines 6165--6168 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/pcr/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 3780) in paragraph at lines 6595--6600 []\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences \T 1/pcr/m/n/10 x[t]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 x[t-1]\T1/ptm/m/n/10 , ..., \T 1/pcr/m/n/10 x[t- [1180] [1181] [1182] [1183] (/usr/share/texmf-texlive/tex/latex/base/latin1.def ) [1184] Underfull \hbox (badness 1210) in paragraph at lines 6890--6892 []\T1/ptm/m/n/10 Components of \T1/pcr/m/n/10 control \T1/ptm/m/n/10 can also b e sup-plied as named ar-gu-ments to [1185] [1186] Underfull \hbox (badness 10000) in paragraph at lines 6999--7003 [][][]\T1/pcr/m/n/10 print.loadings[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 va rimax[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 princomp[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 ability.cov[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 Harman23 .cor[][][]\T1/ptm/m/n/10 , [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7732--7732 [] \T1/pcr/m/n/9 satisfaction=c("VeryD", "LittleD", "ModerateS" , "VeryS")))[] [1200] [1201] [1202] [1203] [1204] [1205] [1206] [1207] [1208] Underfull \hbox (badness 2443) in paragraph at lines 8305--8311 [][][]\T1/pcr/m/n/10 ftable.formula[][][] \T1/ptm/m/n/10 for the for-mula in-te r-face (which al-lows a \T1/pcr/m/n/10 data = . \T1/ptm/m/n/10 ar-gu-ment); [1209] [1210] [1211] [1212] [1213] [1214] [1215] Underfull \hbox (badness 4518) in paragraph at lines 8713--8718 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1216] [1217] Underfull \hbox (badness 10000) in paragraph at lines 8829--8832 []\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][]\T1/pcr/m/n/10 coefficie nts[][][]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 effects\T1/ptm/m/n/10 , \T1/pcr/m/n/10 fitted.values \T1/ptm/m/n/10 and [1218] [1219] [1220] Underfull \hbox (badness 2142) in paragraph at lines 9007--9010 []\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 ^^@ [1221] Underfull \hbox (badness 1708) in paragraph at lines 9075--9078 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1222] Underfull \hbox (badness 10000) in paragraph at lines 9113--9119 [][][]\T1/pcr/m/n/10 glm[][][] \T1/ptm/m/n/10 for com-put-ing \T1/pcr/m/n/10 gl m.obj\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 anova.glm[][][]\T1/ptm/m/n/10 ; the co r-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions, [1223] [1224] Underfull \hbox (badness 2635) in paragraph at lines 9264--9270 []\T1/ptm/m/n/10 There are [][]\T1/pcr/m/n/10 print[][][]\T1/ptm/m/n/10 , [][]\ T1/pcr/m/n/10 plot[][][] \T1/ptm/m/n/10 and \T1/pcr/m/n/10 identify \T1/ptm/m/n /10 (see [][]\T1/pcr/m/n/10 identify.hclust[][][]\T1/ptm/m/n/10 ) meth-ods and the [1225] [1226] [1227] Underfull \hbox (badness 1694) in paragraph at lines 9412--9415 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1228] [1229] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9533--9533 [] \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 0.1),[] Underfull \hbox (badness 10000) in paragraph at lines 9545--9549 []\T1/ptm/m/n/10 Character string to se-lect an \T1/pcr/m/n/10 "additive" \T1/p tm/m/n/10 (the de-fault) or [1230] [1231] [1232] [1233] [1234] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9814--9814 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]),col=2:4), D EV.FUN = nD)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.9829 \aliasA{hat}{influence.measures}{hat} [1235] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9881--9881 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] [1236] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9893--9893 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] Underfull \hbox (badness 1062) in paragraph at lines 9936--9941 []\T1/ptm/m/n/10 The op-tional \T1/pcr/m/n/10 infl\T1/ptm/m/n/10 , \T1/pcr/m/n/ 10 res \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sd \T1/ptm/m/n/10 ar-gu-ments are ther e to en-cour-age the use of these di- Underfull \hbox (badness 1052) in paragraph at lines 9947--9949 []\T1/ptm/m/n/10 The func-tion \T1/pcr/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \hbox (badness 4518) in paragraph at lines 11260--11265 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1261] [1262] [1263] Underfull \hbox (badness 10000) in paragraph at lines 11439--11447 []\T1/ptm/m/n/10 More \T1/pcr/m/n/10 lm() \T1/ptm/m/n/10 ex-am-ples are avail-a ble e.g., in [][]\T1/pcr/m/n/10 anscombe[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/ 10 attitude[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 freeny[][][]\T1/ptm/m/n/10 , [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1163) in paragraph at lines 11736--11744 \T1/ptm/m/n/10 els, [][]\T1/pcr/m/n/10 influence[][][] \T1/ptm/m/n/10 (etc on t hat page) for re-gres-sion di-ag-nos-tics, [][]\T1/pcr/m/n/10 weighted.residual s[][][]\T1/ptm/m/n/10 , [1269] Underfull \hbox (badness 2165) in paragraph at lines 11795--11797 []\T1/ptm/m/n/10 further ar-gu-ments for other meth-ods, such as \T1/pcr/m/n/10 cutoff \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sort \T1/ptm/m/n/10 for [1270] Underfull \hbox (badness 4518) in paragraph at lines 11826--11831 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1271] [1272] [1273] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11988--11988 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11989--11989 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1274] Underfull \hbox (badness 10000) in paragraph at lines 12032--12035 []\T1/ptm/m/n/10 The dis-tri-bu-tion func-tion is a rescaled hy-per-bolic tan-g ent, \T1/pcr/m/n/10 plogis(x) == (1+ [1275] [1276] [1277] [1278] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12284--12284 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12285--12285 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \hbox (badness 2726) in paragraph at lines 12725--12728 []\T1/ptm/m/n/10 character; one of \T1/pcr/m/n/10 "logit"\T1/ptm/m/n/10 , \T1/p cr/m/n/10 "probit"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "cauchit"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "cloglog"\T1/ptm/m/n/10 , [1287] [1288] [1289] [1290] [1291] Underfull \vbox (badness 10000) has occurred while \output is active [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1648) in paragraph at lines 13541--13543 []\T1/ptm/m/n/10 a data frame cre-ated with [][]\T1/pcr/m/n/10 model.frame[][][ ]\T1/ptm/m/n/10 . If an-other sort of ob-ject, [1302] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13614--13614 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts = list(a="contr.sum", b="c ontr.poly"))[] [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14117--14117 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3)) # does not affect objects with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] [1312] [1313] [1314] [1315] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14315--14315 []\T1/pcr/m/n/9 persp(x,size, dnb <- outer(x, size, function(x,s) dnbinom(x,s, prob= 0.4)),[] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] Underfull \vbox (badness 10000) has occurred while \output is active [1326] Underfull \vbox (badness 10000) has occurred while \output is active [1327] [1328] [1329] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15067--15067 []\T1/pcr/m/n/9 NLSstAsymptotic(sortedXyData(expression(age), expression(heigh t), Lob.329))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15102--15102 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1330] Overfull \hbox (20.58041pt too wide) in paragraph at lines 15143--15143 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1331] Overfull \hbox (20.58041pt too wide) in paragraph at lines 15184--15184 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1332] [1333] [1334] [1335] [1336] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15458--15458 [] \T1/pcr/m/n/10 method = c("Nelder-Mead", "BFGS", "CG", "L-BFGS-B", "SA NN"),[] [1337] [1338] Underfull \hbox (badness 1248) in paragraph at lines 15601--15601 []\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 1127) in paragraph at lines 15601--15601 \T1/ptm/m/n/10 value by a fac-tor of \T1/pcr/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 1478) in paragraph at lines 15601--15601 \T1/ptm/m/n/10 if \T1/pcr/m/n/10 control$trace \T1/ptm/m/n/10 is pos-i-tive. De -faults to ev-ery 10 it-er-a-tions for \T1/pcr/m/n/10 "BFGS" \T1/ptm/m/n/10 and [1339] Underfull \hbox (badness 2042) in paragraph at lines 15626--15626 []\T1/ptm/m/n/10 indicates an er-ror from the \T1/pcr/m/n/10 "L-BFGS-B" \T1/ptm /m/n/10 method; see com-po-nent [1340] [1341] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15744--15744 [] \T1/pcr/m/n/9 control = list(maxit=30000, temp=2000, trace=TRUE , REPORT=500))[] Underfull \vbox (badness 10000) has occurred while \output is active [1342] Underfull \hbox (badness 2564) in paragraph at lines 15816--15827 []\T1/ptm/m/n/10 The func-tion \T1/pcr/m/n/10 f \T1/ptm/m/n/10 is never eval-u- ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m/n/1 0 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/10 t ol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 , Underfull \hbox (badness 1082) in paragraph at lines 15816--15827 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately \T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) \T1/ptm/m/n/10 and $\OML/cmm /m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa [1343] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15868--15868 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1344] [1345] [1346] [1347] [1348] Overfull \hbox (24.78088pt too wide) in paragraph at lines 16119--16119 [] \T1/pcr/m/n/10 alternative = c("two.sided", "less", "greater "), ...)[] Underfull \hbox (badness 1337) in paragraph at lines 16130--16133 []\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 [1349] [1350] [1351] [1352] [1353] [1354] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16415--16415 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1355] [1356] Overfull \hbox (42.78088pt too wide) in paragraph at lines 16498--16498 [] \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s d ist vs Leverage " * h[ii] / (1 - h[ii]))),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 16501--16501 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] Underfull \hbox (badness 2762) in paragraph at lines 16523--16527 \T1/ptm/m/n/10 oth-er-wise. If \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 , as by de-fau lt, a pos-si-ble short-ened ver-sion of [1357] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16611--16611 []\T1/pcr/m/n/9 plot(lm.SR <- lm(sr ~ pop15 + pop75 + dpi + ddpi, data = LifeC ycleSavings))[] [1358] [1359] [1360] [1361] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16780--16780 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 16789--16792 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1362] Underfull \hbox (badness 1107) in paragraph at lines 16844--16846 []\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate \T 1/pcr/m/n/10 x\T1/ptm/m/n/10 . De-faults to [1363] [1364] Overfull \hbox (20.58041pt too wide) in paragraph at lines 16985--16985 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1365] [1366] [1367] Underfull \hbox (badness 2343) in paragraph at lines 17147--17149 []\T1/ptm/m/n/10 the char-ac-ter string \T1/pcr/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/pcr/m/n/10 "Comparison of [1368] [1369] [1370] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1371] [1372] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1373] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] Underfull \hbox (badness 6859) in paragraph at lines 18008--18015 [][][]\T1/pcr/m/n/10 predict.glm[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predi ct.lm[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predict.loess[][][]\T1/ptm/m/n/1 0 , [][]\T1/pcr/m/n/10 predict.nls[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 pre dict.poly[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18016--18022 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/pcr/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/pcr/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] Overfull \hbox (6.78088pt too wide) in paragraph at lines 18886--18886 [] \T1/pcr/m/n/10 cs.ind = 1L:k, tst.ind = k + 1L, zap.ind = integ er(0),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 18889--18889 [] \T1/pcr/m/n/10 substr(colnames(x)[nc], 1L, 3L) == "Pr(",[] [1401] [1402] [1403] [1404] [1405] Underfull \hbox (badness 1337) in paragraph at lines 19181--19187 []\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 [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] Underfull \hbox (badness 10000) in paragraph at lines 19847--19850 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 5091) in paragraph at lines 19847--19850 \T1/pcr/m/n/10 cutree(hclust.obj, k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1427] Underfull \hbox (badness 8094) in paragraph at lines 20376--20379 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/pcr/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has \T1/pcr/m/n/10 y[j] = [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] Underfull \hbox (badness 1412) in paragraph at lines 21116--21118 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1442] [1443] [1444] [1445] [1446] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21445--21445 []\T1/pcr/m/n/9 (s2 <- smooth.spline(y18, control = list(trace=TRUE,tol=1e-6, low= -1.5)))[] [1447] [1448] Overfull \hbox (0.78088pt too wide) in paragraph at lines 21570--21570 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail,[] [1449] [1450] [1451] [1452] [1453] [1454] Overfull \hbox (60.78088pt too wide) in paragraph at lines 21907--21907 []\T1/pcr/m/n/10 splinefun(x, y = NULL, method = c("fmm", "periodic", "natural ", "monoH.FC"),[] [1455] [1456] [1457] Overfull \hbox (31.3804pt too wide) in paragraph at lines 22053--22053 []\T1/pcr/m/n/9 legend("topleft", paste("splinefun( \"", c("fmm", "monoH.CS"), "\" )", sep=\TS1/pcr/m/n/9 ''\T1/pcr/m/n/9 ),[] [1458] Underfull \hbox (badness 3240) in paragraph at lines 22148--22152 [][][]\T1/pcr/m/n/10 nls[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 selfStart[][] []\T1/ptm/m/n/10 ; \T1/pcr/m/n/10 example(SSasympOff) \T1/ptm/m/n/10 gives grap h show-ing the \T1/pcr/m/n/10 SSasympOff [1459] [1460] [1461] [1462] Underfull \hbox (badness 10000) in paragraph at lines 22362--22365 \T1/pcr/m/n/10 exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input)-exp(-exp(lKa)*input)) / [1463] Overfull \hbox (15.18042pt too wide) in paragraph at lines 22381--22381 []\T1/pcr/m/n/9 SSfol( Theoph.1$Dose, Theoph.1$Time, lKe, lKa, lCl ) # respons e and gradient[] [1464] [1465] Underfull \hbox (badness 2922) in paragraph at lines 22516--22521 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/pcr/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1466] Underfull \hbox (badness 2922) in paragraph at lines 22564--22569 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/pcr/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1467] [1468] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22647--22647 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22649--22649 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] [1469] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22700--22700 []\T1/pcr/m/n/10 stat.anova(table, test = c("Chisq", "F", "Cp"), scale, df.sca le, n)[] [1470] [1471] [1472] [1473] Underfull \hbox (badness 4353) in paragraph at lines 22958--22962 []\T1/ptm/m/n/10 A func-tion of class \T1/pcr/m/n/10 "stepfun"\T1/ptm/m/n/10 , say \T1/pcr/m/n/10 fn\T1/ptm/m/n/10 . There are meth-ods avail-able for sum- Underfull \hbox (badness 1342) in paragraph at lines 22958--22962 \T1/ptm/m/n/10 ma-riz-ing (\T1/pcr/m/n/10 "summary(.)"\T1/ptm/m/n/10 ), rep-re- sent-ing (\T1/pcr/m/n/10 "print(.)"\T1/ptm/m/n/10 ) and plot-ting (\T1/pcr/m/n/ 10 "plot(.)"\T1/ptm/m/n/10 , see [1474] [1475] [1476] [1477] Overfull \hbox (6.78088pt too wide) in paragraph at lines 23161--23161 [] \T1/pcr/m/n/10 main = NULL, range.bars = TRUE, ..., col.range = "light gray")[] [1478] [1479] [1480] [1481] [1482] Underfull \hbox (badness 3396) in paragraph at lines 23447--23449 []\T1/ptm/m/n/10 an ob-ject of class \T1/pcr/m/n/10 "summary.glm"\T1/ptm/m/n/10 , usu-ally, a re-sult of a call to [1483] [1484] [1485] Underfull \hbox (badness 2237) in paragraph at lines 23613--23615 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/p cr/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1486] [1487] [1488] Underfull \hbox (badness 2591) in paragraph at lines 23759--23761 []\T1/ptm/m/n/10 an ob-ject of class \T1/pcr/m/n/10 "summary.nls"\T1/ptm/m/n/10 , usu-ally the re-sult of a call to [1489] Underfull \hbox (badness 2237) in paragraph at lines 23803--23806 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/p cr/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1490] [1491] [1492] Underfull \hbox (badness 3407) in paragraph at lines 23966--23970 []\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m ented\T1/ptm/m/n/10 , see \T1/pcr/m/n/10 corr \T1/ptm/m/n/10 be-low) [1493] [1494] Underfull \hbox (badness 1337) in paragraph at lines 24092--24096 []\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 [1495] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1496] [1497] [1498] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24335--24335 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1499] Underfull \hbox (badness 1616) in paragraph at lines 24358--24361 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1500] [1501] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24474--24474 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1502] Underfull \hbox (badness 2205) in paragraph at lines 24552--24557 []\T1/ptm/m/n/10 If a \T1/pcr/m/n/10 specials \T1/ptm/m/n/10 ar-gu-ment was giv en to [][]\T1/pcr/m/n/10 terms.formula[][][] \T1/ptm/m/n/10 there is a [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] Underfull \hbox (badness 10000) in paragraph at lines 25012--25016 []\T1/ptm/m/n/10 The \T1/pcr/m/n/10 tsp \T1/ptm/m/n/10 at-tribute was pre-vi-ou sly de-scribed here as \T1/pcr/m/n/10 c(start(x), end(x), [1512] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25082--25082 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25083--25083 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] [1521] Underfull \hbox (badness 1337) in paragraph at lines 25527--25531 []\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 [1522] [1523] [1524] [1525] Underfull \hbox (badness 1043) in paragraph at lines 25746--25749 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/pcr/m/n/10 -pweibull(t, a, b, lower = Overfull \hbox (4.38043pt too wide) in paragraph at lines 25768--25768 []\T1/pcr/m/n/9 all.equal(pweibull(x, 2.5, pi, lower.tail=FALSE, log.p=TRUE), -(x/pi)^2.5,[] [1526] [1527] [1528] Underfull \hbox (badness 1337) in paragraph at lines 25887--25891 []\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 [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536]) (./tools-pkg.tex Chapter 8. Overfull \hbox (36.78088pt too wide) in paragraph at lines 33--33 []\T1/pcr/m/n/10 buildVignettes(package, dir, lib.loc = NULL, quiet = TRUE, cl ean = TRUE)[] [1537] Underfull \hbox (badness 2809) in paragraph at lines 87--92 []\T1/pcr/m/n/10 Adobe_glyphs \T1/ptm/m/n/10 in-clude all the Adobe glyph names which cor-re-spond to sin-gle Uni- Underfull \hbox (badness 1057) in paragraph at lines 87--92 \T1/ptm/m/n/10 code char-ac-ters. It is sorted by Uni-code point and within a p oint al-pha-bet-i-cally on the Underfull \hbox (badness 10000) in paragraph at lines 94--95 [][][]$\T1/pcr/m/n/10 http : / / partners . adobe . com / public / developer / en / opentype / glyphlist . [1538] [1539] [1540] [1541] [1542] [1543] Underfull \hbox (badness 10000) in paragraph at lines 407--410 []\T1/pcr/m/n/10 codocClasses \T1/ptm/m/n/10 and \T1/pcr/m/n/10 codocData \T1/p tm/m/n/10 re-turn ob-jects of class \T1/pcr/m/n/10 "codocClasses" \T1/ptm/m/n/1 0 and [1544] [1545] Overfull \hbox (54.78088pt too wide) in paragraph at lines 476--476 [] \T1/pcr/m/n/10 installed = installed.packages(lib.loc, fields = "Enhances"))[] Underfull \hbox (badness 7981) in paragraph at lines 482--485 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1546] [1547] [1548] [1549] [1550] [1551] [1552] Overfull \hbox (12.78088pt too wide) in paragraph at lines 861--861 [] \T1/pcr/m/n/10 depLevel = c("Depends", "Imports", "Sugg ests"))[] [1553] Overfull \hbox (18.78088pt too wide) in paragraph at lines 894--894 []\T1/pcr/m/n/10 parse_Rd(file, srcfile = NULL, encoding = "unknown", verbose = FALSE)[] [1554] [1555]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.Rd2txt}) has been already used, duplicate ignored \relax l.1046 \aliasA{Rd2txt}{Rd2HTML}{Rd2txt} Overfull \hbox (42.78088pt too wide) in paragraph at lines 1061--1061 []\T1/pcr/m/n/10 Rd2latex(Rd, out = "", defines = .Platform$OS.type, encoding = "unknown")[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1063--1063 []\T1/pcr/m/n/10 Rd2ex(Rd, out = "", defines = .Platform$OS.type, encoding = " unknown")[] [1556] Underfull \hbox (badness 1072) in paragraph at lines 1078--1080 []\T1/pcr/m/n/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-to r of links, as re-turned by [1557] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1143--1143 []\T1/pcr/m/n/9 con <- textConnection(toolsRd[[grep("Rd2HTML.Rd", names(toolsR d))]], "rt")[] [1558] [1559] [1560] [1561] [1562] [1563] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1452--1452 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"))[] Underfull \hbox (badness 2932) in paragraph at lines 1481--1484 []\T1/pcr/m/n/10 testInstalledBasic \T1/ptm/m/n/10 runs the ba-sic tests, if in -stalled. This should be run with [1564] [1565] [1566] [1567] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1674--1674 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE)[] Underfull \hbox (badness 1596) in paragraph at lines 1679--1682 []\T1/ptm/m/n/10 Character vec-tor de-scrib-ing the lo-ca-tion of the repos-i-t ory (di-rec-tory in- Underfull \hbox (badness 2103) in paragraph at lines 1679--1682 \T1/ptm/m/n/10 clud-ing source or bi-nary pack-ages) to gen-er-ate the `\T1/phv /m/n/10 PACKAGES\T1/ptm/m/n/10 ' and Underfull \hbox (badness 3895) in paragraph at lines 1683--1690 \T1/pcr/m/n/10 "Package"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Bundle"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Priority"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Version"\T1/ptm/m/n /10 , \T1/pcr/m/n/10 "Depends"\T1/ptm/m/n/10 , [1568] Underfull \hbox (badness 2680) in paragraph at lines 1711--1714 []\T1/ptm/m/n/10 Invisibly re-turns the num-ber of pack-ages de-scribed in the re-sult-ing `\T1/phv/m/n/10 PACKAGES\T1/ptm/m/n/10 ' and Underfull \hbox (badness 3803) in paragraph at lines 1727--1730 []\T1/ptm/m/n/10 See [][]\T1/pcr/m/n/10 read.dcf[][][] \T1/ptm/m/n/10 and [][]\ T1/pcr/m/n/10 write.dcf[][][] \T1/ptm/m/n/10 for read-ing `\T1/phv/m/n/10 DESCR IPTION\T1/ptm/m/n/10 ' files and writ-ing the [1569] [1570]) (./utils-pkg.tex Chapter 9. [1571] [1572] [1573] [1574] [1575] Overfull \hbox (24.78088pt too wide) in paragraph at lines 287--287 []\T1/pcr/m/n/10 browseURL(url, browser = getOption("browser"), encodeIfNeeded = FALSE)[] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1859) in paragraph at lines 506--515 []\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b e quite large the com- [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] Underfull \hbox (badness 1874) in paragraph at lines 1158--1161 []\T1/ptm/m/n/10 To just look in the `\T1/phv/m/n/10 data\T1/ptm/m/n/10 ' di-re c-tory of the cur-rent work-ing di-rec-tory, set \T1/pcr/m/n/10 package = Overfull \hbox (15.18042pt too wide) in paragraph at lines 1192--1192 []\T1/pcr/m/n/9 data(USArrests, "VADeaths") # load the data sets \TS1/pcr/m/n /9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 '\ T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] [1592] Underfull \hbox (badness 2452) in paragraph at lines 1260--1263 []\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class \T1 /pcr/m/n/10 R_dataentry\T1/ptm/m/n/10 . Re-sources [1593] [1594] [1595] [1596] [1597] [1598] Underfull \hbox (badness 1072) in paragraph at lines 1596--1602 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/pcr/m/n/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the Underfull \hbox (badness 1377) in paragraph at lines 1596--1602 \T1/pcr/m/n/10 internet.info \T1/ptm/m/n/10 op-tion. The de-tails de-pend on th e plat-form and scheme, but set-ting Underfull \hbox (badness 1057) in paragraph at lines 1620--1634 []\T1/ptm/m/n/10 Proxies can be spec-i-fied via en-vi-ron-ment vari-ables. Set- ting \T1/pcr/m/n/10 "no_proxy" \T1/ptm/m/n/10 to \T1/pcr/m/n/10 "*" \T1/ptm/m/n /10 stops Underfull \hbox (badness 1742) in paragraph at lines 1620--1634 \T1/ptm/m/n/10 fail-ing that, the all upper-case ver-sion) is con-sulted and if non-empty used as a proxy Underfull \hbox (badness 1360) in paragraph at lines 1620--1634 \T1/ptm/m/n/10 site. For FTP trans-fers, the user-name and pass-word on the pro xy can be spec-i-fied by [1599] Underfull \hbox (badness 1231) in paragraph at lines 1635--1641 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [1600] [1601] Underfull \hbox (badness 1565) in paragraph at lines 1788--1792 []\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of [1602] [1603] Underfull \hbox (badness 3758) in paragraph at lines 1892--1899 []\T1/ptm/m/n/10 logical (or \T1/pcr/m/n/10 "default"\T1/ptm/m/n/10 ) in-di-cat -ing if [][]\T1/pcr/m/n/10 devAskNewPage[][][](ask=TRUE) [1604] [1605] [1606] [1607] [1608]pdfTeX warning (ext4): destination with the s ame identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.2113 ...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.2113 ...mat Unordered and Ordered Lists}{format} [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2744--2744 [] \T1/pcr/m/n/9 ## the arguments (one integer, the ot her numeric)[] [1620] Underfull \hbox (badness 10000) in paragraph at lines 2833--2837 []\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 http : / / www . r-[]p roject . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also [1621] Underfull \hbox (badness 1502) in paragraph at lines 2875--2881 []\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 2875--2881 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [1622] [1623] [1624] [1625] [1626] [1627] Underfull \hbox (badness 5133) in paragraph at lines 3241--3245 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's Underfull \hbox (badness 1622) in paragraph at lines 3248--3251 []\T1/pcr/m/n/10 installed.packages \T1/ptm/m/n/10 scans the `\T1/phv/m/n/10 DE SCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along [1628] Underfull \hbox (badness 6047) in paragraph at lines 3262--3269 []\T1/ptm/m/n/10 A ma-trix with one row per pack-age, row names the pack-age na mes and col-umn [1629] [1630] [1631] [1632] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3493--3493 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE)[] [1633] [1634] [1635] Underfull \hbox (badness 10000) in paragraph at lines 3642--3644 []\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if [1636] [1637] [1638] [1639] [1640] [1641] [1642] Underfull \hbox (badness 1087) in paragraph at lines 4043--4048 []\T1/ptm/m/n/10 If a `\T1/phv/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [1643] [1644] Underfull \hbox (badness 10000) in paragraph at lines 4135--4138 \T1/ptm/m/n/10 plus \T1/pcr/m/n/10 "Status"\T1/ptm/m/n/10 , a fac-tor with lev- els \T1/pcr/m/n/10 c("installed", "not [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1163) in paragraph at lines 4764--4767 []\T1/ptm/m/n/10 the to-ken that was (or, is to be) com-pleted, as set by the l ast call to [1655] [1656] Underfull \hbox (badness 1072) in paragraph at lines 4873--4881 \T1/pcr/m/n/10 = FALSE\T1/ptm/m/n/10 . Oth-er-wise, try-ing to com-plete \T1/pc r/m/n/10 foo@ba \T1/ptm/m/n/10 will eval-u-ate \T1/pcr/m/n/10 foo\T1/ptm/m/n/10 , try-ing to com-plete [1657] [1658] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5023--5023 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header= TRUE, tra nspose=TRUE)[] [1659] [1660] [1661] [1662] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5244--5244 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] [1663] Underfull \hbox (badness 1077) in paragraph at lines 5308--5311 []\T1/ptm/m/n/10 Using \T1/pcr/m/n/10 row.names = NULL \T1/ptm/m/n/10 forces ro w num-ber-ing. Miss-ing or \T1/pcr/m/n/10 NULL [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] Underfull \hbox (badness 10000) in paragraph at lines 5820--5824 \T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral s \ &oldid = 78252134$[][]\T1/ptm/m/n/10 . [1673] [1674] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5926--5926 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0)[] [1675] [1676] [1677] [1678] Underfull \hbox (badness 6725) in paragraph at lines 6135--6144 \T1/ptm/m/n/10 (\T1/pcr/m/n/10 score\T1/ptm/m/n/10 , \T1/pcr/m/n/10 date:late \ T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first, Underfull \hbox (badness 6428) in paragraph at lines 6135--6144 \T1/pcr/m/n/10 date:early \T1/ptm/m/n/10 for ear-li-est first, \T1/pcr/m/n/10 s ubject \T1/ptm/m/n/10 for sub-ject in al-pha-bet-i- Underfull \hbox (badness 10000) in paragraph at lines 6135--6144 \T1/ptm/m/n/10 cal or-der, \T1/pcr/m/n/10 subject:descending \T1/ptm/m/n/10 for re-verse al-pha-bet-i-cal or-der, Underfull \hbox (badness 1997) in paragraph at lines 6135--6144 \T1/pcr/m/n/10 from \T1/ptm/m/n/10 or \T1/pcr/m/n/10 from:descending \T1/ptm/m/ n/10 for sender (when ap-pli-ca-ble), \T1/pcr/m/n/10 size \T1/ptm/m/n/10 or [1679] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6173--6173 []\T1/pcr/m/n/9 ## Search in R-devel archive and recent mail (and store the qu ery-string):[] [1680] Underfull \hbox (badness 10000) in paragraph at lines 6251--6253 [][][]$\T1/pcr/m/n/10 http : / / en . wikipedia . org / wiki / Ctags$[][]\T1/pt m/m/n/10 , [][]$\T1/pcr/m/n/10 http : / / www . gnu . org / software / [1681] [1682] [1683] [1684] [1685] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6531--6531 []\T1/pcr/m/n/10 select.list(list, preselect = NULL, multiple = FALSE, title = NULL)[] [1686] [1687] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6611--6611 []\T1/pcr/m/n/10 setRepositories(graphics = getOption("menu.graphics"), ind = NULL)[] [1688] [1689] [1690] [1691] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6835--6835 [] \T1/pcr/m/n/10 format(x, trim=TRUE, drop0trailing=TRU E, ...))[] Underfull \hbox (badness 5970) in paragraph at lines 6862--6865 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive Underfull \hbox (badness 2600) in paragraph at lines 6862--6865 [][]\T1/pcr/m/n/10 options[][][]("width")\T1/ptm/m/n/10 ; note that this has on ly a weak ef-fect, un-less [1692] [1693] [1694] [1695] (/usr/share/texmf-texlive/tex/latex/base/latin1.def ) Underfull \hbox (badness 5504) in paragraph at lines 7086--7089 []\T1/ptm/m/n/10 An ob-ject of class \T1/pcr/m/n/10 SweaveSyntax \T1/ptm/m/n/10 or a char-ac-ter string with its Underfull \hbox (badness 3635) in paragraph at lines 7086--7089 \T1/ptm/m/n/10 name. The de-fault in-stal-la-tion pro-vides \T1/pcr/m/n/10 Swea veSyntaxNoweb \T1/ptm/m/n/10 and [1696] Underfull \hbox (badness 1178) in paragraph at lines 7110--7122 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, a num-ber of hook func- tions can be ex-e-cuted. If [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 2521) in paragraph at lines 7513--7515 []\T1/ptm/m/n/10 an ob-ject list-ing pack-ages avail-able at the repos-i-to-rie s as re-turned by [1704] Overfull \hbox (24.87935pt too wide) in paragraph at lines 7564--7568 []\T1/ptm/m/n/10 by de-fault all in-stalled pack-ages, [][]\T1/pcr/m/n/10 insta lled.packages[][][](lib.loc=lib.loc)\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 7569--7572 []\T1/ptm/m/n/10 (for \T1/pcr/m/n/10 update.packages\T1/ptm/m/n/10 ). Ar-gu-men ts such as \T1/pcr/m/n/10 destdir\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 7569--7572 \T1/pcr/m/n/10 installWithVers \T1/ptm/m/n/10 and \T1/pcr/m/n/10 dependencies \ T1/ptm/m/n/10 to be passed to [1705] [1706] [1707] [1708] [1709] [1710] [1711] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7995--7995 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep = " ",[] [1712] Underfull \hbox (badness 1454) in paragraph at lines 8020--8024 []\T1/ptm/m/n/10 the char-ac-ter(s) to print at the end of each line (row). For ex-am-ple, [1713] [1714] Underfull \hbox (badness 3872) in paragraph at lines 8155--8157 []\T1/ptm/m/n/10 character string: the method to be used, an empty string in-di -cates [1715] [1716]) No file refman.ind. (./refman.aux) ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.tkProgressBar} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.tk.Rul.select.list} has been referenced but doe s not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.Rul.test} has been referenced but does n ot exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.wilcox.exact} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.simint} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been 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name{Rfn..row.Rul.names.Rul.info} has been referenced bu t does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.quotes} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.cut2} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.base.Rdash.defunct} has been referenced but doe s not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.survival} has been referenced but does not exis t, replaced by a fixed one {/usr/share/texmf-texlive/fonts/enc/dvips/base/8r.enc} Output written on refman.pdf (1719 pages, 7080407 bytes). Transcript written on refman.log. This is makeindex, version 2.14 [02-Oct-2002] (kpathsea + Thai support). Scanning input file refman.idx..............done (10169 entries accepted, 7 rejected). Sorting entries.......................................................................................................done (149536 comparisons). Generating output file refman.ind.............done (7559 lines written, 34 warnings). Output written in refman.ind. Transcript written in refman.ilg. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) %&-line parsing enabled. entering extended mode (./refman.tex LaTeX2e <2005/12/01> Babel and hyphenation patterns for english, usenglishmax, dumylang, noh yphenation, loaded. (/usr/share/texmf-texlive/tex/latex/base/book.cls Document Class: book 2005/09/16 v1.4f Standard LaTeX document class (/usr/share/texmf-texlive/tex/latex/base/bk10.clo)) (../../share/texmf/Rd.sty (/usr/share/texmf-texlive/tex/latex/base/ifthen.sty) (/usr/share/texmf-texlive/tex/latex/tools/longtable.sty) (/usr/share/texmf-texlive/tex/latex/tools/bm.sty) (/usr/share/texmf-texlive/tex/latex/base/alltt.sty) (/usr/share/texmf-texlive/tex/latex/tools/verbatim.sty) (/usr/share/texmf-texlive/tex/latex/ltxmisc/url.sty) (../../share/texmf/upquote.sty (/usr/share/texmf-texlive/tex/latex/base/textcomp.sty (/usr/share/texmf-texlive/tex/latex/base/ts1enc.def))) NOT loading ae (/usr/share/texmf-texlive/tex/latex/base/fontenc.sty (/usr/share/texmf-texlive/tex/latex/base/t1enc.def)) (/usr/share/texmf-texlive/tex/latex/psnfss/times.sty) NOT loading lmodern (/usr/share/texmf-texlive/tex/latex/graphics/color.sty (/etc/texmf/tex/latex/config/color.cfg) (/usr/share/texmf-texlive/tex/latex/pdftex-def/pdftex.def)) (/usr/share/texmf-texlive/tex/latex/hyperref/hyperref.sty (/usr/share/texmf-texlive/tex/latex/graphics/keyval.sty) (/usr/share/texmf-texlive/tex/latex/hyperref/pd1enc.def) (/etc/texmf/tex/latex/config/hyperref.cfg) (/usr/share/texmf-texlive/tex/latex/oberdiek/kvoptions.sty) Implicit mode ON; LaTeX internals redefined ) *hyperref using default driver hpdftex* (/usr/share/texmf-texlive/tex/latex/hyperref/hpdftex.def) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 315. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 315. ) (/usr/share/texmf-texlive/tex/latex/base/inputenc.sty (/usr/share/texmf-texlive/tex/latex/base/latin1.def)) (/usr/share/texmf-texlive/tex/latex/base/makeidx.sty) Writing index file refman.idx (./refman.aux) (/usr/share/texmf-texlive/tex/latex/base/ts1cmr.fd) (/usr/share/texmf-texlive/tex/latex/psnfss/t1ptm.fd) (/usr/share/texmf-texlive/tex/latex/hyperref/nameref.sty (/usr/share/texmf-texlive/tex/latex/oberdiek/refcount.sty)) (./refman.out) (./refman.out) (/usr/share/texmf-texlive/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texmf-texlive/tex/latex/psnfss/ts1ptm.fd) [1{/var/l ib/texmf/fonts/map/pdftex/updmap/pdftex.map}] (./refman.toc (/usr/share/texmf-texlive/tex/latex/psnfss/t1pcr.fd) [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24]) [25] [26] (./base-pkg.tex Chapter 1. [1] Underfull \hbox (badness 1248) in paragraph at lines 71--78 \T1/pcr/m/n/10 base^neg.ulp.digits \T1/ptm/m/n/10 if \T1/pcr/m/n/10 base \T1/pt m/m/n/10 is 2 or \T1/pcr/m/n/10 round \T1/ptm/m/n/10 is 0; oth-er-wise, it Underfull \hbox (badness 1117) in paragraph at lines 81--86 []\T1/ptm/m/n/10 the largest fi-nite floating-point num-ber. Typ-i-cally, it is equal to \T1/pcr/m/n/10 (1 - [2] [3] Underfull \hbox (badness 10000) in paragraph at lines 206--209 [][][]\T1/pcr/m/n/10 R.version[][][] \T1/ptm/m/n/10 and [][]\T1/pcr/m/n/10 Sys. info[][][] \T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-lar, [4] Underfull \hbox (badness 2359) in paragraph at lines 247--250 []\T1/ptm/m/n/10 logical: should \T1/pcr/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [5] [6] [7] [8] [9] (/usr/share/texmf-texlive/tex/latex/psnfss/ts1pcr.fd) [10] Overfull \hbox (0.78088pt too wide) in paragraph at lines 582--582 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F ALSE)[] [11] [12] [13] [14] Underfull \hbox (badness 1838) in paragraph at lines 808--811 []\T1/ptm/m/n/10 If the calls to \T1/pcr/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/pcr/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Underfull \hbox (badness 10000) in paragraph at lines 1355--1357 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [25] [26] [27] [28] [29] [30] [31] Underfull \hbox (badness 5878) in paragraph at lines 1798--1803 []\T1/ptm/m/n/10 The ex-trac-tion func-tion first looks for an ex-act match to \T1/pcr/m/n/10 which \T1/ptm/m/n/10 amongst the at- Underfull \hbox (badness 10000) in paragraph at lines 1798--1803 \T1/ptm/m/n/10 tributes of \T1/pcr/m/n/10 x\T1/ptm/m/n/10 , then (un-less \T1/p cr/m/n/10 exact = TRUE\T1/ptm/m/n/10 ) a unique par-tial match. (Set-ting [32] [33] [34] [35] [36] Underfull \hbox (badness 5147) in paragraph at lines 2052--2056 []\T1/ptm/m/n/10 The orig-i-nal help page for these func-tions is of-ten avail- able at \T1/pcr/m/n/10 help("oldName- [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 10000) in paragraph at lines 2495--2497 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 2521) in paragraph at lines 3369--3371 []\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 [60] [61] [62] [63] [64] Underfull \hbox (badness 1270) in paragraph at lines 3665--3673 []\T1/ptm/m/n/10 When a generic func-tion \T1/pcr/m/n/10 fun \T1/ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute \T1/pcr/m/n/10 c("first", [65] [66] [67] [68] [69] [70] [71] [72] Underfull \hbox (badness 2443) in paragraph at lines 4117--4123 []\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i n-tro-duc-tion see [][]$\T1/pcr/m/n/10 http : / / Overfull \hbox (4.38043pt too wide) in paragraph at lines 4141--4141 []\T1/pcr/m/n/9 z <- c(32:126, 160:255) # range of most 8-bit charsets, Latin- 1 in Unicode[] [73] [74] [75] [76] [77] Underfull \hbox (badness 1635) in paragraph at lines 4408--4411 []\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class \T1/pcr/m/n/1 0 interrupt \T1/ptm/m/n/10 that in-her-its di-rectly from class Underfull \hbox (badness 3009) in paragraph at lines 4412--4415 []\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. They can be es-tab-lished us-ing Underfull \hbox (badness 1102) in paragraph at lines 4429--4442 []\T1/ptm/m/n/10 New restarts for \T1/pcr/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in Underfull \hbox (badness 1308) in paragraph at lines 4443--4451 []\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i s \T1/pcr/m/n/10 interactive\T1/ptm/m/n/10 . This should [78] [79] [80] [81] Underfull \hbox (badness 10000) in paragraph at lines 4711--4721 []\T1/ptm/m/n/10 A note on \T1/pcr/m/n/10 file:// \T1/ptm/m/n/10 URLs. The most gen-eral form (from RFC1738) is [82] Underfull \hbox (badness 5817) in paragraph at lines 4782--4788 []\T1/ptm/m/n/10 Most block-ing op-er-a-tions on URLs and sock-ets are sub-ject to the time-out set by [83] Underfull \hbox (badness 10000) in paragraph at lines 4800--4807 \T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http : / / standards . freedesktop . org / Underfull \hbox (badness 10000) in paragraph at lines 4800--4807 \T1/pcr/m/n/10 clipboards-[]spec / clipboards-[]latest . txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as Underfull \hbox (badness 1735) in paragraph at lines 4800--4807 \T1/pcr/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as \ T1/pcr/m/n/10 "X11_secondary"\T1/ptm/m/n/10 . On most sys- Underfull \hbox (badness 3668) in paragraph at lines 4843--4850 []\T1/ptm/m/n/10 Functions mak-ing di-rect use of con-nec-tions are [][]\T1/pcr /m/n/10 readLines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 readBin[][][]\T1/ptm /m/n/10 , [][]\T1/pcr/m/n/10 readChar[][][]\T1/ptm/m/n/10 , [84] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4897--4897 []\T1/pcr/m/n/9 ## fifo example -- may fail, e.g. on Cygwin, even with OS supp ort for fifos[] Underfull \vbox (badness 3803) has occurred while \output is active [85] [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) in paragraph at lines 5242--5244 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 8132) in paragraph at lines 5580--5584 []\T1/ptm/m/n/10 logical: should char-ac-ter vec-tors be con-verted to fac-tors ? The Underfull \hbox (badness 4543) in paragraph at lines 5580--5584 \T1/ptm/m/n/10 `factory-fresh' de-fault is \T1/pcr/m/n/10 TRUE\T1/ptm/m/n/10 , but this can be changed by set-ting Underfull \hbox (badness 10000) in paragraph at lines 5597--5608 []\T1/pcr/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing Underfull \hbox (badness 2875) in paragraph at lines 5597--5608 [][]\T1/pcr/m/n/10 as.data.frame[][][](optional=TRUE)\T1/ptm/m/n/10 . As that i s a generic func-tion, meth-ods can be Overfull \hbox (4.63962pt too wide) in paragraph at lines 5629--5633 []\T1/pcr/m/n/10 default.stringsAsFactors \T1/ptm/m/n/10 is a util-ity that tak es [][]\T1/pcr/m/n/10 getOption[][][]("stringsAsFactors") [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 6224--6228 \T1/pcr/m/n/10 trace("plot", browser, exit=browser, signature = c("track", [108] [109] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6334--6334 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(1+2, "y", {cat(" HO ! "); pi+2})[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6350--6350 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] [110] [111] Underfull \hbox (badness 4254) in paragraph at lines 6499--6499 []\T1/ptm/m/n/10 If the ob-ject has at-tributes (other than a \T1/pcr/m/n/10 so urce \T1/ptm/m/n/10 at-tribute), use [112] [113] Underfull \hbox (badness 1603) in paragraph at lines 6593--6596 []\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t er-mi-nant if [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] Underfull \hbox (badness 2150) in paragraph at lines 7571--7574 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 5316) in paragraph at lines 7583--7591 \T1/ptm/m/n/10 and \T1/pcr/m/n/10 anyDuplicated\T1/ptm/m/n/10 , \T1/pcr/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al-ized'' short-cut for [131] Underfull \hbox (badness 10000) in paragraph at lines 7592--7594 []\T1/pcr/m/n/10 duplicated(x, fromLast=TRUE) \T1/ptm/m/n/10 is equiv-a-lent to but faster than [132] [133] [134] Underfull \hbox (badness 10000) in paragraph at lines 7783--7786 []\T1/ptm/m/n/10 Do not use \T1/pcr/m/n/10 dyn.unload \T1/ptm/m/n/10 on a DLL l oaded by [][]\T1/pcr/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 : use [135] [136] [137] [138] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [139] [140] [141] [142] [143] Underfull \hbox (badness 5288) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val ue of [144] Underfull \hbox (badness 1152) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 Options for \T1/pcr/m/n/10 latex \T1/ptm/m/n/10 pro-cess-ing o f \T1/pcr/m/n/10 Rd \T1/ptm/m/n/10 files. Used by \T1/pcr/m/n/10 R CMD Rd2dvi \ T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [145] [146] [147] [148] Underfull \hbox (badness 10000) in paragraph at lines 8644--8646 []\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing \T1/pcr/ m/n/10 where \T1/ptm/m/n/10 as [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] Underfull \hbox (badness 10000) in paragraph at lines 10058--10062 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [172] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10101--10101 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [173] Underfull \hbox (badness 10000) in paragraph at lines 10156--10159 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ex ists[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 list.files[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 unlink[][ ][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 basename[][][]\T1/ptm/m/n/10 , Overfull \hbox (0.78088pt too wide) in paragraph at lines 10175--10175 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE)[] Underfull \hbox (badness 3965) in paragraph at lines 10199--10203 []\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, [174] [175] [176] Overfull \vbox (4.54631pt too high) has occurred while \output is active [177] [178] [179] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10575--10575 [] \T1/pcr/m/n/10 decimal.mark = ".", zero.print = NULL, drop0trailing = FAL SE, ...)[] [180] Underfull \hbox (badness 1168) in paragraph at lines 10613--10617 []\T1/ptm/m/n/10 Either a log-i-cal spec-i-fy-ing whether el-e-ments of a real or com-plex vec- Underfull \hbox (badness 2012) in paragraph at lines 10613--10617 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see [181] Underfull \hbox (badness 6944) in paragraph at lines 10691--10694 [][][]\T1/pcr/m/n/10 formatC[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 paste[][] []\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T 1/pcr/m/n/10 sprintf[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 print[][][]\T1/pt m/m/n/10 , [][]\T1/pcr/m/n/10 prettyNum[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/1 0 toString[][][]\T1/ptm/m/n/10 , [182] Underfull \hbox (badness 2865) in paragraph at lines 10757--10760 []\T1/ptm/m/n/10 A char-ac-ter string. If not spec-i-fied, it will try \T1/pcr/ m/n/10 "%Y-%m-%d" \T1/ptm/m/n/10 then [183] [184] [185] [186] [187] Underfull \hbox (badness 1024) in paragraph at lines 11009--11013 []\T1/pcr/m/n/10 "f" \T1/ptm/m/n/10 gives num-bers in the usual \T1/pcr/m/n/10 xxx.xxx \T1/ptm/m/n/10 for-mat; \T1/pcr/m/n/10 "e" \T1/ptm/m/n/10 and \T1/pcr/m /n/10 "E" \T1/ptm/m/n/10 give [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] Underfull \hbox (badness 2418) in paragraph at lines 11923--11927 []\T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \T1/pcr/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/pcr/m/n/10 CallRoutine\T1/ptm/m/n/ 10 , Underfull \hbox (badness 6510) in paragraph at lines 11930--11933 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 name \T1/ptm/m/n/10 con-tains only one sym-b ol name and \T1/pcr/m/n/10 unlist \T1/ptm/m/n/10 is \T1/pcr/m/n/10 TRUE\T1/ptm/ m/n/10 , then the sin-gle [204] Underfull \hbox (badness 2326) in paragraph at lines 11955--11962 [][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr /m/n/10 is.loaded[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .C[][][]\T1/ptm/m/n/ 10 , [][]\T1/pcr/m/n/10 .Fortran[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .Exte rnal[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .Call[][][]\T1/ptm/m/n/10 , [205] [206] [207] [208] [209] [210] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12294--12294 [] \T1/pcr/m/n/10 perl = FALSE, value = FALSE, fixed = FALSE, useBytes = F ALSE,[] Underfull \hbox (badness 1867) in paragraph at lines 12317--12321 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] Underfull \hbox (badness 1014) in paragraph at lines 12905--12907 []\T1/ptm/m/n/10 Not all plat-forms sup-port these func-tions, al-though al-mos t all sup-port \T1/pcr/m/n/10 iconv\T1/ptm/m/n/10 . See also [221] [222] [223] [224] [225] Underfull \hbox (badness 1072) in paragraph at lines 13168--13171 []\T1/ptm/m/n/10 Sometimes it is bet-ter to use a con-struc-tion such as \T1/pc r/m/n/10 (tmp <- yes; tmp[!test] <- [226] [227] [228] [229] Underfull \hbox (badness 4217) in paragraph at lines 13403--13412 [][][]\T1/pcr/m/n/10 length[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 length<-[] [][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 dimnames[][][]\T1/ptm/m/n/10 , [][]\T1/ pcr/m/n/10 dimnames<-[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 dim[][][]\T1/ptm /m/n/10 , [][]\T1/pcr/m/n/10 dim<-[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 nam es[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 names<-[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 2057) in paragraph at lines 13418--13433 [][][]\T1/pcr/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [230] [231] [232] [233] [234] [235] [236] [237] [238] Underfull \hbox (badness 4739) in paragraph at lines 13943--13945 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 10000) in paragraph at lines 14339--14341 []\T1/pcr/m/n/10 sapply(*, simplify = FALSE, USE.NAMES = FALSE) \T1/ptm/m/n/10 is equiv-a-lent to [246] Underfull \hbox (badness 1975) in paragraph at lines 14398--14401 []\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to [247] [248] [249] [250] [251] [252] [253] Underfull \hbox (badness 10000) in paragraph at lines 14786--14790 []\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use Underfull \hbox (badness 1454) in paragraph at lines 14786--14790 [][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][]\T1/ptm/m/n/10 : this wi ll sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self [254] Underfull \hbox (badness 1221) in paragraph at lines 14833--14838 []\T1/ptm/m/n/10 Normally \T1/pcr/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of loaded pack-ages, but \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 o r \T1/pcr/m/n/10 FALSE [255] Underfull \hbox (badness 10000) in paragraph at lines 14901--14907 [][][]\T1/pcr/m/n/10 attach[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 detach[][] []\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 search[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/ m/n/10 objects[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 autoload[][][]\T1/ptm/m /n/10 , [][]\T1/pcr/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/ 10 data[][][]\T1/ptm/m/n/10 , [256] [257] Underfull \hbox (badness 10000) in paragraph at lines 15022--15026 []\T1/ptm/m/n/10 Do not use [][]\T1/pcr/m/n/10 dyn.unload[][][] \T1/ptm/m/n/10 on a DLL loaded by \T1/pcr/m/n/10 library.dynam\T1/ptm/m/n/10 : use [258] Underfull \hbox (badness 1264) in paragraph at lines 15066--15070 []\T1/phv/m/n/10 R \T1/ptm/m/n/10 is dis-tributed un-der the terms of the GNU G EN-ERAL PUB-LIC LI-CENSE Ver-sion 2, [259] [260] [261] Underfull \hbox (badness 3343) in paragraph at lines 15262--15266 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ac cess[][][] \T1/ptm/m/n/10 and [][]\T1/pcr/m/n/10 files[][][] \T1/ptm/m/n/10 for many more file han-dling func-tions and [262] [263] Underfull \hbox (badness 4036) in paragraph at lines 15365--15368 []\T1/ptm/m/n/10 These set-tings are usu-ally con-trolled by the en-vi-ron-ment vari-ables \T1/pcr/m/n/10 LC_NUMERIC \T1/ptm/m/n/10 and [264] Underfull \hbox (badness 6380) in paragraph at lines 15435--15441 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- Underfull \hbox (badness 2753) in paragraph at lines 15435--15441 \T1/pcr/m/n/10 "LC_NUMERIC" \T1/ptm/m/n/10 and \T1/pcr/m/n/10 "LC_TIME"\T1/ptm/ m/n/10 . Some sys-tems will also sup-port [265] [266] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15527--15527 []\T1/pcr/m/n/9 Sys.setlocale("LC_COLLATE", "C") # turn off locale-specific sorting, usually[] [267] [268] [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] [280] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16316--16316 []\T1/pcr/m/n/9 ## Simple version: intersect <- function(x, y) y[match(x, y, nomatch = 0)][] [281] [282] Underfull \hbox (badness 1655) in paragraph at lines 16422--16426 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [283] [284] [285] [286] [287] [288] [289] [290] Overfull \hbox (60.78088pt too wide) in paragraph at lines 16892--16892 []\T1/pcr/m/n/10 R --min-vsize=vl --max-vsize=vu --min-nsize=nl --max-nsize=nu --max-ppsize=N[] [291] [292] [293] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17077--17077 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 17078--17078 [] \T1/pcr/m/n/10 sort = TRUE, suffixes = c(".x",".y"), incomparables = N ULL, ...)[] [294] [295] [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 3849) in paragraph at lines 17560--17565 []\T1/pcr/m/n/10 as.name \T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter-na lly to a char-ac-ter vec-tor (so meth-ods for [302] [303] [304] [305] Underfull \hbox (badness 1609) in paragraph at lines 17761--17763 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of \T1/pcr/m/n/10 c("bytes", "chars", [306] [307] [308] [309] [310] [311] [312] [313] Underfull \hbox (badness 10000) in paragraph at lines 18201--18206 []\T1/pcr/m/n/10 loadNamespace \T1/ptm/m/n/10 does not at-tach the name space i t loads to the search path. Underfull \hbox (badness 1168) in paragraph at lines 18201--18206 \T1/pcr/m/n/10 attachNamespace \T1/ptm/m/n/10 can be used to at-tach a frame co n-tain-ing the ex-ported val-ues of a [314] [315] Underfull \hbox (badness 8189) in paragraph at lines 18364--18370 []\T1/ptm/m/n/10 The de-fault method for \T1/pcr/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] [316] [317] [318] Underfull \hbox (badness 1694) in paragraph at lines 18520--18523 []\T1/ptm/m/n/10 a char-ac-ter vec-tor with suit-able nu-meric ver-sion strings (see `De-tails'); [319] [320] [321] Underfull \hbox (badness 1603) in paragraph at lines 18714--18716 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [322] Underfull \hbox (badness 1210) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini- [323] [324] Underfull \hbox (badness 5475) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/pcr/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 3271) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able Underfull \hbox (badness 4048) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue \T1/pcr/m/n/10 " [325] [326] [327] Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/pcr/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2384) in paragraph at lines 19179--19179 \T1/pcr/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a CRAN Underfull \hbox (badness 2837) in paragraph at lines 19179--19179 \T1/ptm/m/n/10 mir-ror. To avoid this do set the CRAN mir-ror, by some-thing li ke \T1/pcr/m/n/10 local({r Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 \T1/pcr/m/n/10 <- getOption("repos"); r["CRAN"] <- "http://my.local.cran"; Underfull \hbox (badness 1881) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 a char-ac-ter string, the path of the com-mand used for un-zip -ping help files, or [328] [329] [330] [331] Underfull \hbox (badness 10000) in paragraph at lines 19414--19417 []\T1/pcr/m/n/10 FUN = "*" \T1/ptm/m/n/10 is han-dled in-ter-nally as a spe-cia l case, \T1/ptm/m/it/10 via \T1/pcr/m/n/10 as.vector(X) %*% [332] [333] [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] Underfull \hbox (badness 1796) in paragraph at lines 20037--20040 []\T1/ptm/m/n/10 character string (or \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/pcr/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] [357] [358] [359] Underfull \hbox (badness 7415) in paragraph at lines 21005--21009 []\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use \T1/pcr/m/n/10 R.ver sion$os \T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 1533) in paragraph at lines 21354--21357 []\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 [366] Underfull \hbox (badness 1337) in paragraph at lines 21444--21447 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 finite \T1/ptm/m/n/10 is \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 , the min-i-mum and max-i-mum of all fi-nite val-ues is com-pute d, i.e., [367] [368] Underfull \hbox (badness 1038) in paragraph at lines 21502--21512 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/pcr/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [369] [370] [371] [372] [373] [374] [375] Underfull \hbox (badness 10000) in paragraph at lines 21926--21930 \T1/pcr/m/n/10 "double", "integer", "int", "logical", "complex", [376] [377] [378] [379] [380] [381] [382] [383] [384] [385] Underfull \hbox (badness 2486) in paragraph at lines 22471--22483 []\T1/ptm/m/n/10 The pre-cise way char-ac-ter ranges are in-ter-preted de-pends on the val-ues of \T1/pcr/m/n/10 perl \T1/ptm/m/n/10 and Underfull \hbox (badness 1168) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 may in-clude `\T1/pcr/m/n/10 x\T1/ptm/m/n/10 ' and if it does ma y or may not in-clude `\T1/pcr/m/n/10 w\T1/ptm/m/n/10 '. (In most En-glish lo-c ales Underfull \hbox (badness 1199) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 the col-la-tion or-der is `\T1/pcr/m/n/10 wWxXyYzZ\T1/ptm/m/n/10 '.) For case-less match-ing the char-ac-ters in a range are Underfull \hbox (badness 1389) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 in-ter-preted as if in lower case, so in an En-glish lo-cale `\T 1/pcr/m/n/10 [W-z]\T1/ptm/m/n/10 ' matches `\T1/pcr/m/n/10 WXYZwxyz\T1/ptm/m/n/ 10 '. [386] [387] [388] Underfull \hbox (badness 5417) in paragraph at lines 22724--22727 [][][]\T1/pcr/m/n/10 grep[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 apropos[][][ ]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 browseEnv[][][]\T1/ptm/m/n/10 , [][]\T1/pc r/m/n/10 glob2rx[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 help.search[][][]\T1/ ptm/m/n/10 , [][]\T1/pcr/m/n/10 list.files[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/ n/10 ls[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 22728--22729 [][][]$\T1/pcr/m/n/10 http : / / www . opengroup . org / onlinepubs / 009695399 / basedefs / xbd _ [389] [390] [391] [392] [393] Underfull \hbox (badness 10000) in paragraph at lines 22982--22986 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [394] [395] [396] [397] [398] [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] Underfull \hbox (badness 1158) in paragraph at lines 23962--23967 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 23984--23988 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1762) in paragraph at lines 23984--23988 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 24320--24323 []\T1/ptm/m/n/10 The fourth form gen-er-ates the se-quence \T1/pcr/m/n/10 1, 2, ..., length(along.with)\T1/ptm/m/n/10 . Underfull \hbox (badness 2809) in paragraph at lines 24324--24329 []\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence \T1/pcr/m/n/10 1, 2, ..., length(from) \T1/ptm/m/n/10 (as if ar-gu-ment [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] [428] Underfull \hbox (badness 4303) in paragraph at lines 25001--25004 []\T1/pcr/m/n/10 split = TRUE \T1/ptm/m/n/10 only splits \T1/phv/m/n/10 R \T1/p tm/m/n/10 out-put (via \T1/pcr/m/n/10 Rvprintf\T1/ptm/m/n/10 ) and the de-fault out-put from [429] [430] [431] [432] [433] [434] [435] Overfull \hbox (31.3804pt too wide) in paragraph at lines 25394--25394 []\T1/pcr/m/n/9 is.unsorted(x, strictly=TRUE) #-> TRUE : is not (and cannot be ) sorted strictly[] [436] [437] [438] [439] [440] [441] [442] [443] Overfull \hbox (4.38043pt too wide) in paragraph at lines 25830--25830 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [444] Underfull \hbox (badness 10000) in paragraph at lines 25946--25946 []\T1/ptm/m/n/10 Double pre-ci-sion value, in ``\T1/ptm/b/n/10 e\T1/ptm/m/n/10 xponential'' dec-i-mal no-ta-tion of the form [445] [446] Underfull \vbox (badness 3803) has occurred while \output is active [447] [448] Underfull \hbox (badness 1087) in paragraph at lines 26159--26161 []\T1/ptm/m/n/10 Markus Kuhn, ``ASCII and Uni-code quo-ta-tion marks''. [][]$\T 1/pcr/m/n/10 http : / / www . cl . cam . ac . uk / [449] [450] [451] Underfull \hbox (badness 6526) in paragraph at lines 26344--26354 []\T1/ptm/m/n/10 Then \T1/phv/m/n/10 R \T1/ptm/m/n/10 searches for the site-wid e startup pro-file un-less the com-mand line op-tion [452] [453] [454] [455] [456] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26660--26660 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [457] [458] [459] [460] [461] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26967--26967 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [462] [463] [464] Overfull \hbox (6.78088pt too wide) in paragraph at lines 27148--27148 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] [465] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27187--27187 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 27579--27582 []\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][]\T1/pcr/m/n/10 signif[][][]() \T1/ptm/m/n/10 (for Overfull \hbox (4.38043pt too wide) in paragraph at lines 27611--27611 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau lt precision[] [473] [474] [475] [476] [477] [478] [479] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27952--27952 []\T1/pcr/m/n/9 ## whether HOST is set will be shell-dependent e.g. Solaris\TS 1/pcr/m/n/9 ' \T1/pcr/m/n/9 csh does not.[] [480] [481] [482] [483] Underfull \hbox (badness 10000) in paragraph at lines 28173--28177 []\T1/pcr/m/n/10 sys.status() \T1/ptm/m/n/10 re-turns a list with com-po-nents \T1/pcr/m/n/10 sys.calls\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sys.parents \T1/ptm/m/n /10 and Underfull \hbox (badness 1584) in paragraph at lines 28187--28190 []\T1/pcr/m/n/10 sys.call \T1/ptm/m/n/10 re-turns a call, \T1/pcr/m/n/10 sys.fu nction \T1/ptm/m/n/10 a func-tion def-i-ni-tion, and \T1/pcr/m/n/10 sys.frame \ T1/ptm/m/n/10 and [484] [485] [486] [487] Underfull \hbox (badness 1082) in paragraph at lines 28407--28410 []\T1/ptm/m/n/10 logical. If \T1/pcr/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [488] [489] [490] [491] [492] [493] [494] Overfull \hbox (6.78088pt too wide) in paragraph at lines 28801--28801 []\T1/pcr/m/n/10 table(..., exclude = if (useNA == "no") c(NA, NaN), useNA = c ("no",[] Underfull \hbox (badness 1270) in paragraph at lines 28818--28821 []\T1/ptm/m/n/10 levels to re-move from all fac-tors in \T1/pcr/m/n/10 ...\T1/p tm/m/n/10 . If set to \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 , it im-plies [495] Underfull \hbox (badness 4096) in paragraph at lines 28880--28883 []\T1/ptm/m/n/10 Use [][]\T1/pcr/m/n/10 ftable[][][] \T1/ptm/m/n/10 for print-i ng (and more) of mul-ti-di-men-sional ta-bles. [][]\T1/pcr/m/n/10 margin.table[ ][][]\T1/ptm/m/n/10 , [496] [497] [498] [499] Underfull \hbox (badness 10000) in paragraph at lines 29098--29100 []\T1/pcr/m/n/10 removeTaskCallback \T1/ptm/m/n/10 un-registers a func-tion tha t was reg-is-tered ear-lier via [500] [501] Underfull \hbox (badness 10000) in paragraph at lines 29175--29178 [][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$http : / / developer . [502] [503] Underfull \hbox (badness 5475) in paragraph at lines 29294--29298 [][][]\T1/pcr/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 http : / / [504] Underfull \hbox (badness 10000) in paragraph at lines 29351--29355 [][][]\T1/pcr/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 http : [505] [506] [507] [508] [509] Underfull \hbox (badness 1436) in paragraph at lines 29663--29667 \T1/ptm/m/n/10 file sys-tem varies, e.g. `\T1/phv/m/n/10 /usr/share/zoneinfo\T1 /ptm/m/n/10 ', `\T1/phv/m/n/10 /usr/etc/zoneinfo\T1/ptm/m/n/10 ', `\T1/phv/m/n/ 10 /usr/lib/zoneinfo\T1/ptm/m/n/10 ' or Underfull \hbox (badness 3460) in paragraph at lines 29683--29685 [][][]$\T1/pcr/m/n/10 http : / / en . wikipedia . org / wiki / Time _ zone$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 http : / / www . twinsun . com / [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] Underfull \hbox (badness 1708) in paragraph at lines 30305--30314 []\T1/pcr/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 3713) in paragraph at lines 30305--30314 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the \T1 /pcr/m/n/10 stderr \T1/ptm/m/n/10 con-nec-tion un-less Underfull \hbox (badness 4859) in paragraph at lines 30321--30326 [][][]\T1/pcr/m/n/10 options[][][] \T1/ptm/m/n/10 for set-ting er-ror han-dlers and sup-press-ing the print-ing of er-ror mes-sages; [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] Underfull \hbox (badness 3668) in paragraph at lines 31114--31116 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] Underfull \hbox (badness 2846) in paragraph at lines 31758--31762 []\T1/pcr/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [546] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31781--31781 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] Underfull \hbox (badness 3209) in paragraph at lines 31800--31804 []\T1/pcr/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [547]) (./datasets-pkg.tex [548] Chapter 2. Underfull \hbox (badness 10000) in paragraph at lines 10--12 []\T1/ptm/m/n/10 This pack-age con-tains a va-ri-ety of datasets. For a com-ple te list, use [549] [550] [551] [552] [553] Underfull \vbox (badness 10000) has occurred while \output is active [554] Overfull \hbox (4.38043pt too wide) in paragraph at lines 309--309 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi ven = FALSE)[] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [566] [567] [568] [569] [570] [571] [572] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [573] Underfull \vbox (badness 3746) has occurred while \output is active [574] Underfull \hbox (badness 10000) in paragraph at lines 1275--1278 []\T1/ptm/m/n/10 Finally, \T1/pcr/m/n/10 freeny \T1/ptm/m/n/10 is a data frame with vari-ables \T1/pcr/m/n/10 y\T1/ptm/m/n/10 , \T1/pcr/m/n/10 lag.quarterly.r evenue\T1/ptm/m/n/10 , Underfull \hbox (badness 2903) in paragraph at lines 1275--1278 \T1/pcr/m/n/10 price.index\T1/ptm/m/n/10 , \T1/pcr/m/n/10 income.level\T1/ptm/m /n/10 , and \T1/pcr/m/n/10 market.potential \T1/ptm/m/n/10 ob-tained from the a bove [575] [576] Underfull \hbox (badness 1325) in paragraph at lines 1345--1350 []\T1/ptm/m/n/10 Friendly, M. (1992a) Graph-i-cal meth-ods for cat-e-gor-i-cal data. \T1/ptm/m/it/10 SAS User Group In-ter-na- [577] [578] Overfull \vbox (18.51595pt too high) has occurred while \output is active [579] [580] [581] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1620--1620 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] [582] [583] Overfull \vbox (7.76057pt too high) has occurred while \output is active [584] [585] [586] [587] [588] [589] [590] [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [602] Underfull \vbox (badness 7415) has occurred while \output is active [603] [604] [605] [606] [607] Underfull \hbox (badness 5175) in paragraph at lines 2932--2935 []\T1/ptm/m/n/10 Files for all 182 dis-tricts in 1888 and other years have been avail-able at [][]$\T1/pcr/m/n/10 http : Underfull \hbox (badness 10000) in paragraph at lines 2932--2935 \T1/pcr/m/n/10 / / opr . princeton . edu / archive / eufert / switz . html$[][] \T1/ptm/m/n/10 or [][]$\T1/pcr/m/n/10 http : / / opr . [608] [609] [610] [611] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3141--3141 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] [612] Underfull \hbox (badness 10000) in paragraph at lines 3166--3169 []\T1/ptm/m/n/10 Time Se-ries Data Li-brary: [][]$\T1/pcr/m/n/10 http : / / www -[]personal . buseco . monash . edu . au / Underfull \vbox (badness 10000) has occurred while \output is active [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626]) (./grDevices-pkg.tex Chapter 3. [627] [628] [629] Overfull \hbox (6.78088pt too wide) in paragraph at lines 169--169 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [630] [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 5175) in paragraph at lines 651--653 []\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 [639] Underfull \hbox (badness 10000) in paragraph at lines 745--747 []\T1/ptm/m/n/10 For the white points [][]$\T1/pcr/m/n/10 http : / / www . efg2 . com / Lab / Graphics / Colors / [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 1140--1142 []\T1/ptm/m/n/10 The de-fault for \T1/pcr/m/n/10 dev.print \T1/ptm/m/n/10 is to pro-duce and print a postscript copy, if [647] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1214--1214 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [648] Underfull \hbox (badness 1184) in paragraph at lines 1251--1264 []\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of \T1/pcr/m /n/10 ghostscript\T1/ptm/m/n/10 , but are likely to in- Underfull \hbox (badness 1694) in paragraph at lines 1251--1264 \T1/pcr/m/n/10 "pbmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pgm"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "pgmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pgnm"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "pgnmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pnm"\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 "pnmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ppm"\T1/ptm/m/n/10 , Underfull \hbox (badness 6493) in paragraph at lines 1251--1264 \T1/pcr/m/n/10 "tifflzw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "tiffpack"\T1/ptm/m/n/1 0 , \T1/pcr/m/n/10 "tiff12nc"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "tiff24nc"\T1/ptm/ m/n/10 , \T1/pcr/m/n/10 "psmono"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "psgray"\T1/ptm /m/n/10 , [649] Underfull \hbox (badness 10000) in paragraph at lines 1339--1341 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [650] [651] [652] [653] [654] [655] [656] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [657] [658] Underfull \hbox (badness 10000) in paragraph at lines 1853--1865 [659] [660] [661] [662] [663] [664] [665] [666] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [667] [668] Underfull \hbox (badness 10000) in paragraph at lines 2401--2404 [][][]\T1/pcr/m/n/10 colors[][][] \T1/ptm/m/n/10 for the vec-tor of built-in na med col-ors; [][]\T1/pcr/m/n/10 hsv[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 gr ay[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 rainbow[][][]\T1/ptm/m/n/10 , [669] [670] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [671] [672] [673] [674] Underfull \hbox (badness 1072) in paragraph at lines 2800--2805 \T1/pcr/m/n/10 encoding\T1/ptm/m/n/10 , \T1/pcr/m/n/10 pointsize\T1/ptm/m/n/10 , \T1/pcr/m/n/10 bg\T1/ptm/m/n/10 , \T1/pcr/m/n/10 fg\T1/ptm/m/n/10 , \T1/pcr/m /n/10 pagecentre\T1/ptm/m/n/10 , \T1/pcr/m/n/10 useDingbats \T1/ptm/m/n/10 and [675] [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] Underfull \hbox (badness 5077) in paragraph at lines 3426--3432 []\T1/ptm/m/n/10 For use with \T1/pcr/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a \T1/pcr/m/n/10 printf \T1/ptm/m/n/10 for-mat such as [686] [687] Underfull \hbox (badness 1755) in paragraph at lines 3578--3580 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [688] [689] Underfull \hbox (badness 7344) in paragraph at lines 3718--3720 []\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 Underfull \hbox (badness 7397) in paragraph at lines 3727--3732 [][][]\T1/pcr/m/n/10 postscriptFonts[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 D evices[][][]\T1/ptm/m/n/10 , and [][]\T1/pcr/m/n/10 check.options[][][] \T1/ptm /m/n/10 which is called from both [690] [691] Underfull \hbox (badness 2035) in paragraph at lines 3834--3843 []\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 3735) in paragraph at lines 3834--3843 \T1/ptm/m/n/10 vided: \T1/pcr/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/pcr/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/pcr/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Helvetica- Underfull \hbox (badness 10000) in paragraph at lines 3834--3843 \T1/pcr/m/n/10 "URWBookman"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "NimbusMon"\T1/ptm/m /n/10 , \T1/pcr/m/n/10 "NimbusSan" \T1/ptm/m/n/10 (syn-onym \T1/pcr/m/n/10 "URW Helvetica"\T1/ptm/m/n/10 ), [692] Underfull \hbox (badness 4686) in paragraph at lines 3874--3880 \T1/pcr/m/n/10 "Japan1"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Japan1HeiMin"\T1/ptm/m/ n/10 , \T1/pcr/m/n/10 "Japan1GothicBBB"\T1/ptm/m/n/10 , and \T1/pcr/m/n/10 "Jap an1Ryumin" \T1/ptm/m/n/10 for [693] Underfull \hbox (badness 10000) in paragraph at lines 3898--3906 []\T1/pcr/m/n/10 Baekmuk-Batang \T1/ptm/m/n/10 can be found at [][]$\T1/pcr/m/n /10 ftp : / / ftp . mizi . com / pub / baekmuk/$[][]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 3898--3906 \T1/pcr/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/pcr/m /n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 7344) in paragraph at lines 3916--3918 []\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 [694] [695] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4030--4030 []\T1/pcr/m/n/10 quartz(title, width, height, pointsize, family, fontsmooth, a ntialias,[] [696] Underfull \hbox (badness 10000) in paragraph at lines 4119--4121 []\T1/ptm/m/n/10 Calling \T1/pcr/m/n/10 quartz() \T1/ptm/m/n/10 sets [][]\T1/pc r/m/n/10 .Device[][][] \T1/ptm/m/n/10 to \T1/pcr/m/n/10 "quartz" \T1/ptm/m/n/10 for on-screen de-vices and to [697] [698] [699] [700] [701] Underfull \hbox (badness 10000) in paragraph at lines 4387--4390 []\T1/pcr/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [702] [703] [704] [705] [706] [707] [708] Underfull \hbox (badness 1189) in paragraph at lines 4724--4726 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [709] Underfull \hbox (badness 1132) in paragraph at lines 4787--4789 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and \T1/pcr/m/n/10 "-cronyx- [710] [711] [712] Underfull \hbox (badness 2065) in paragraph at lines 5010--5016 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/pcr/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , Underfull \hbox (badness 1360) in paragraph at lines 5010--5016 \T1/pcr/m/n/10 Narrow"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "NewCenturySchoolbook"\T1 /ptm/m/n/10 , \T1/pcr/m/n/10 "Palatino" \T1/ptm/m/n/10 or \T1/pcr/m/n/10 "Times "\T1/ptm/m/n/10 . [713] Underfull \hbox (badness 1721) in paragraph at lines 5042--5045 []\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt p : / / www . schmidt-[]web-[]berlin . de / [714] [715] Underfull \hbox (badness 1231) in paragraph at lines 5185--5187 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/pcr/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [716] [717] [718]) (./graphics-pkg.tex Chapter 4. [719] [720] [721] Underfull \hbox (badness 2856) in paragraph at lines 160--163 []\T1/ptm/m/n/10 For each \T1/pcr/m/n/10 i\T1/ptm/m/n/10 , an ar-row is drawn b e-tween the point \T1/pcr/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the point (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [722] Underfull \hbox (badness 1412) in paragraph at lines 261--266 []\T1/ptm/m/n/10 Friendly, M. (1992), Graph-i-cal meth-ods for cat-e-gor-i-cal data. \T1/ptm/m/it/10 SAS User Group In-ter-na- [723] [724] [725] [726] Underfull \hbox (badness 2726) in paragraph at lines 429--435 []\T1/ptm/m/n/10 When \T1/pcr/m/n/10 at = NULL\T1/ptm/m/n/10 , pretty tick mark lo-ca-tions are com-puted in-ter-nally (the same way [727] [728] [729] Underfull \hbox (badness 10000) in paragraph at lines 617--620 []\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][]\T1/pcr/m /n/10 par[][][]("xaxp") \T1/ptm/m/n/10 or [730] [731] [732] [733] [734] [735] [736] [737] [738] [739] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1157--1157 [] \T1/pcr/m/n/10 horizontal = FALSE, add = FALSE, at = NULL, show.names = NULL,[] [740] Underfull \hbox (badness 1024) in paragraph at lines 1201--1209 \T1/pcr/m/n/10 col.main\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sub\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 cex.sub\T1/ptm/m/n/10 , \T1/pcr/m/n/10 col.sub\T1/ptm/m/n/10 , \T1/p cr/m/n/10 xlab\T1/ptm/m/n/10 , \T1/pcr/m/n/10 ylab\T1/ptm/m/n/10 , \T1/pcr/m/n/ 10 cex.lab\T1/ptm/m/n/10 , and Underfull \hbox (badness 3375) in paragraph at lines 1242--1242 []\T1/ptm/m/n/10 whisker line type (de-fault: \T1/pcr/m/n/10 "dashed"\T1/ptm/m/ n/10 ), [741] [742] [743] [744] [745] [746] Underfull \hbox (badness 10000) in paragraph at lines 1580--1585 [][][]\T1/pcr/m/n/10 contourLines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 fill ed.contour[][][] \T1/ptm/m/n/10 for color-filled con-tours, [][]\T1/pcr/m/n/10 contourplot[][][] \T1/ptm/m/n/10 (and [747] [748] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1699--1699 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns,[] [749] [750] [751] [752] Underfull \hbox (badness 4859) in paragraph at lines 1878--1881 []\T1/ptm/m/n/10 labels and graph-i-cal pa-ram-e-ters can also be spec-i-fied a s ar-gu-ments. [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] Underfull \hbox (badness 1226) in paragraph at lines 2472--2476 \T1/pcr/m/n/10 1)\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies \T1/pcr /m/n/10 counts/n \T1/ptm/m/n/10 and in gen-eral sat-isfy [764] Underfull \hbox (badness 10000) in paragraph at lines 2570--2573 []\T1/ptm/m/n/10 graphical pa-ram-e-ters, or ar-gu-ments to [][]\T1/pcr/m/n/10 hist.default[][][] \T1/ptm/m/n/10 such as [765] [766] [767] [768] Underfull \hbox (badness 1755) in paragraph at lines 2804--2808 []\T1/ptm/m/n/10 a list of col-ors such as that gen-er-ated by [][]\T1/pcr/m/n/ 10 rainbow[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 heat.colors[][][]\T1/ptm/m/ n/10 , [769] [770] [771] [772] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3032--3032 [] \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = par("fg"),[] [773] [774] [775] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3186--3186 [] \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce x = cexv[i])[] Underfull \vbox (badness 3803) has occurred while \output is active [776] Underfull \vbox (badness 10000) has occurred while \output is active [777] [778] [779] [780] Underfull \hbox (badness 1867) in paragraph at lines 3476--3480 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [781] [782] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [783] Underfull \hbox (badness 3930) in paragraph at lines 3633--3635 []\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a mul-ti-ple of [784] [785] [786] [787] [788] [789] [790] [791] Underfull \hbox (badness 1264) in paragraph at lines 4103--4115 \T1/ptm/m/n/10 func-tions such as [][]\T1/pcr/m/n/10 plot.default[][][]\T1/ptm/ m/n/10 , [][]\T1/pcr/m/n/10 plot.window[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/1 0 points[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 lines[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 abline[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 axis[][][]\T1 /ptm/m/n/10 , [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] [802] [803] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4931--4931 [] \T1/pcr/m/n/9 col = c("purple", "violetred1", "green3", "cornsilk", "cya n", "white"))[] [804] Underfull \hbox (badness 1052) in paragraph at lines 4990--4990 \T1/ptm/m/n/10 All other \T1/pcr/m/n/10 type\T1/ptm/m/n/10 s give a warn-ing or an er-ror; us-ing, e.g., \T1/pcr/m/n/10 type = [805] [806] [807] [808] [809] [810] [811] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5348--5348 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth) # numeric vec tor ~ factor[] [812] [813] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5446--5446 [] \T1/pcr/m/n/10 axes = TRUE, labels = FALSE, add = FALSE, ann = TRUE, ...)[] [814] [815] [816] Underfull \hbox (badness 10000) in paragraph at lines 5652--5654 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [817] [818] Underfull \hbox (badness 1028) in paragraph at lines 5740--5740 []\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th is works as a mul-ti-ple of [819] [820] Underfull \vbox (badness 10000) has occurred while \output is active [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6444--6444 [] \T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), space = "Lab")[] [831] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6455--6455 [] \T1/pcr/m/n/9 pairs(y, panel=function(...) {par(new=TRUE);smoothScatter(.. ., nrpoints=0)})[] [832] [833] [834] [835] [836] [837] [838] [839] [840] Overfull \hbox (30.78088pt too wide) in paragraph at lines 6932--6932 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 6933--6933 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [841] Underfull \hbox (badness 2080) in paragraph at lines 7028--7033 []\T1/ptm/m/n/10 integer vec-tor of length \T1/pcr/m/n/10 n\T1/ptm/m/n/10 . \T1 /pcr/m/n/10 number[i] \T1/ptm/m/n/10 = num-ber of repli-cates for [842] Underfull \hbox (badness 1533) in paragraph at lines 7065--7069 []\T1/ptm/m/n/10 For \T1/pcr/m/n/10 number[i]==1\T1/ptm/m/n/10 , a (slightly en -larged) usual plot-ting sym-bol (\T1/pcr/m/n/10 pch\T1/ptm/m/n/10 ) is drawn. For [843] [844] [845] [846] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [847] [848] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7410--7410 [] \T1/pcr/m/n/9 "Le français, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est façile: Règles, Liberté, Egalité, Fraternité...")[] Underfull \hbox (badness 6691) in paragraph at lines 7434--7437 []\T1/ptm/m/n/10 The main ti-tle (on top) us-ing font and size (char-ac-ter ex- pan-sion) [849] Underfull \hbox (badness 1584) in paragraph at lines 7470--7476 []\T1/ptm/m/n/10 The po-si-tions of \T1/pcr/m/n/10 xlab\T1/ptm/m/n/10 , \T1/pcr /m/n/10 ylab \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sub \T1/ptm/m/n/10 are \T1/pcr/m /n/10 line \T1/ptm/m/n/10 (de-fault for \T1/pcr/m/n/10 xlab \T1/ptm/m/n/10 and \T1/pcr/m/n/10 ylab \T1/ptm/m/n/10 be-ing [850]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.unit s}) has been already used, duplicate ignored \relax l.7515 \HeaderA{units}{Graphical Units}{units} [851] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7568--7568 []\T1/pcr/m/n/10 xspline(x, y = NULL, shape = 0, open = TRUE, repEnds = TRUE, draw = TRUE,[] Underfull \hbox (badness 1205) in paragraph at lines 7574--7576 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [852] [853] [854]) (./grid-pkg.tex Chapter 5. [855] [856] [857] [858] [859] Underfull \hbox (badness 10000) in paragraph at lines 259--265 \T1/ptm/m/n/10 (i.e., pop or up any view-ports that were pushed; again, see, fo r ex-am-ple, Underfull \hbox (badness 1024) in paragraph at lines 259--265 \T1/pcr/m/n/10 grid:::postDrawDetails.frame\T1/ptm/m/n/10 ). Note that the de-f ault be-haviour for grobs is to [860] [861] [862] [863] [864] [865] [866] [867] [868] [869] Overfull \hbox (9.78043pt too wide) in paragraph at lines 811--811 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 813--813 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 815--815 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [870] [871] Underfull \hbox (badness 2781) in paragraph at lines 949--952 []\T1/ptm/m/n/10 Both func-tions cre-ate an ar-rows grob (a graph-i-cal ob-ject de-scrib-ing ar-rows), but only [872] [873] [874] Underfull \hbox (badness 3219) in paragraph at lines 1073--1076 []\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject de-scrib-ing a cir-cle), but only [875] [876] [877] [878] [879] [880] [881] [882] [883] Underfull \hbox (badness 2961) in paragraph at lines 1585--1590 []\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio ns \T1/pcr/m/n/10 preDrawDetails\T1/ptm/m/n/10 , [884] [885] Underfull \hbox (badness 4479) in paragraph at lines 1664--1667 []\T1/ptm/m/n/10 Both func-tions call \T1/pcr/m/n/10 editDetails \T1/ptm/m/n/10 to al-low a grob to per-form cus-tom ac-tions and [886] Underfull \hbox (badness 2894) in paragraph at lines 1723--1730 []\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de -scrib-ing a frame), but only [887] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1763--1763 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [888] [889] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1907--1907 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [890] [891] [892] [893] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2119--2119 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [894] [895] [896] [897] [898] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2407--2407 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [899] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2445--2445 []\T1/pcr/m/n/10 moveToGrob(x = 0, y = 0, default.units = "npc", name = NULL, vp = NULL)[] [900] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2495--2495 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, w=0.25, h=0.25, just=c("left", "bottom")))[] [901] [902] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2607--2607 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2614--2614 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 10000) in paragraph at lines 2937--2939 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [909] [910] [911] [912] [913] Underfull \hbox (badness 1067) in paragraph at lines 3197--3200 []\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 [914] [915] [916] [917] [918] Underfull \hbox (badness 7256) in paragraph at lines 3409--3411 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] Underfull \hbox (badness 1867) in paragraph at lines 4500--4502 []\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for use in \T1/pcr/m/n/10 downViewport \T1/ptm/m/n/10 or [939] Underfull \hbox (badness 10000) in paragraph at lines 4532--4538 [][][]\T1/pcr/m/n/10 viewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 pushView port[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 seekV iewport[][][]\T1/ptm/m/n/10 , [940] [941] [942] Underfull \vbox (badness 3803) has occurred while \output is active [943] [944] [945]) (./methods-pkg.tex [946] Chapter 6. [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 1960) has occurred while \output is active [953] [954] [955] Underfull \hbox (badness 1281) in paragraph at lines 573--582 []\T1/ptm/m/n/10 Note that the pre-ced-ing def-i-ni-tion means that the next me thod is de-fined uniquely when [956] Overfull \hbox (4.38043pt too wide) in paragraph at lines 647--647 []\T1/pcr/m/n/9 setMethod("f", "B2", function(x) {x@b0 <- 111; c(x@b2, callNex tMethod())})[] [957] [958] [959] [960] [961] [962] [963] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1174--1174 []\T1/pcr/m/n/9 ## the super- and subclasses of "standardGeneric" and "derived DefaultMethod"[] [964] [965] [966] [967] [968] [969] Overfull \hbox (198.78021pt too wide) in paragraph at lines 1566--1566 []\T1/pcr/m/n/9 stopifnot(identical(cc(letters, character(), cd1), paste(lette rs, character(), cd1))) # the "character" method[] Overfull \hbox (355.38004pt too wide) in paragraph at lines 1568--1568 []\T1/pcr/m/n/9 stopifnot(identical(cc(letters, character(), cd2), c(letters, character(), cd2))) # the default, because "vdate" doesn\TS1/pcr/m/n/9 '\T1/pcr /m/n/9 t extend "character"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1570--1570 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N umber" method[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1572--1572 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 1578--1578 []\T1/pcr/m/n/9 setMethod("numMax", "numeric", function(...)max(...)) # won\TS 1/pcr/m/n/9 '\T1/pcr/m/n/9 t work for complex data[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 1579--1579 []\T1/pcr/m/n/9 setMethod("numMax", "Number", function(...) paste(...)) # shou ld not be selected w/o complex args[] [970] Underfull \hbox (badness 10000) in paragraph at lines 1615--1615 []\T1/pcr/m/n/10 signature(from = "ANY", to = "environment")\T1/ptm/m/n/10 : ca lls [971] [972] [973] [974] [975] Underfull \hbox (badness 3792) in paragraph at lines 1886--1889 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/pcr/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/pcr/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [976] [977] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1965--1965 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [978] [979] [980] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2161--2161 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [981] [982] [983] [984] [985] Underfull \hbox (badness 1552) in paragraph at lines 2491--2493 []\T1/pcr/m/n/10 packageName \T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [986] [987] [988] [989] [990] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2821--2821 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [991] [992] Underfull \hbox (badness 1394) in paragraph at lines 2893--2893 \T1/ptm/m/n/10 If ar-gu-ment \T1/pcr/m/n/10 fullInfo \T1/ptm/m/n/10 is \T1/pcr/ m/n/10 TRUE\T1/ptm/m/n/10 , the call re-turns a named list of ob-jects of class [993] [994] [995] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3103--3103 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3122--3122 []\T1/pcr/m/n/9 setClass("stringsDated", contains = "character", representatio n(stamp="POSIXt"))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3136--3136 []\T1/pcr/m/n/9 ## In contrast, a class that simply extends "factor" has no su ch ambiguities[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3137--3137 []\T1/pcr/m/n/9 setClass("factorDated", contains = "factor", representation(st amp="POSIXt"))[] [996] [997] [998] [999] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3328--3328 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3329--3329 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1000] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3381--3381 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here)[] [1001] [1002] [1003] [1004] [1005] [1006] Underfull \hbox (badness 10000) in paragraph at lines 3831--3840 []\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha t eval-u-ates a call to [1007] [1008] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3980--3980 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3994--3994 []\T1/pcr/m/n/9 mydf1[1:2, ] # a data frame object (with extra attributes "dat e" and "type")[] [1009] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4034--4034 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), 1:10)) # (version 2.9.0 or earlier fails here)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4048--4048 []\T1/pcr/m/n/9 ## S3 methods are selected from the S3 class defined; that is, "data.frame"[] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 4155--4155 []\T1/pcr/m/n/10 signature(method = "MethodWithNext")\T1/ptm/m/n/10 : used in-t er-nally by [1012] [1013] [1014] [1015] [1016] Underfull \hbox (badness 1087) in paragraph at lines 4408--4413 []\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 [1017] [1018] [1019]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.4627 \aliasA{S4}{S3Part}{S4} [1020] [1021] [1022] Overfull \hbox (52.98038pt too wide) in paragraph at lines 4837--4837 []\T1/pcr/m/n/9 ## two examples extending S3 class "lm", class "xlm" directly and "ylm" indirectly[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4849--4849 []\T1/pcr/m/n/9 ## note the these classes can insert an S3 subclass of "lm" as the S3 part:[] [1023] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4854--4854 []\T1/pcr/m/n/9 ##similar classes to "xlm" and "ylm", but extending S3 class c ("mlm", "lm")[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4863--4863 []\T1/pcr/m/n/9 setClass("dataFrameD", representation(date = "Date"), contains = "data.frame")[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.4884 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.4886 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.4887 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.4889 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.4890 \aliasA{Summary}{S4groupGeneric}{Summary} [1024] Underfull \hbox (badness 2050) in paragraph at lines 4946--4974 []\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 Underfull \hbox (badness 6708) in paragraph at lines 4974--4974 []\T1/pcr/m/n/10 "abs"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "sign"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "sqrt"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ceiling"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "floor"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "trunc"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "cummax"\T1/ptm/m/n/10 , Underfull \hbox (badness 2012) in paragraph at lines 4974--4974 \T1/pcr/m/n/10 "acosh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "asin"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "asinh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "atan"\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 "atanh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "exp"\T1/ptm/m/n/10 , \T1/pcr /m/n/10 "expm1"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "cos"\T1/ptm/m/n/10 , [1025] [1026] [1027] Underfull \hbox (badness 1694) in paragraph at lines 5100--5102 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see Underfull \hbox (badness 10000) in paragraph at lines 5122--5125 []\T1/ptm/m/n/10 The typ-i-cal user level func-tion is \T1/pcr/m/n/10 selectSup erClasses() \T1/ptm/m/n/10 which calls [1028] [1029] Underfull \hbox (badness 2111) in paragraph at lines 5223--5230 []\T1/ptm/m/n/10 The slots in a class def-i-ni-tion will be the union of all th e slots spec-i-fied di-rectly by [1030] [1031] [1032] [1033] [1034] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5530--5530 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(),[] [1035] [1036] Underfull \hbox (badness 2277) in paragraph at lines 5648--5649 []\T1/ptm/m/n/10 Note that call-ing \T1/pcr/m/n/10 setGeneric() \T1/ptm/m/n/10 in this form is not strictly nec-es-sary be-fore call-ing Underfull \hbox (badness 3128) in paragraph at lines 5673--5677 []\T1/ptm/m/n/10 If you \T1/ptm/m/it/10 don't \T1/ptm/m/n/10 want the ex-ist-in g func-tion to be taken as de-fault, sup-ply the ar-gu-ment [1037] [1038] [1039] Underfull \hbox (badness 1755) in paragraph at lines 5876--5879 []\T1/ptm/m/n/10 the en-vi-ron-ment in which to store the def-i-ni-tion of the method. For [1040] [1041] [1042] [1043] [1044] [1045] [1046] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6373--6373 []\T1/pcr/m/n/9 ## two examples extending S3 class "lm", class "xlm" directly and "ylm" indirectly[] [1047] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6401--6401 []\T1/pcr/m/n/9 setClass("stamped4", contains = "vector", representation(date = "POSIXt"))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 6409--6409 []\T1/pcr/m/n/9 someLetters <- stamped(sample(letters, 10), ISOdatetime(2008, 10, 15, 12, 0, 0))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6412--6412 []\T1/pcr/m/n/9 st # show() method prints the object\TS1/pcr/m/n/9 '\T1/pcr/m /n/9 s class, then calls the S3 print method.[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6423--6423 [] \T1/pcr/m/n/9 prototype(NA, tsp = rep(1,3))) # prototype to be a legal S3 time-series[] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Overfull \hbox (240.78088pt too wide) in paragraph at lines 6953--6953 []\T1/pcr/m/n/10 testInheritedMethods(f, signatures, test = TRUE, virtual = FA LSE, groupMethods = TRUE, where = .GlobalEnv)[] [1057] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7038--7038 []\T1/pcr/m/n/9 ## if no other attached packages have methods for \TS1/pcr/m/ n/9 `\T1/pcr/m/n/9 +\TS1/pcr/m/n/9 ` \T1/pcr/m/n/9 or its group generic[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7039--7039 []\T1/pcr/m/n/9 ## functions, this returns a 16 by 2 matrix of selection patte rns (in R 2.9.0)[] [1058] Underfull \hbox (badness 10000) in paragraph at lines 7094--7094 []\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., \T1/pcr/m/n/10 "function " \T1/ptm/m/n/10 for class Underfull \hbox (badness 1852) in paragraph at lines 7097--7101 []\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., Underfull \hbox (badness 1681) in paragraph at lines 7097--7101 \T1/pcr/m/n/10 "functionWithTrace" \T1/ptm/m/n/10 ex-tends \T1/pcr/m/n/10 "func tion"\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends [1059] Underfull \hbox (badness 1635) in paragraph at lines 7164--7170 []\T1/ptm/m/n/10 Note that va-lid-ity meth-ods do not have to check va-lid-ity of su-per-classes: the logic of [1060] [1061] [1062]) (./stats-pkg.tex Chapter 7. [1063] Underfull \hbox (badness 2781) in paragraph at lines 57--60 []\T1/pcr/m/n/10 .MFclass \T1/ptm/m/n/10 re-turns a char-ac-ter string, one of \T1/pcr/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ordered"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "factor"\T1/ptm/m/n/10 , [1064] [1065] [1066] [1067] [1068] Overfull \hbox (12.78088pt too wide) in paragraph at lines 389--389 [] \T1/pcr/m/n/10 addmargins(A, margin = 1:length(dim(A)), FUN = sum, quiet = FALSE)[] [1069] [1070] [1071] [1072] [1073] [1074] Underfull \hbox (badness 1024) in paragraph at lines 704--706 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/pcr/m/n/10 lm \T1/ptm/m/n/10 or \T1/pcr/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1075] [1076] [1077] [1078] [1079] [1080] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1009--1009 [] \T1/pcr/m/n/10 c("Pillai", "Wilks", "Hotelling-Lawley", "Roy", "Sph erical"),[] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2291--2291 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(0), ma = numeric(0), lag.max = r, pacf = FALSE)[] [1103] [1104] [1105] [1106] [1107] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2498--2498 []\T1/pcr/m/n/9 legend(40,70, c("mean","median"), lty=1,col=c("blue","green"), bg="gray90")[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2520--2520 []\T1/pcr/m/n/10 bw.ucv(x, nb = 1000, lower = 0.1 * hmax, upper = hmax, tol = 0.1 * lower)[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2522--2522 []\T1/pcr/m/n/10 bw.bcv(x, nb = 1000, lower = 0.1 * hmax, upper = hmax, tol = 0.1 * lower)[] [1108] [1109] [1110] Underfull \hbox (badness 10000) in paragraph at lines 2676--2678 []\T1/ptm/m/n/10 the char-ac-ter string \T1/pcr/m/n/10 "Bartlett test of homoge neity of [1111] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2719--2719 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2720--2720 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3247--3247 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0)[] [1121] [1122] [1123] [1124] [1125] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3503--3503 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3504--3504 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1126] [1127] [1128] Underfull \hbox (badness 10000) in paragraph at lines 3648--3650 []\T1/ptm/m/n/10 the Pear-son resid-u-als, \T1/pcr/m/n/10 (observed - expected) / Overfull \hbox (4.38043pt too wide) in paragraph at lines 3693--3693 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1129] [1130] [1131] [1132] [1133] Underfull \hbox (badness 3989) in paragraph at lines 3931--3938 []\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 = [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4437--4437 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter"))[] [1142] Underfull \hbox (badness 10000) in paragraph at lines 4466--4468 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 r <- convolve(x,y, type = "open") \T1/ptm/m/ n/10 and \T1/pcr/m/n/10 n <- length(x)\T1/ptm/m/n/10 , \T1/pcr/m/n/10 m <- [1143] [1144] [1145] Underfull \hbox (badness 1436) in paragraph at lines 4630--4635 []\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i ng co-vari-ances Underfull \hbox (badness 1377) in paragraph at lines 4630--4635 \T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi -a-tion of) Underfull \hbox (badness 1448) in paragraph at lines 4630--4635 \T1/ptm/m/n/10 one of the strings \T1/pcr/m/n/10 "everything"\T1/ptm/m/n/10 , \ T1/pcr/m/n/10 "all.obs"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "complete.obs"\T1/ptm/m/ n/10 , [1146] [1147] [1148] [1149] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4931--4931 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE,[] [1150] [1151] [1152] [1153] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5093--5093 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL)[] [1154] [1155] [1156] [1157] [1158] Underfull \hbox (badness 5954) in paragraph at lines 5400--5402 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1159] Underfull \hbox (badness 2503) in paragraph at lines 5461--5463 []\T1/ptm/m/n/10 Objects of class \T1/pcr/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/pcr/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 5563) in paragraph at lines 5464--5466 []\T1/pcr/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/pcr/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1160] [1161] [1162] [1163] [1164] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5729--5729 [] \T1/pcr/m/n/9 ylim = c(0, 1), xlab="", main="R\TS1/pcr/m/n/9 '\T1/pcr/m /n/9 s density() kernels with width = 1")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5737--5737 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] [1165] [1166] [1167] [1168] [1169] [1170] Underfull \hbox (badness 10000) in paragraph at lines 6077--6081 \T1/pcr/m/n/10 "maximum"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "manhattan"\T1/ptm/m/n/ 10 , \T1/pcr/m/n/10 "canberra"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "binary" \T1/ptm/ m/n/10 or [1171] Underfull \hbox (badness 6493) in paragraph at lines 6165--6168 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/pcr/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 3780) in paragraph at lines 6595--6600 []\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences \T 1/pcr/m/n/10 x[t]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 x[t-1]\T1/ptm/m/n/10 , ..., \T 1/pcr/m/n/10 x[t- [1180] [1181] [1182] [1183] (/usr/share/texmf-texlive/tex/latex/base/latin1.def ) [1184] Underfull \hbox (badness 1210) in paragraph at lines 6890--6892 []\T1/ptm/m/n/10 Components of \T1/pcr/m/n/10 control \T1/ptm/m/n/10 can also b e sup-plied as named ar-gu-ments to [1185] [1186] Underfull \hbox (badness 10000) in paragraph at lines 6999--7003 [][][]\T1/pcr/m/n/10 print.loadings[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 va rimax[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 princomp[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 ability.cov[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 Harman23 .cor[][][]\T1/ptm/m/n/10 , [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7732--7732 [] \T1/pcr/m/n/9 satisfaction=c("VeryD", "LittleD", "ModerateS" , "VeryS")))[] [1200] [1201] [1202] [1203] [1204] [1205] [1206] [1207] [1208] Underfull \hbox (badness 2443) in paragraph at lines 8305--8311 [][][]\T1/pcr/m/n/10 ftable.formula[][][] \T1/ptm/m/n/10 for the for-mula in-te r-face (which al-lows a \T1/pcr/m/n/10 data = . \T1/ptm/m/n/10 ar-gu-ment); [1209] [1210] [1211] [1212] [1213] [1214] [1215] Underfull \hbox (badness 4518) in paragraph at lines 8713--8718 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1216] [1217] Underfull \hbox (badness 10000) in paragraph at lines 8829--8832 []\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][]\T1/pcr/m/n/10 coefficie nts[][][]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 effects\T1/ptm/m/n/10 , \T1/pcr/m/n/10 fitted.values \T1/ptm/m/n/10 and [1218] [1219] [1220] Underfull \hbox (badness 2142) in paragraph at lines 9007--9010 []\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 ^^@ [1221] Underfull \hbox (badness 1708) in paragraph at lines 9075--9078 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1222] Underfull \hbox (badness 10000) in paragraph at lines 9113--9119 [][][]\T1/pcr/m/n/10 glm[][][] \T1/ptm/m/n/10 for com-put-ing \T1/pcr/m/n/10 gl m.obj\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 anova.glm[][][]\T1/ptm/m/n/10 ; the co r-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions, [1223] [1224] Underfull \hbox (badness 2635) in paragraph at lines 9264--9270 []\T1/ptm/m/n/10 There are [][]\T1/pcr/m/n/10 print[][][]\T1/ptm/m/n/10 , [][]\ T1/pcr/m/n/10 plot[][][] \T1/ptm/m/n/10 and \T1/pcr/m/n/10 identify \T1/ptm/m/n /10 (see [][]\T1/pcr/m/n/10 identify.hclust[][][]\T1/ptm/m/n/10 ) meth-ods and the [1225] [1226] [1227] Underfull \hbox (badness 1694) in paragraph at lines 9412--9415 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1228] [1229] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9533--9533 [] \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 0.1),[] Underfull \hbox (badness 10000) in paragraph at lines 9545--9549 []\T1/ptm/m/n/10 Character string to se-lect an \T1/pcr/m/n/10 "additive" \T1/p tm/m/n/10 (the de-fault) or [1230] [1231] [1232] [1233] [1234] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9814--9814 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]),col=2:4), D EV.FUN = nD)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.9829 \aliasA{hat}{influence.measures}{hat} [1235] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9881--9881 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] [1236] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9893--9893 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] Underfull \hbox (badness 1062) in paragraph at lines 9936--9941 []\T1/ptm/m/n/10 The op-tional \T1/pcr/m/n/10 infl\T1/ptm/m/n/10 , \T1/pcr/m/n/ 10 res \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sd \T1/ptm/m/n/10 ar-gu-ments are ther e to en-cour-age the use of these di- Underfull \hbox (badness 1052) in paragraph at lines 9947--9949 []\T1/ptm/m/n/10 The func-tion \T1/pcr/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \hbox (badness 4518) in paragraph at lines 11260--11265 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1261] [1262] [1263] Underfull \hbox (badness 10000) in paragraph at lines 11439--11447 []\T1/ptm/m/n/10 More \T1/pcr/m/n/10 lm() \T1/ptm/m/n/10 ex-am-ples are avail-a ble e.g., in [][]\T1/pcr/m/n/10 anscombe[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/ 10 attitude[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 freeny[][][]\T1/ptm/m/n/10 , [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1163) in paragraph at lines 11736--11744 \T1/ptm/m/n/10 els, [][]\T1/pcr/m/n/10 influence[][][] \T1/ptm/m/n/10 (etc on t hat page) for re-gres-sion di-ag-nos-tics, [][]\T1/pcr/m/n/10 weighted.residual s[][][]\T1/ptm/m/n/10 , [1269] Underfull \hbox (badness 2165) in paragraph at lines 11795--11797 []\T1/ptm/m/n/10 further ar-gu-ments for other meth-ods, such as \T1/pcr/m/n/10 cutoff \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sort \T1/ptm/m/n/10 for [1270] Underfull \hbox (badness 4518) in paragraph at lines 11826--11831 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1271] [1272] [1273] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11988--11988 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11989--11989 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1274] Underfull \hbox (badness 10000) in paragraph at lines 12032--12035 []\T1/ptm/m/n/10 The dis-tri-bu-tion func-tion is a rescaled hy-per-bolic tan-g ent, \T1/pcr/m/n/10 plogis(x) == (1+ [1275] [1276] [1277] [1278] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12284--12284 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12285--12285 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \hbox (badness 2726) in paragraph at lines 12725--12728 []\T1/ptm/m/n/10 character; one of \T1/pcr/m/n/10 "logit"\T1/ptm/m/n/10 , \T1/p cr/m/n/10 "probit"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "cauchit"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "cloglog"\T1/ptm/m/n/10 , [1287] [1288] [1289] [1290] [1291] Underfull \vbox (badness 10000) has occurred while \output is active [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1648) in paragraph at lines 13541--13543 []\T1/ptm/m/n/10 a data frame cre-ated with [][]\T1/pcr/m/n/10 model.frame[][][ ]\T1/ptm/m/n/10 . If an-other sort of ob-ject, [1302] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13614--13614 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts = list(a="contr.sum", b="c ontr.poly"))[] [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14117--14117 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3)) # does not affect objects with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] [1312] [1313] [1314] [1315] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14315--14315 []\T1/pcr/m/n/9 persp(x,size, dnb <- outer(x, size, function(x,s) dnbinom(x,s, prob= 0.4)),[] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] Underfull \vbox (badness 10000) has occurred while \output is active [1326] Underfull \vbox (badness 10000) has occurred while \output is active [1327] [1328] [1329] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15067--15067 []\T1/pcr/m/n/9 NLSstAsymptotic(sortedXyData(expression(age), expression(heigh t), Lob.329))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15102--15102 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1330] Overfull \hbox (20.58041pt too wide) in paragraph at lines 15143--15143 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1331] Overfull \hbox (20.58041pt too wide) in paragraph at lines 15184--15184 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1332] [1333] [1334] [1335] [1336] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15458--15458 [] \T1/pcr/m/n/10 method = c("Nelder-Mead", "BFGS", "CG", "L-BFGS-B", "SA NN"),[] [1337] [1338] Underfull \hbox (badness 1248) in paragraph at lines 15601--15601 []\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 1127) in paragraph at lines 15601--15601 \T1/ptm/m/n/10 value by a fac-tor of \T1/pcr/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 1478) in paragraph at lines 15601--15601 \T1/ptm/m/n/10 if \T1/pcr/m/n/10 control$trace \T1/ptm/m/n/10 is pos-i-tive. De -faults to ev-ery 10 it-er-a-tions for \T1/pcr/m/n/10 "BFGS" \T1/ptm/m/n/10 and [1339] Underfull \hbox (badness 2042) in paragraph at lines 15626--15626 []\T1/ptm/m/n/10 indicates an er-ror from the \T1/pcr/m/n/10 "L-BFGS-B" \T1/ptm /m/n/10 method; see com-po-nent [1340] [1341] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15744--15744 [] \T1/pcr/m/n/9 control = list(maxit=30000, temp=2000, trace=TRUE , REPORT=500))[] Underfull \vbox (badness 10000) has occurred while \output is active [1342] Underfull \hbox (badness 2564) in paragraph at lines 15816--15827 []\T1/ptm/m/n/10 The func-tion \T1/pcr/m/n/10 f \T1/ptm/m/n/10 is never eval-u- ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m/n/1 0 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/10 t ol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 , Underfull \hbox (badness 1082) in paragraph at lines 15816--15827 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately \T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) \T1/ptm/m/n/10 and $\OML/cmm /m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa [1343] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15868--15868 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1344] [1345] [1346] [1347] [1348] Overfull \hbox (24.78088pt too wide) in paragraph at lines 16119--16119 [] \T1/pcr/m/n/10 alternative = c("two.sided", "less", "greater "), ...)[] Underfull \hbox (badness 1337) in paragraph at lines 16130--16133 []\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 [1349] [1350] [1351] [1352] [1353] [1354] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16415--16415 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1355] [1356] Overfull \hbox (42.78088pt too wide) in paragraph at lines 16498--16498 [] \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s d ist vs Leverage " * h[ii] / (1 - h[ii]))),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 16501--16501 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] Underfull \hbox (badness 2762) in paragraph at lines 16523--16527 \T1/ptm/m/n/10 oth-er-wise. If \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 , as by de-fau lt, a pos-si-ble short-ened ver-sion of [1357] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16611--16611 []\T1/pcr/m/n/9 plot(lm.SR <- lm(sr ~ pop15 + pop75 + dpi + ddpi, data = LifeC ycleSavings))[] [1358] [1359] [1360] [1361] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16780--16780 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 16789--16792 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1362] Underfull \hbox (badness 1107) in paragraph at lines 16844--16846 []\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate \T 1/pcr/m/n/10 x\T1/ptm/m/n/10 . De-faults to [1363] [1364] Overfull \hbox (20.58041pt too wide) in paragraph at lines 16985--16985 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1365] [1366] [1367] Underfull \hbox (badness 2343) in paragraph at lines 17147--17149 []\T1/ptm/m/n/10 the char-ac-ter string \T1/pcr/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/pcr/m/n/10 "Comparison of [1368] [1369] [1370] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1371] [1372] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1373] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] Underfull \hbox (badness 6859) in paragraph at lines 18008--18015 [][][]\T1/pcr/m/n/10 predict.glm[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predi ct.lm[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predict.loess[][][]\T1/ptm/m/n/1 0 , [][]\T1/pcr/m/n/10 predict.nls[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 pre dict.poly[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18016--18022 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/pcr/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/pcr/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] Overfull \hbox (6.78088pt too wide) in paragraph at lines 18886--18886 [] \T1/pcr/m/n/10 cs.ind = 1L:k, tst.ind = k + 1L, zap.ind = integ er(0),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 18889--18889 [] \T1/pcr/m/n/10 substr(colnames(x)[nc], 1L, 3L) == "Pr(",[] [1401] [1402] [1403] [1404] [1405] Underfull \hbox (badness 1337) in paragraph at lines 19181--19187 []\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 [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] Underfull \hbox (badness 10000) in paragraph at lines 19847--19850 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 5091) in paragraph at lines 19847--19850 \T1/pcr/m/n/10 cutree(hclust.obj, k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1427] Underfull \hbox (badness 8094) in paragraph at lines 20376--20379 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/pcr/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has \T1/pcr/m/n/10 y[j] = [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] Underfull \hbox (badness 1412) in paragraph at lines 21116--21118 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1442] [1443] [1444] [1445] [1446] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21445--21445 []\T1/pcr/m/n/9 (s2 <- smooth.spline(y18, control = list(trace=TRUE,tol=1e-6, low= -1.5)))[] [1447] [1448] Overfull \hbox (0.78088pt too wide) in paragraph at lines 21570--21570 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail,[] [1449] [1450] [1451] [1452] [1453] [1454] Overfull \hbox (60.78088pt too wide) in paragraph at lines 21907--21907 []\T1/pcr/m/n/10 splinefun(x, y = NULL, method = c("fmm", "periodic", "natural ", "monoH.FC"),[] [1455] [1456] [1457] Overfull \hbox (31.3804pt too wide) in paragraph at lines 22053--22053 []\T1/pcr/m/n/9 legend("topleft", paste("splinefun( \"", c("fmm", "monoH.CS"), "\" )", sep=\TS1/pcr/m/n/9 ''\T1/pcr/m/n/9 ),[] [1458] Underfull \hbox (badness 3240) in paragraph at lines 22148--22152 [][][]\T1/pcr/m/n/10 nls[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 selfStart[][] []\T1/ptm/m/n/10 ; \T1/pcr/m/n/10 example(SSasympOff) \T1/ptm/m/n/10 gives grap h show-ing the \T1/pcr/m/n/10 SSasympOff [1459] [1460] [1461] [1462] Underfull \hbox (badness 10000) in paragraph at lines 22362--22365 \T1/pcr/m/n/10 exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input)-exp(-exp(lKa)*input)) / [1463] Overfull \hbox (15.18042pt too wide) in paragraph at lines 22381--22381 []\T1/pcr/m/n/9 SSfol( Theoph.1$Dose, Theoph.1$Time, lKe, lKa, lCl ) # respons e and gradient[] [1464] [1465] Underfull \hbox (badness 2922) in paragraph at lines 22516--22521 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/pcr/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1466] Underfull \hbox (badness 2922) in paragraph at lines 22564--22569 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/pcr/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1467] [1468] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22647--22647 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22649--22649 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] [1469] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22700--22700 []\T1/pcr/m/n/10 stat.anova(table, test = c("Chisq", "F", "Cp"), scale, df.sca le, n)[] [1470] [1471] [1472] [1473] Underfull \hbox (badness 4353) in paragraph at lines 22958--22962 []\T1/ptm/m/n/10 A func-tion of class \T1/pcr/m/n/10 "stepfun"\T1/ptm/m/n/10 , say \T1/pcr/m/n/10 fn\T1/ptm/m/n/10 . There are meth-ods avail-able for sum- Underfull \hbox (badness 1342) in paragraph at lines 22958--22962 \T1/ptm/m/n/10 ma-riz-ing (\T1/pcr/m/n/10 "summary(.)"\T1/ptm/m/n/10 ), rep-re- sent-ing (\T1/pcr/m/n/10 "print(.)"\T1/ptm/m/n/10 ) and plot-ting (\T1/pcr/m/n/ 10 "plot(.)"\T1/ptm/m/n/10 , see [1474] [1475] [1476] [1477] Overfull \hbox (6.78088pt too wide) in paragraph at lines 23161--23161 [] \T1/pcr/m/n/10 main = NULL, range.bars = TRUE, ..., col.range = "light gray")[] [1478] [1479] [1480] [1481] [1482] Underfull \hbox (badness 3396) in paragraph at lines 23447--23449 []\T1/ptm/m/n/10 an ob-ject of class \T1/pcr/m/n/10 "summary.glm"\T1/ptm/m/n/10 , usu-ally, a re-sult of a call to [1483] [1484] [1485] Underfull \hbox (badness 2237) in paragraph at lines 23613--23615 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/p cr/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1486] [1487] [1488] Underfull \hbox (badness 2591) in paragraph at lines 23759--23761 []\T1/ptm/m/n/10 an ob-ject of class \T1/pcr/m/n/10 "summary.nls"\T1/ptm/m/n/10 , usu-ally the re-sult of a call to [1489] Underfull \hbox (badness 2237) in paragraph at lines 23803--23806 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/p cr/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1490] [1491] [1492] Underfull \hbox (badness 3407) in paragraph at lines 23966--23970 []\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m ented\T1/ptm/m/n/10 , see \T1/pcr/m/n/10 corr \T1/ptm/m/n/10 be-low) [1493] [1494] Underfull \hbox (badness 1337) in paragraph at lines 24092--24096 []\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 [1495] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1496] [1497] [1498] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24335--24335 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1499] Underfull \hbox (badness 1616) in paragraph at lines 24358--24361 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1500] [1501] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24474--24474 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1502] Underfull \hbox (badness 2205) in paragraph at lines 24552--24557 []\T1/ptm/m/n/10 If a \T1/pcr/m/n/10 specials \T1/ptm/m/n/10 ar-gu-ment was giv en to [][]\T1/pcr/m/n/10 terms.formula[][][] \T1/ptm/m/n/10 there is a [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] Underfull \hbox (badness 10000) in paragraph at lines 25012--25016 []\T1/ptm/m/n/10 The \T1/pcr/m/n/10 tsp \T1/ptm/m/n/10 at-tribute was pre-vi-ou sly de-scribed here as \T1/pcr/m/n/10 c(start(x), end(x), [1512] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25082--25082 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25083--25083 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] [1521] Underfull \hbox (badness 1337) in paragraph at lines 25527--25531 []\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 [1522] [1523] [1524] [1525] Underfull \hbox (badness 1043) in paragraph at lines 25746--25749 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/pcr/m/n/10 -pweibull(t, a, b, lower = Overfull \hbox (4.38043pt too wide) in paragraph at lines 25768--25768 []\T1/pcr/m/n/9 all.equal(pweibull(x, 2.5, pi, lower.tail=FALSE, log.p=TRUE), -(x/pi)^2.5,[] [1526] [1527] [1528] Underfull \hbox (badness 1337) in paragraph at lines 25887--25891 []\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 [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536]) (./tools-pkg.tex Chapter 8. Overfull \hbox (36.78088pt too wide) in paragraph at lines 33--33 []\T1/pcr/m/n/10 buildVignettes(package, dir, lib.loc = NULL, quiet = TRUE, cl ean = TRUE)[] [1537] Underfull \hbox (badness 2809) in paragraph at lines 87--92 []\T1/pcr/m/n/10 Adobe_glyphs \T1/ptm/m/n/10 in-clude all the Adobe glyph names which cor-re-spond to sin-gle Uni- Underfull \hbox (badness 1057) in paragraph at lines 87--92 \T1/ptm/m/n/10 code char-ac-ters. It is sorted by Uni-code point and within a p oint al-pha-bet-i-cally on the Underfull \hbox (badness 10000) in paragraph at lines 94--95 [][][]$\T1/pcr/m/n/10 http : / / partners . adobe . com / public / developer / en / opentype / glyphlist . [1538] [1539] [1540] [1541] [1542] [1543] Underfull \hbox (badness 10000) in paragraph at lines 407--410 []\T1/pcr/m/n/10 codocClasses \T1/ptm/m/n/10 and \T1/pcr/m/n/10 codocData \T1/p tm/m/n/10 re-turn ob-jects of class \T1/pcr/m/n/10 "codocClasses" \T1/ptm/m/n/1 0 and [1544] [1545] Overfull \hbox (54.78088pt too wide) in paragraph at lines 476--476 [] \T1/pcr/m/n/10 installed = installed.packages(lib.loc, fields = "Enhances"))[] Underfull \hbox (badness 7981) in paragraph at lines 482--485 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1546] [1547] [1548] [1549] [1550] [1551] [1552] Overfull \hbox (12.78088pt too wide) in paragraph at lines 861--861 [] \T1/pcr/m/n/10 depLevel = c("Depends", "Imports", "Sugg ests"))[] [1553] Overfull \hbox (18.78088pt too wide) in paragraph at lines 894--894 []\T1/pcr/m/n/10 parse_Rd(file, srcfile = NULL, encoding = "unknown", verbose = FALSE)[] [1554] [1555]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.Rd2txt}) has been already used, duplicate ignored \relax l.1046 \aliasA{Rd2txt}{Rd2HTML}{Rd2txt} Overfull \hbox (42.78088pt too wide) in paragraph at lines 1061--1061 []\T1/pcr/m/n/10 Rd2latex(Rd, out = "", defines = .Platform$OS.type, encoding = "unknown")[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1063--1063 []\T1/pcr/m/n/10 Rd2ex(Rd, out = "", defines = .Platform$OS.type, encoding = " unknown")[] [1556] Underfull \hbox (badness 1072) in paragraph at lines 1078--1080 []\T1/pcr/m/n/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-to r of links, as re-turned by [1557] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1143--1143 []\T1/pcr/m/n/9 con <- textConnection(toolsRd[[grep("Rd2HTML.Rd", names(toolsR d))]], "rt")[] [1558] [1559] [1560] [1561] [1562] [1563] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1452--1452 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"))[] Underfull \hbox (badness 2932) in paragraph at lines 1481--1484 []\T1/pcr/m/n/10 testInstalledBasic \T1/ptm/m/n/10 runs the ba-sic tests, if in -stalled. This should be run with [1564] [1565] [1566] [1567] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1674--1674 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE)[] Underfull \hbox (badness 1596) in paragraph at lines 1679--1682 []\T1/ptm/m/n/10 Character vec-tor de-scrib-ing the lo-ca-tion of the repos-i-t ory (di-rec-tory in- Underfull \hbox (badness 2103) in paragraph at lines 1679--1682 \T1/ptm/m/n/10 clud-ing source or bi-nary pack-ages) to gen-er-ate the `\T1/phv /m/n/10 PACKAGES\T1/ptm/m/n/10 ' and Underfull \hbox (badness 3895) in paragraph at lines 1683--1690 \T1/pcr/m/n/10 "Package"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Bundle"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Priority"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Version"\T1/ptm/m/n /10 , \T1/pcr/m/n/10 "Depends"\T1/ptm/m/n/10 , [1568] Underfull \hbox (badness 2680) in paragraph at lines 1711--1714 []\T1/ptm/m/n/10 Invisibly re-turns the num-ber of pack-ages de-scribed in the re-sult-ing `\T1/phv/m/n/10 PACKAGES\T1/ptm/m/n/10 ' and Underfull \hbox (badness 3803) in paragraph at lines 1727--1730 []\T1/ptm/m/n/10 See [][]\T1/pcr/m/n/10 read.dcf[][][] \T1/ptm/m/n/10 and [][]\ T1/pcr/m/n/10 write.dcf[][][] \T1/ptm/m/n/10 for read-ing `\T1/phv/m/n/10 DESCR IPTION\T1/ptm/m/n/10 ' files and writ-ing the [1569] [1570]) (./utils-pkg.tex Chapter 9. [1571] [1572] [1573] [1574] [1575] Overfull \hbox (24.78088pt too wide) in paragraph at lines 287--287 []\T1/pcr/m/n/10 browseURL(url, browser = getOption("browser"), encodeIfNeeded = FALSE)[] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1859) in paragraph at lines 506--515 []\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b e quite large the com- [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] Underfull \hbox (badness 1874) in paragraph at lines 1158--1161 []\T1/ptm/m/n/10 To just look in the `\T1/phv/m/n/10 data\T1/ptm/m/n/10 ' di-re c-tory of the cur-rent work-ing di-rec-tory, set \T1/pcr/m/n/10 package = Overfull \hbox (15.18042pt too wide) in paragraph at lines 1192--1192 []\T1/pcr/m/n/9 data(USArrests, "VADeaths") # load the data sets \TS1/pcr/m/n /9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 '\ T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] [1592] Underfull \hbox (badness 2452) in paragraph at lines 1260--1263 []\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class \T1 /pcr/m/n/10 R_dataentry\T1/ptm/m/n/10 . Re-sources [1593] [1594] [1595] [1596] [1597] [1598] Underfull \hbox (badness 1072) in paragraph at lines 1596--1602 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/pcr/m/n/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the Underfull \hbox (badness 1377) in paragraph at lines 1596--1602 \T1/pcr/m/n/10 internet.info \T1/ptm/m/n/10 op-tion. The de-tails de-pend on th e plat-form and scheme, but set-ting Underfull \hbox (badness 1057) in paragraph at lines 1620--1634 []\T1/ptm/m/n/10 Proxies can be spec-i-fied via en-vi-ron-ment vari-ables. Set- ting \T1/pcr/m/n/10 "no_proxy" \T1/ptm/m/n/10 to \T1/pcr/m/n/10 "*" \T1/ptm/m/n /10 stops Underfull \hbox (badness 1742) in paragraph at lines 1620--1634 \T1/ptm/m/n/10 fail-ing that, the all upper-case ver-sion) is con-sulted and if non-empty used as a proxy Underfull \hbox (badness 1360) in paragraph at lines 1620--1634 \T1/ptm/m/n/10 site. For FTP trans-fers, the user-name and pass-word on the pro xy can be spec-i-fied by [1599] Underfull \hbox (badness 1231) in paragraph at lines 1635--1641 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [1600] [1601] Underfull \hbox (badness 1565) in paragraph at lines 1788--1792 []\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of [1602] [1603] Underfull \hbox (badness 3758) in paragraph at lines 1892--1899 []\T1/ptm/m/n/10 logical (or \T1/pcr/m/n/10 "default"\T1/ptm/m/n/10 ) in-di-cat -ing if [][]\T1/pcr/m/n/10 devAskNewPage[][][](ask=TRUE) [1604] [1605] [1606] [1607] [1608]pdfTeX warning (ext4): destination with the s ame identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.2113 ...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.2113 ...mat Unordered and Ordered Lists}{format} [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2744--2744 [] \T1/pcr/m/n/9 ## the arguments (one integer, the ot her numeric)[] [1620] Underfull \hbox (badness 10000) in paragraph at lines 2833--2837 []\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 http : / / www . r-[]p roject . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also [1621] Underfull \hbox (badness 1502) in paragraph at lines 2875--2881 []\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 2875--2881 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [1622] [1623] [1624] [1625] [1626] [1627] Underfull \hbox (badness 5133) in paragraph at lines 3241--3245 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's Underfull \hbox (badness 1622) in paragraph at lines 3248--3251 []\T1/pcr/m/n/10 installed.packages \T1/ptm/m/n/10 scans the `\T1/phv/m/n/10 DE SCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along [1628] Underfull \hbox (badness 6047) in paragraph at lines 3262--3269 []\T1/ptm/m/n/10 A ma-trix with one row per pack-age, row names the pack-age na mes and col-umn [1629] [1630] [1631] [1632] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3493--3493 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE)[] [1633] [1634] [1635] Underfull \hbox (badness 10000) in paragraph at lines 3642--3644 []\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if [1636] [1637] [1638] [1639] [1640] [1641] [1642] Underfull \hbox (badness 1087) in paragraph at lines 4043--4048 []\T1/ptm/m/n/10 If a `\T1/phv/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [1643] [1644] Underfull \hbox (badness 10000) in paragraph at lines 4135--4138 \T1/ptm/m/n/10 plus \T1/pcr/m/n/10 "Status"\T1/ptm/m/n/10 , a fac-tor with lev- els \T1/pcr/m/n/10 c("installed", "not [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1163) in paragraph at lines 4764--4767 []\T1/ptm/m/n/10 the to-ken that was (or, is to be) com-pleted, as set by the l ast call to [1655] [1656] Underfull \hbox (badness 1072) in paragraph at lines 4873--4881 \T1/pcr/m/n/10 = FALSE\T1/ptm/m/n/10 . Oth-er-wise, try-ing to com-plete \T1/pc r/m/n/10 foo@ba \T1/ptm/m/n/10 will eval-u-ate \T1/pcr/m/n/10 foo\T1/ptm/m/n/10 , try-ing to com-plete [1657] [1658] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5023--5023 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header= TRUE, tra nspose=TRUE)[] [1659] [1660] [1661] [1662] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5244--5244 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] [1663] Underfull \hbox (badness 1077) in paragraph at lines 5308--5311 []\T1/ptm/m/n/10 Using \T1/pcr/m/n/10 row.names = NULL \T1/ptm/m/n/10 forces ro w num-ber-ing. Miss-ing or \T1/pcr/m/n/10 NULL [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] Underfull \hbox (badness 10000) in paragraph at lines 5820--5824 \T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral s \ &oldid = 78252134$[][]\T1/ptm/m/n/10 . [1673] [1674] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5926--5926 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0)[] [1675] [1676] [1677] [1678] Underfull \hbox (badness 6725) in paragraph at lines 6135--6144 \T1/ptm/m/n/10 (\T1/pcr/m/n/10 score\T1/ptm/m/n/10 , \T1/pcr/m/n/10 date:late \ T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first, Underfull \hbox (badness 6428) in paragraph at lines 6135--6144 \T1/pcr/m/n/10 date:early \T1/ptm/m/n/10 for ear-li-est first, \T1/pcr/m/n/10 s ubject \T1/ptm/m/n/10 for sub-ject in al-pha-bet-i- Underfull \hbox (badness 10000) in paragraph at lines 6135--6144 \T1/ptm/m/n/10 cal or-der, \T1/pcr/m/n/10 subject:descending \T1/ptm/m/n/10 for re-verse al-pha-bet-i-cal or-der, Underfull \hbox (badness 1997) in paragraph at lines 6135--6144 \T1/pcr/m/n/10 from \T1/ptm/m/n/10 or \T1/pcr/m/n/10 from:descending \T1/ptm/m/ n/10 for sender (when ap-pli-ca-ble), \T1/pcr/m/n/10 size \T1/ptm/m/n/10 or [1679] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6173--6173 []\T1/pcr/m/n/9 ## Search in R-devel archive and recent mail (and store the qu ery-string):[] [1680] Underfull \hbox (badness 10000) in paragraph at lines 6251--6253 [][][]$\T1/pcr/m/n/10 http : / / en . wikipedia . org / wiki / Ctags$[][]\T1/pt m/m/n/10 , [][]$\T1/pcr/m/n/10 http : / / www . gnu . org / software / [1681] [1682] [1683] [1684] [1685] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6531--6531 []\T1/pcr/m/n/10 select.list(list, preselect = NULL, multiple = FALSE, title = NULL)[] [1686] [1687] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6611--6611 []\T1/pcr/m/n/10 setRepositories(graphics = getOption("menu.graphics"), ind = NULL)[] [1688] [1689] [1690] [1691] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6835--6835 [] \T1/pcr/m/n/10 format(x, trim=TRUE, drop0trailing=TRU E, ...))[] Underfull \hbox (badness 5970) in paragraph at lines 6862--6865 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive Underfull \hbox (badness 2600) in paragraph at lines 6862--6865 [][]\T1/pcr/m/n/10 options[][][]("width")\T1/ptm/m/n/10 ; note that this has on ly a weak ef-fect, un-less [1692] [1693] [1694] [1695] (/usr/share/texmf-texlive/tex/latex/base/latin1.def ) Underfull \hbox (badness 5504) in paragraph at lines 7086--7089 []\T1/ptm/m/n/10 An ob-ject of class \T1/pcr/m/n/10 SweaveSyntax \T1/ptm/m/n/10 or a char-ac-ter string with its Underfull \hbox (badness 3635) in paragraph at lines 7086--7089 \T1/ptm/m/n/10 name. The de-fault in-stal-la-tion pro-vides \T1/pcr/m/n/10 Swea veSyntaxNoweb \T1/ptm/m/n/10 and [1696] Underfull \hbox (badness 1178) in paragraph at lines 7110--7122 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, a num-ber of hook func- tions can be ex-e-cuted. 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For ex-am-ple, [1713] [1714] Underfull \hbox (badness 3872) in paragraph at lines 8155--8157 []\T1/ptm/m/n/10 character string: the method to be used, an empty string in-di -cates [1715] [1716]) (./refman.ind [1717] [1718] [1719] [1720] [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] Overfull \hbox (20.8567pt too wide) in paragraph at lines 3093--3095 []\T1/pcr/m/n/10 derivedDefaultMethodWithTrace-class [1744] [1745] [1746] [1747] [1748] [1749] Overfull \hbox (20.8567pt too wide) in paragraph at lines 3944--3946 []\T1/pcr/m/n/10 groupGenericFunctionWithTrace-class [1750] [1751] [1752] [1753] [1754] [1755] [1756] Overfull \hbox (8.8567pt too wide) in paragraph at lines 4986--4988 []\T1/pcr/m/n/10 nonstandardGenericWithTrace-class [1757] Overfull \hbox (26.8567pt too wide) in paragraph at lines 5068--5070 []\T1/pcr/m/n/10 Ops,nonStructure,nonStructure-method [1758] Underfull \vbox (badness 1484) has occurred while \output is active [1759] [1760] [1761] Overfull \hbox (4.01662pt too wide) in paragraph at lines 5611--5613 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 5656--5658 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Underfull \vbox (badness 1117) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775]) (./refman.aux) ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.tkProgressBar} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.tk.Rul.select.list} has been referenced but doe s not exist, replaced by a fixed one pdfTeX warning (dest): 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warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.survival} has been referenced but does not exis t, replaced by a fixed one {/usr/share/texmf-texlive/fonts/enc/dvips/base/8r.enc} Output written on refman.pdf (1802 pages, 8610459 bytes). Transcript written on refman.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) %&-line parsing enabled. entering extended mode (./refman.tex LaTeX2e <2005/12/01> Babel and hyphenation patterns for english, usenglishmax, dumylang, noh yphenation, loaded. (/usr/share/texmf-texlive/tex/latex/base/book.cls Document Class: book 2005/09/16 v1.4f Standard LaTeX document class (/usr/share/texmf-texlive/tex/latex/base/bk10.clo)) (../../share/texmf/Rd.sty (/usr/share/texmf-texlive/tex/latex/base/ifthen.sty) (/usr/share/texmf-texlive/tex/latex/tools/longtable.sty) (/usr/share/texmf-texlive/tex/latex/tools/bm.sty) (/usr/share/texmf-texlive/tex/latex/base/alltt.sty) (/usr/share/texmf-texlive/tex/latex/tools/verbatim.sty) (/usr/share/texmf-texlive/tex/latex/ltxmisc/url.sty) (../../share/texmf/upquote.sty (/usr/share/texmf-texlive/tex/latex/base/textcomp.sty (/usr/share/texmf-texlive/tex/latex/base/ts1enc.def))) NOT loading ae (/usr/share/texmf-texlive/tex/latex/base/fontenc.sty (/usr/share/texmf-texlive/tex/latex/base/t1enc.def)) (/usr/share/texmf-texlive/tex/latex/psnfss/times.sty) NOT loading lmodern (/usr/share/texmf-texlive/tex/latex/graphics/color.sty (/etc/texmf/tex/latex/config/color.cfg) (/usr/share/texmf-texlive/tex/latex/pdftex-def/pdftex.def)) (/usr/share/texmf-texlive/tex/latex/hyperref/hyperref.sty (/usr/share/texmf-texlive/tex/latex/graphics/keyval.sty) (/usr/share/texmf-texlive/tex/latex/hyperref/pd1enc.def) (/etc/texmf/tex/latex/config/hyperref.cfg) (/usr/share/texmf-texlive/tex/latex/oberdiek/kvoptions.sty) Implicit mode ON; LaTeX internals redefined ) *hyperref using default driver hpdftex* (/usr/share/texmf-texlive/tex/latex/hyperref/hpdftex.def) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 315. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 315. ) (/usr/share/texmf-texlive/tex/latex/base/inputenc.sty (/usr/share/texmf-texlive/tex/latex/base/latin1.def)) (/usr/share/texmf-texlive/tex/latex/base/makeidx.sty) Writing index file refman.idx (./refman.aux) (/usr/share/texmf-texlive/tex/latex/base/ts1cmr.fd) (/usr/share/texmf-texlive/tex/latex/psnfss/t1ptm.fd) (/usr/share/texmf-texlive/tex/latex/hyperref/nameref.sty (/usr/share/texmf-texlive/tex/latex/oberdiek/refcount.sty)) (./refman.out) (./refman.out) (/usr/share/texmf-texlive/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texmf-texlive/tex/latex/psnfss/ts1ptm.fd) [1{/var/l ib/texmf/fonts/map/pdftex/updmap/pdftex.map}] (./refman.toc (/usr/share/texmf-texlive/tex/latex/psnfss/t1pcr.fd) [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24]) [25] [26] (./base-pkg.tex Chapter 1. [1] Underfull \hbox (badness 1248) in paragraph at lines 71--78 \T1/pcr/m/n/10 base^neg.ulp.digits \T1/ptm/m/n/10 if \T1/pcr/m/n/10 base \T1/pt m/m/n/10 is 2 or \T1/pcr/m/n/10 round \T1/ptm/m/n/10 is 0; oth-er-wise, it Underfull \hbox (badness 1117) in paragraph at lines 81--86 []\T1/ptm/m/n/10 the largest fi-nite floating-point num-ber. Typ-i-cally, it is equal to \T1/pcr/m/n/10 (1 - [2] [3] Underfull \hbox (badness 10000) in paragraph at lines 206--209 [][][]\T1/pcr/m/n/10 R.version[][][] \T1/ptm/m/n/10 and [][]\T1/pcr/m/n/10 Sys. info[][][] \T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-lar, [4] Underfull \hbox (badness 2359) in paragraph at lines 247--250 []\T1/ptm/m/n/10 logical: should \T1/pcr/m/n/10 minlength \T1/ptm/m/n/10 be ob- served strictly? Note that set-ting [5] [6] [7] [8] [9] (/usr/share/texmf-texlive/tex/latex/psnfss/ts1pcr.fd) [10] Overfull \hbox (0.78088pt too wide) in paragraph at lines 582--582 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F ALSE)[] [11] [12] [13] [14] Underfull \hbox (badness 1838) in paragraph at lines 808--811 []\T1/ptm/m/n/10 If the calls to \T1/pcr/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/pcr/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Underfull \hbox (badness 10000) in paragraph at lines 1355--1357 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [25] [26] [27] [28] [29] [30] [31] Underfull \hbox (badness 5878) in paragraph at lines 1798--1803 []\T1/ptm/m/n/10 The ex-trac-tion func-tion first looks for an ex-act match to \T1/pcr/m/n/10 which \T1/ptm/m/n/10 amongst the at- Underfull \hbox (badness 10000) in paragraph at lines 1798--1803 \T1/ptm/m/n/10 tributes of \T1/pcr/m/n/10 x\T1/ptm/m/n/10 , then (un-less \T1/p cr/m/n/10 exact = TRUE\T1/ptm/m/n/10 ) a unique par-tial match. (Set-ting [32] [33] [34] [35] [36] Underfull \hbox (badness 5147) in paragraph at lines 2052--2056 []\T1/ptm/m/n/10 The orig-i-nal help page for these func-tions is of-ten avail- able at \T1/pcr/m/n/10 help("oldName- [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 10000) in paragraph at lines 2495--2497 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 2521) in paragraph at lines 3369--3371 []\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 [60] [61] [62] [63] [64] Underfull \hbox (badness 1270) in paragraph at lines 3665--3673 []\T1/ptm/m/n/10 When a generic func-tion \T1/pcr/m/n/10 fun \T1/ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute \T1/pcr/m/n/10 c("first", [65] [66] [67] [68] [69] [70] [71] [72] Underfull \hbox (badness 2443) in paragraph at lines 4117--4123 []\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i n-tro-duc-tion see [][]$\T1/pcr/m/n/10 http : / / Overfull \hbox (4.38043pt too wide) in paragraph at lines 4141--4141 []\T1/pcr/m/n/9 z <- c(32:126, 160:255) # range of most 8-bit charsets, Latin- 1 in Unicode[] [73] [74] [75] [76] [77] Underfull \hbox (badness 1635) in paragraph at lines 4408--4411 []\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class \T1/pcr/m/n/1 0 interrupt \T1/ptm/m/n/10 that in-her-its di-rectly from class Underfull \hbox (badness 3009) in paragraph at lines 4412--4415 []\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. They can be es-tab-lished us-ing Underfull \hbox (badness 1102) in paragraph at lines 4429--4442 []\T1/ptm/m/n/10 New restarts for \T1/pcr/m/n/10 withRestarts \T1/ptm/m/n/10 ca n be spec-i-fied in sev-eral ways. The sim-plest is in Underfull \hbox (badness 1308) in paragraph at lines 4443--4451 []\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i s \T1/pcr/m/n/10 interactive\T1/ptm/m/n/10 . This should [78] [79] [80] [81] Underfull \hbox (badness 10000) in paragraph at lines 4711--4721 []\T1/ptm/m/n/10 A note on \T1/pcr/m/n/10 file:// \T1/ptm/m/n/10 URLs. The most gen-eral form (from RFC1738) is [82] Underfull \hbox (badness 5817) in paragraph at lines 4782--4788 []\T1/ptm/m/n/10 Most block-ing op-er-a-tions on URLs and sock-ets are sub-ject to the time-out set by [83] Underfull \hbox (badness 10000) in paragraph at lines 4800--4807 \T1/ptm/m/n/10 reads the X11 pri-mary se-lec-tion (see [][]$\T1/pcr/m/n/10 http : / / standards . freedesktop . org / Underfull \hbox (badness 10000) in paragraph at lines 4800--4807 \T1/pcr/m/n/10 clipboards-[]spec / clipboards-[]latest . txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as Underfull \hbox (badness 1735) in paragraph at lines 4800--4807 \T1/pcr/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as \ T1/pcr/m/n/10 "X11_secondary"\T1/ptm/m/n/10 . On most sys- Underfull \hbox (badness 3668) in paragraph at lines 4843--4850 []\T1/ptm/m/n/10 Functions mak-ing di-rect use of con-nec-tions are [][]\T1/pcr /m/n/10 readLines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 readBin[][][]\T1/ptm /m/n/10 , [][]\T1/pcr/m/n/10 readChar[][][]\T1/ptm/m/n/10 , [84] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4897--4897 []\T1/pcr/m/n/9 ## fifo example -- may fail, e.g. on Cygwin, even with OS supp ort for fifos[] Underfull \vbox (badness 3803) has occurred while \output is active [85] [86] [87] [88] [89] [90] Underfull \hbox (badness 10000) in paragraph at lines 5242--5244 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 8132) in paragraph at lines 5580--5584 []\T1/ptm/m/n/10 logical: should char-ac-ter vec-tors be con-verted to fac-tors ? The Underfull \hbox (badness 4543) in paragraph at lines 5580--5584 \T1/ptm/m/n/10 `factory-fresh' de-fault is \T1/pcr/m/n/10 TRUE\T1/ptm/m/n/10 , but this can be changed by set-ting Underfull \hbox (badness 10000) in paragraph at lines 5597--5608 []\T1/pcr/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing Underfull \hbox (badness 2875) in paragraph at lines 5597--5608 [][]\T1/pcr/m/n/10 as.data.frame[][][](optional=TRUE)\T1/ptm/m/n/10 . As that i s a generic func-tion, meth-ods can be Overfull \hbox (4.63962pt too wide) in paragraph at lines 5629--5633 []\T1/pcr/m/n/10 default.stringsAsFactors \T1/ptm/m/n/10 is a util-ity that tak es [][]\T1/pcr/m/n/10 getOption[][][]("stringsAsFactors") [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 6224--6228 \T1/pcr/m/n/10 trace("plot", browser, exit=browser, signature = c("track", [108] [109] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6334--6334 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(1+2, "y", {cat(" HO ! "); pi+2})[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6350--6350 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] [110] [111] Underfull \hbox (badness 4254) in paragraph at lines 6499--6499 []\T1/ptm/m/n/10 If the ob-ject has at-tributes (other than a \T1/pcr/m/n/10 so urce \T1/ptm/m/n/10 at-tribute), use [112] [113] Underfull \hbox (badness 1603) in paragraph at lines 6593--6596 []\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t er-mi-nant if [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] Underfull \hbox (badness 2150) in paragraph at lines 7571--7574 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 5316) in paragraph at lines 7583--7591 \T1/ptm/m/n/10 and \T1/pcr/m/n/10 anyDuplicated\T1/ptm/m/n/10 , \T1/pcr/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al-ized'' short-cut for [131] Underfull \hbox (badness 10000) in paragraph at lines 7592--7594 []\T1/pcr/m/n/10 duplicated(x, fromLast=TRUE) \T1/ptm/m/n/10 is equiv-a-lent to but faster than [132] [133] [134] Underfull \hbox (badness 10000) in paragraph at lines 7783--7786 []\T1/ptm/m/n/10 Do not use \T1/pcr/m/n/10 dyn.unload \T1/ptm/m/n/10 on a DLL l oaded by [][]\T1/pcr/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 : use [135] [136] [137] [138] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [139] [140] [141] [142] [143] Underfull \hbox (badness 5288) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val ue of [144] Underfull \hbox (badness 1152) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 Options for \T1/pcr/m/n/10 latex \T1/ptm/m/n/10 pro-cess-ing o f \T1/pcr/m/n/10 Rd \T1/ptm/m/n/10 files. Used by \T1/pcr/m/n/10 R CMD Rd2dvi \ T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 8443--8443 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [145] [146] [147] [148] Underfull \hbox (badness 10000) in paragraph at lines 8644--8646 []\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing \T1/pcr/ m/n/10 where \T1/ptm/m/n/10 as [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] Underfull \hbox (badness 10000) in paragraph at lines 10058--10062 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [172] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10101--10101 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [173] Underfull \hbox (badness 10000) in paragraph at lines 10156--10159 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ex ists[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 list.files[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 unlink[][ ][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 basename[][][]\T1/ptm/m/n/10 , Overfull \hbox (0.78088pt too wide) in paragraph at lines 10175--10175 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE)[] Underfull \hbox (badness 3965) in paragraph at lines 10199--10203 []\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, [174] [175] [176] Overfull \vbox (4.54631pt too high) has occurred while \output is active [177] [178] [179] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10575--10575 [] \T1/pcr/m/n/10 decimal.mark = ".", zero.print = NULL, drop0trailing = FAL SE, ...)[] [180] Underfull \hbox (badness 1168) in paragraph at lines 10613--10617 []\T1/ptm/m/n/10 Either a log-i-cal spec-i-fy-ing whether el-e-ments of a real or com-plex vec- Underfull \hbox (badness 2012) in paragraph at lines 10613--10617 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see [181] Underfull \hbox (badness 6944) in paragraph at lines 10691--10694 [][][]\T1/pcr/m/n/10 formatC[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 paste[][] []\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T 1/pcr/m/n/10 sprintf[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 print[][][]\T1/pt m/m/n/10 , [][]\T1/pcr/m/n/10 prettyNum[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/1 0 toString[][][]\T1/ptm/m/n/10 , [182] Underfull \hbox (badness 2865) in paragraph at lines 10757--10760 []\T1/ptm/m/n/10 A char-ac-ter string. If not spec-i-fied, it will try \T1/pcr/ m/n/10 "%Y-%m-%d" \T1/ptm/m/n/10 then [183] [184] [185] [186] [187] Underfull \hbox (badness 1024) in paragraph at lines 11009--11013 []\T1/pcr/m/n/10 "f" \T1/ptm/m/n/10 gives num-bers in the usual \T1/pcr/m/n/10 xxx.xxx \T1/ptm/m/n/10 for-mat; \T1/pcr/m/n/10 "e" \T1/ptm/m/n/10 and \T1/pcr/m /n/10 "E" \T1/ptm/m/n/10 give [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] Underfull \hbox (badness 2418) in paragraph at lines 11923--11927 []\T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \T1/pcr/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/pcr/m/n/10 CallRoutine\T1/ptm/m/n/ 10 , Underfull \hbox (badness 6510) in paragraph at lines 11930--11933 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 name \T1/ptm/m/n/10 con-tains only one sym-b ol name and \T1/pcr/m/n/10 unlist \T1/ptm/m/n/10 is \T1/pcr/m/n/10 TRUE\T1/ptm/ m/n/10 , then the sin-gle [204] Underfull \hbox (badness 2326) in paragraph at lines 11955--11962 [][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr /m/n/10 is.loaded[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .C[][][]\T1/ptm/m/n/ 10 , [][]\T1/pcr/m/n/10 .Fortran[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .Exte rnal[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 .Call[][][]\T1/ptm/m/n/10 , [205] [206] [207] [208] [209] [210] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12294--12294 [] \T1/pcr/m/n/10 perl = FALSE, value = FALSE, fixed = FALSE, useBytes = F ALSE,[] Underfull \hbox (badness 1867) in paragraph at lines 12317--12321 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] Underfull \hbox (badness 1014) in paragraph at lines 12905--12907 []\T1/ptm/m/n/10 Not all plat-forms sup-port these func-tions, al-though al-mos t all sup-port \T1/pcr/m/n/10 iconv\T1/ptm/m/n/10 . See also [221] [222] [223] [224] [225] Underfull \hbox (badness 1072) in paragraph at lines 13168--13171 []\T1/ptm/m/n/10 Sometimes it is bet-ter to use a con-struc-tion such as \T1/pc r/m/n/10 (tmp <- yes; tmp[!test] <- [226] [227] [228] [229] Underfull \hbox (badness 4217) in paragraph at lines 13403--13412 [][][]\T1/pcr/m/n/10 length[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 length<-[] [][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 dimnames[][][]\T1/ptm/m/n/10 , [][]\T1/ pcr/m/n/10 dimnames<-[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 dim[][][]\T1/ptm /m/n/10 , [][]\T1/pcr/m/n/10 dim<-[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 nam es[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 names<-[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 2057) in paragraph at lines 13418--13433 [][][]\T1/pcr/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [230] [231] [232] [233] [234] [235] [236] [237] [238] Underfull \hbox (badness 4739) in paragraph at lines 13943--13945 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [239] [240] [241] [242] [243] [244] [245] Underfull \hbox (badness 10000) in paragraph at lines 14339--14341 []\T1/pcr/m/n/10 sapply(*, simplify = FALSE, USE.NAMES = FALSE) \T1/ptm/m/n/10 is equiv-a-lent to [246] Underfull \hbox (badness 1975) in paragraph at lines 14398--14401 []\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to [247] [248] [249] [250] [251] [252] [253] Underfull \hbox (badness 10000) in paragraph at lines 14786--14790 []\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use Underfull \hbox (badness 1454) in paragraph at lines 14786--14790 [][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][]\T1/ptm/m/n/10 : this wi ll sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self [254] Underfull \hbox (badness 1221) in paragraph at lines 14833--14838 []\T1/ptm/m/n/10 Normally \T1/pcr/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of loaded pack-ages, but \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 o r \T1/pcr/m/n/10 FALSE [255] Underfull \hbox (badness 10000) in paragraph at lines 14901--14907 [][][]\T1/pcr/m/n/10 attach[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 detach[][] []\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 search[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/ m/n/10 objects[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 autoload[][][]\T1/ptm/m /n/10 , [][]\T1/pcr/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/ 10 data[][][]\T1/ptm/m/n/10 , [256] [257] Underfull \hbox (badness 10000) in paragraph at lines 15022--15026 []\T1/ptm/m/n/10 Do not use [][]\T1/pcr/m/n/10 dyn.unload[][][] \T1/ptm/m/n/10 on a DLL loaded by \T1/pcr/m/n/10 library.dynam\T1/ptm/m/n/10 : use [258] Underfull \hbox (badness 1264) in paragraph at lines 15066--15070 []\T1/phv/m/n/10 R \T1/ptm/m/n/10 is dis-tributed un-der the terms of the GNU G EN-ERAL PUB-LIC LI-CENSE Ver-sion 2, [259] [260] [261] Underfull \hbox (badness 3343) in paragraph at lines 15262--15266 [][][]\T1/pcr/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 file.ac cess[][][] \T1/ptm/m/n/10 and [][]\T1/pcr/m/n/10 files[][][] \T1/ptm/m/n/10 for many more file han-dling func-tions and [262] [263] Underfull \hbox (badness 4036) in paragraph at lines 15365--15368 []\T1/ptm/m/n/10 These set-tings are usu-ally con-trolled by the en-vi-ron-ment vari-ables \T1/pcr/m/n/10 LC_NUMERIC \T1/ptm/m/n/10 and [264] Underfull \hbox (badness 6380) in paragraph at lines 15435--15441 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- Underfull \hbox (badness 2753) in paragraph at lines 15435--15441 \T1/pcr/m/n/10 "LC_NUMERIC" \T1/ptm/m/n/10 and \T1/pcr/m/n/10 "LC_TIME"\T1/ptm/ m/n/10 . Some sys-tems will also sup-port [265] [266] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15527--15527 []\T1/pcr/m/n/9 Sys.setlocale("LC_COLLATE", "C") # turn off locale-specific sorting, usually[] [267] [268] [269] [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] [280] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16316--16316 []\T1/pcr/m/n/9 ## Simple version: intersect <- function(x, y) y[match(x, y, nomatch = 0)][] [281] [282] Underfull \hbox (badness 1655) in paragraph at lines 16422--16426 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [283] [284] [285] [286] [287] [288] [289] [290] Overfull \hbox (60.78088pt too wide) in paragraph at lines 16892--16892 []\T1/pcr/m/n/10 R --min-vsize=vl --max-vsize=vu --min-nsize=nl --max-nsize=nu --max-ppsize=N[] [291] [292] [293] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17077--17077 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 17078--17078 [] \T1/pcr/m/n/10 sort = TRUE, suffixes = c(".x",".y"), incomparables = N ULL, ...)[] [294] [295] [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 3849) in paragraph at lines 17560--17565 []\T1/pcr/m/n/10 as.name \T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter-na lly to a char-ac-ter vec-tor (so meth-ods for [302] [303] [304] [305] Underfull \hbox (badness 1609) in paragraph at lines 17761--17763 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of \T1/pcr/m/n/10 c("bytes", "chars", [306] [307] [308] [309] [310] [311] [312] [313] Underfull \hbox (badness 10000) in paragraph at lines 18201--18206 []\T1/pcr/m/n/10 loadNamespace \T1/ptm/m/n/10 does not at-tach the name space i t loads to the search path. Underfull \hbox (badness 1168) in paragraph at lines 18201--18206 \T1/pcr/m/n/10 attachNamespace \T1/ptm/m/n/10 can be used to at-tach a frame co n-tain-ing the ex-ported val-ues of a [314] [315] Underfull \hbox (badness 8189) in paragraph at lines 18364--18370 []\T1/ptm/m/n/10 The de-fault method for \T1/pcr/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] [316] [317] [318] Underfull \hbox (badness 1694) in paragraph at lines 18520--18523 []\T1/ptm/m/n/10 a char-ac-ter vec-tor with suit-able nu-meric ver-sion strings (see `De-tails'); [319] [320] [321] Underfull \hbox (badness 1603) in paragraph at lines 18714--18716 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [322] Underfull \hbox (badness 1210) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini- [323] [324] Underfull \hbox (badness 5475) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/pcr/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 3271) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able Underfull \hbox (badness 4048) in paragraph at lines 19018--19018 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue \T1/pcr/m/n/10 " [325] [326] [327] Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/pcr/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2384) in paragraph at lines 19179--19179 \T1/pcr/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a CRAN Underfull \hbox (badness 2837) in paragraph at lines 19179--19179 \T1/ptm/m/n/10 mir-ror. To avoid this do set the CRAN mir-ror, by some-thing li ke \T1/pcr/m/n/10 local({r Underfull \hbox (badness 10000) in paragraph at lines 19179--19179 \T1/pcr/m/n/10 <- getOption("repos"); r["CRAN"] <- "http://my.local.cran"; Underfull \hbox (badness 1881) in paragraph at lines 19179--19179 []\T1/ptm/m/n/10 a char-ac-ter string, the path of the com-mand used for un-zip -ping help files, or [328] [329] [330] [331] Underfull \hbox (badness 10000) in paragraph at lines 19414--19417 []\T1/pcr/m/n/10 FUN = "*" \T1/ptm/m/n/10 is han-dled in-ter-nally as a spe-cia l case, \T1/ptm/m/it/10 via \T1/pcr/m/n/10 as.vector(X) %*% [332] [333] [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] Underfull \hbox (badness 1796) in paragraph at lines 20037--20040 []\T1/ptm/m/n/10 character string (or \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/pcr/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] [357] [358] [359] Underfull \hbox (badness 7415) in paragraph at lines 21005--21009 []\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use \T1/pcr/m/n/10 R.ver sion$os \T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 1533) in paragraph at lines 21354--21357 []\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 [366] Underfull \hbox (badness 1337) in paragraph at lines 21444--21447 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 finite \T1/ptm/m/n/10 is \T1/pcr/m/n/10 TRUE \T1/ptm/m/n/10 , the min-i-mum and max-i-mum of all fi-nite val-ues is com-pute d, i.e., [367] [368] Underfull \hbox (badness 1038) in paragraph at lines 21502--21512 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/pcr/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [369] [370] [371] [372] [373] [374] [375] Underfull \hbox (badness 10000) in paragraph at lines 21926--21930 \T1/pcr/m/n/10 "double", "integer", "int", "logical", "complex", [376] [377] [378] [379] [380] [381] [382] [383] [384] [385] Underfull \hbox (badness 2486) in paragraph at lines 22471--22483 []\T1/ptm/m/n/10 The pre-cise way char-ac-ter ranges are in-ter-preted de-pends on the val-ues of \T1/pcr/m/n/10 perl \T1/ptm/m/n/10 and Underfull \hbox (badness 1168) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 may in-clude `\T1/pcr/m/n/10 x\T1/ptm/m/n/10 ' and if it does ma y or may not in-clude `\T1/pcr/m/n/10 w\T1/ptm/m/n/10 '. (In most En-glish lo-c ales Underfull \hbox (badness 1199) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 the col-la-tion or-der is `\T1/pcr/m/n/10 wWxXyYzZ\T1/ptm/m/n/10 '.) For case-less match-ing the char-ac-ters in a range are Underfull \hbox (badness 1389) in paragraph at lines 22471--22483 \T1/ptm/m/n/10 in-ter-preted as if in lower case, so in an En-glish lo-cale `\T 1/pcr/m/n/10 [W-z]\T1/ptm/m/n/10 ' matches `\T1/pcr/m/n/10 WXYZwxyz\T1/ptm/m/n/ 10 '. [386] [387] [388] Underfull \hbox (badness 5417) in paragraph at lines 22724--22727 [][][]\T1/pcr/m/n/10 grep[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 apropos[][][ ]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 browseEnv[][][]\T1/ptm/m/n/10 , [][]\T1/pc r/m/n/10 glob2rx[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 help.search[][][]\T1/ ptm/m/n/10 , [][]\T1/pcr/m/n/10 list.files[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/ n/10 ls[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 22728--22729 [][][]$\T1/pcr/m/n/10 http : / / www . opengroup . org / onlinepubs / 009695399 / basedefs / xbd _ [389] [390] [391] [392] [393] Underfull \hbox (badness 10000) in paragraph at lines 22982--22986 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [394] [395] [396] [397] [398] [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] Underfull \hbox (badness 1158) in paragraph at lines 23962--23967 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if Underfull \hbox (badness 10000) in paragraph at lines 23984--23988 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1762) in paragraph at lines 23984--23988 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions [411] [412] [413] [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 24320--24323 []\T1/ptm/m/n/10 The fourth form gen-er-ates the se-quence \T1/pcr/m/n/10 1, 2, ..., length(along.with)\T1/ptm/m/n/10 . Underfull \hbox (badness 2809) in paragraph at lines 24324--24329 []\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence \T1/pcr/m/n/10 1, 2, ..., length(from) \T1/ptm/m/n/10 (as if ar-gu-ment [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] [428] Underfull \hbox (badness 4303) in paragraph at lines 25001--25004 []\T1/pcr/m/n/10 split = TRUE \T1/ptm/m/n/10 only splits \T1/phv/m/n/10 R \T1/p tm/m/n/10 out-put (via \T1/pcr/m/n/10 Rvprintf\T1/ptm/m/n/10 ) and the de-fault out-put from [429] [430] [431] [432] [433] [434] [435] Overfull \hbox (31.3804pt too wide) in paragraph at lines 25394--25394 []\T1/pcr/m/n/9 is.unsorted(x, strictly=TRUE) #-> TRUE : is not (and cannot be ) sorted strictly[] [436] [437] [438] [439] [440] [441] [442] [443] Overfull \hbox (4.38043pt too wide) in paragraph at lines 25830--25830 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [444] Underfull \hbox (badness 10000) in paragraph at lines 25946--25946 []\T1/ptm/m/n/10 Double pre-ci-sion value, in ``\T1/ptm/b/n/10 e\T1/ptm/m/n/10 xponential'' dec-i-mal no-ta-tion of the form [445] [446] Underfull \vbox (badness 3803) has occurred while \output is active [447] [448] Underfull \hbox (badness 1087) in paragraph at lines 26159--26161 []\T1/ptm/m/n/10 Markus Kuhn, ``ASCII and Uni-code quo-ta-tion marks''. [][]$\T 1/pcr/m/n/10 http : / / www . cl . cam . ac . uk / [449] [450] [451] Underfull \hbox (badness 6526) in paragraph at lines 26344--26354 []\T1/ptm/m/n/10 Then \T1/phv/m/n/10 R \T1/ptm/m/n/10 searches for the site-wid e startup pro-file un-less the com-mand line op-tion [452] [453] [454] [455] [456] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26660--26660 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [457] [458] [459] [460] [461] Overfull \hbox (0.78088pt too wide) in paragraph at lines 26967--26967 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [462] [463] [464] Overfull \hbox (6.78088pt too wide) in paragraph at lines 27148--27148 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] [465] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27187--27187 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [466] [467] [468] [469] [470] [471] [472] Underfull \hbox (badness 10000) in paragraph at lines 27579--27582 []\T1/ptm/m/n/10 integer, used for num-ber for-mat-ting with [][]\T1/pcr/m/n/10 signif[][][]() \T1/ptm/m/n/10 (for Overfull \hbox (4.38043pt too wide) in paragraph at lines 27611--27611 []\T1/pcr/m/n/9 summary(attenu, digits = 4) #-> summary.data.frame(...), defau lt precision[] [473] [474] [475] [476] [477] [478] [479] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27952--27952 []\T1/pcr/m/n/9 ## whether HOST is set will be shell-dependent e.g. Solaris\TS 1/pcr/m/n/9 ' \T1/pcr/m/n/9 csh does not.[] [480] [481] [482] [483] Underfull \hbox (badness 10000) in paragraph at lines 28173--28177 []\T1/pcr/m/n/10 sys.status() \T1/ptm/m/n/10 re-turns a list with com-po-nents \T1/pcr/m/n/10 sys.calls\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sys.parents \T1/ptm/m/n /10 and Underfull \hbox (badness 1584) in paragraph at lines 28187--28190 []\T1/pcr/m/n/10 sys.call \T1/ptm/m/n/10 re-turns a call, \T1/pcr/m/n/10 sys.fu nction \T1/ptm/m/n/10 a func-tion def-i-ni-tion, and \T1/pcr/m/n/10 sys.frame \ T1/ptm/m/n/10 and [484] [485] [486] [487] Underfull \hbox (badness 1082) in paragraph at lines 28407--28410 []\T1/ptm/m/n/10 logical. If \T1/pcr/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [488] [489] [490] [491] [492] [493] [494] Overfull \hbox (6.78088pt too wide) in paragraph at lines 28801--28801 []\T1/pcr/m/n/10 table(..., exclude = if (useNA == "no") c(NA, NaN), useNA = c ("no",[] Underfull \hbox (badness 1270) in paragraph at lines 28818--28821 []\T1/ptm/m/n/10 levels to re-move from all fac-tors in \T1/pcr/m/n/10 ...\T1/p tm/m/n/10 . If set to \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 , it im-plies [495] Underfull \hbox (badness 4096) in paragraph at lines 28880--28883 []\T1/ptm/m/n/10 Use [][]\T1/pcr/m/n/10 ftable[][][] \T1/ptm/m/n/10 for print-i ng (and more) of mul-ti-di-men-sional ta-bles. [][]\T1/pcr/m/n/10 margin.table[ ][][]\T1/ptm/m/n/10 , [496] [497] [498] [499] Underfull \hbox (badness 10000) in paragraph at lines 29098--29100 []\T1/pcr/m/n/10 removeTaskCallback \T1/ptm/m/n/10 un-registers a func-tion tha t was reg-is-tered ear-lier via [500] [501] Underfull \hbox (badness 10000) in paragraph at lines 29175--29178 [][][]\T1/pcr/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$http : / / developer . [502] [503] Underfull \hbox (badness 5475) in paragraph at lines 29294--29298 [][][]\T1/pcr/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 http : / / [504] Underfull \hbox (badness 10000) in paragraph at lines 29351--29355 [][][]\T1/pcr/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/pcr/m/n/10 http : [505] [506] [507] [508] [509] Underfull \hbox (badness 1436) in paragraph at lines 29663--29667 \T1/ptm/m/n/10 file sys-tem varies, e.g. `\T1/phv/m/n/10 /usr/share/zoneinfo\T1 /ptm/m/n/10 ', `\T1/phv/m/n/10 /usr/etc/zoneinfo\T1/ptm/m/n/10 ', `\T1/phv/m/n/ 10 /usr/lib/zoneinfo\T1/ptm/m/n/10 ' or Underfull \hbox (badness 3460) in paragraph at lines 29683--29685 [][][]$\T1/pcr/m/n/10 http : / / en . wikipedia . org / wiki / Time _ zone$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 http : / / www . twinsun . com / [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] Underfull \hbox (badness 1708) in paragraph at lines 30305--30314 []\T1/pcr/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 3713) in paragraph at lines 30305--30314 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the \T1 /pcr/m/n/10 stderr \T1/ptm/m/n/10 con-nec-tion un-less Underfull \hbox (badness 4859) in paragraph at lines 30321--30326 [][][]\T1/pcr/m/n/10 options[][][] \T1/ptm/m/n/10 for set-ting er-ror han-dlers and sup-press-ing the print-ing of er-ror mes-sages; [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] Underfull \hbox (badness 3668) in paragraph at lines 31114--31116 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] Underfull \hbox (badness 2846) in paragraph at lines 31758--31762 []\T1/pcr/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [546] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31781--31781 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] Underfull \hbox (badness 3209) in paragraph at lines 31800--31804 []\T1/pcr/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [547]) (./datasets-pkg.tex [548] Chapter 2. Underfull \hbox (badness 10000) in paragraph at lines 10--12 []\T1/ptm/m/n/10 This pack-age con-tains a va-ri-ety of datasets. For a com-ple te list, use [549] [550] [551] [552] [553] Underfull \vbox (badness 10000) has occurred while \output is active [554] Overfull \hbox (4.38043pt too wide) in paragraph at lines 309--309 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi ven = FALSE)[] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [566] [567] [568] [569] [570] [571] [572] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [573] Underfull \vbox (badness 3746) has occurred while \output is active [574] Underfull \hbox (badness 10000) in paragraph at lines 1275--1278 []\T1/ptm/m/n/10 Finally, \T1/pcr/m/n/10 freeny \T1/ptm/m/n/10 is a data frame with vari-ables \T1/pcr/m/n/10 y\T1/ptm/m/n/10 , \T1/pcr/m/n/10 lag.quarterly.r evenue\T1/ptm/m/n/10 , Underfull \hbox (badness 2903) in paragraph at lines 1275--1278 \T1/pcr/m/n/10 price.index\T1/ptm/m/n/10 , \T1/pcr/m/n/10 income.level\T1/ptm/m /n/10 , and \T1/pcr/m/n/10 market.potential \T1/ptm/m/n/10 ob-tained from the a bove [575] [576] Underfull \hbox (badness 1325) in paragraph at lines 1345--1350 []\T1/ptm/m/n/10 Friendly, M. (1992a) Graph-i-cal meth-ods for cat-e-gor-i-cal data. \T1/ptm/m/it/10 SAS User Group In-ter-na- [577] [578] Overfull \vbox (18.51595pt too high) has occurred while \output is active [579] [580] [581] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1620--1620 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] [582] [583] Overfull \vbox (7.76057pt too high) has occurred while \output is active [584] [585] [586] [587] [588] [589] [590] [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [602] Underfull \vbox (badness 7415) has occurred while \output is active [603] [604] [605] [606] [607] Underfull \hbox (badness 5175) in paragraph at lines 2932--2935 []\T1/ptm/m/n/10 Files for all 182 dis-tricts in 1888 and other years have been avail-able at [][]$\T1/pcr/m/n/10 http : Underfull \hbox (badness 10000) in paragraph at lines 2932--2935 \T1/pcr/m/n/10 / / opr . princeton . edu / archive / eufert / switz . html$[][] \T1/ptm/m/n/10 or [][]$\T1/pcr/m/n/10 http : / / opr . [608] [609] [610] [611] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3141--3141 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] [612] Underfull \hbox (badness 10000) in paragraph at lines 3166--3169 []\T1/ptm/m/n/10 Time Se-ries Data Li-brary: [][]$\T1/pcr/m/n/10 http : / / www -[]personal . buseco . monash . edu . au / Underfull \vbox (badness 10000) has occurred while \output is active [613] [614] [615] [616] [617] [618] [619] [620] [621] [622] [623] [624] [625] [626]) (./grDevices-pkg.tex Chapter 3. [627] [628] [629] Overfull \hbox (6.78088pt too wide) in paragraph at lines 169--169 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [630] [631] [632] [633] [634] [635] [636] [637] [638] Underfull \hbox (badness 5175) in paragraph at lines 651--653 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [639] Underfull \hbox (badness 10000) in paragraph at lines 745--747 []\T1/ptm/m/n/10 For the white points [][]$\T1/pcr/m/n/10 http : / / www . efg2 . com / Lab / Graphics / Colors / [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 1140--1142 []\T1/ptm/m/n/10 The de-fault for \T1/pcr/m/n/10 dev.print \T1/ptm/m/n/10 is to pro-duce and print a postscript copy, if [647] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1214--1214 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [648] Underfull \hbox (badness 1184) in paragraph at lines 1251--1264 []\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of \T1/pcr/m /n/10 ghostscript\T1/ptm/m/n/10 , but are likely to in- Underfull \hbox (badness 1694) in paragraph at lines 1251--1264 \T1/pcr/m/n/10 "pbmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pgm"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "pgmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pgnm"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "pgnmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "pnm"\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 "pnmraw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ppm"\T1/ptm/m/n/10 , Underfull \hbox (badness 6493) in paragraph at lines 1251--1264 \T1/pcr/m/n/10 "tifflzw"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "tiffpack"\T1/ptm/m/n/1 0 , \T1/pcr/m/n/10 "tiff12nc"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "tiff24nc"\T1/ptm/ m/n/10 , \T1/pcr/m/n/10 "psmono"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "psgray"\T1/ptm /m/n/10 , [649] Underfull \hbox (badness 10000) in paragraph at lines 1339--1341 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [650] [651] [652] [653] [654] [655] [656] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [657] [658] Underfull \hbox (badness 10000) in paragraph at lines 1853--1865 [659] [660] [661] [662] [663] [664] [665] [666] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [667] [668] Underfull \hbox (badness 10000) in paragraph at lines 2401--2404 [][][]\T1/pcr/m/n/10 colors[][][] \T1/ptm/m/n/10 for the vec-tor of built-in na med col-ors; [][]\T1/pcr/m/n/10 hsv[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 gr ay[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 rainbow[][][]\T1/ptm/m/n/10 , [669] [670] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [671] [672] [673] [674] Underfull \hbox (badness 1072) in paragraph at lines 2800--2805 \T1/pcr/m/n/10 encoding\T1/ptm/m/n/10 , \T1/pcr/m/n/10 pointsize\T1/ptm/m/n/10 , \T1/pcr/m/n/10 bg\T1/ptm/m/n/10 , \T1/pcr/m/n/10 fg\T1/ptm/m/n/10 , \T1/pcr/m /n/10 pagecentre\T1/ptm/m/n/10 , \T1/pcr/m/n/10 useDingbats \T1/ptm/m/n/10 and [675] [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] Underfull \hbox (badness 5077) in paragraph at lines 3426--3432 []\T1/ptm/m/n/10 For use with \T1/pcr/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a \T1/pcr/m/n/10 printf \T1/ptm/m/n/10 for-mat such as [686] [687] Underfull \hbox (badness 1755) in paragraph at lines 3578--3580 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [688] [689] Underfull \hbox (badness 7344) in paragraph at lines 3718--3720 []\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 Underfull \hbox (badness 7397) in paragraph at lines 3727--3732 [][][]\T1/pcr/m/n/10 postscriptFonts[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 D evices[][][]\T1/ptm/m/n/10 , and [][]\T1/pcr/m/n/10 check.options[][][] \T1/ptm /m/n/10 which is called from both [690] [691] Underfull \hbox (badness 2035) in paragraph at lines 3834--3843 []\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 3735) in paragraph at lines 3834--3843 \T1/ptm/m/n/10 vided: \T1/pcr/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/pcr/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/pcr/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Helvetica- Underfull \hbox (badness 10000) in paragraph at lines 3834--3843 \T1/pcr/m/n/10 "URWBookman"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "NimbusMon"\T1/ptm/m /n/10 , \T1/pcr/m/n/10 "NimbusSan" \T1/ptm/m/n/10 (syn-onym \T1/pcr/m/n/10 "URW Helvetica"\T1/ptm/m/n/10 ), [692] Underfull \hbox (badness 4686) in paragraph at lines 3874--3880 \T1/pcr/m/n/10 "Japan1"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Japan1HeiMin"\T1/ptm/m/ n/10 , \T1/pcr/m/n/10 "Japan1GothicBBB"\T1/ptm/m/n/10 , and \T1/pcr/m/n/10 "Jap an1Ryumin" \T1/ptm/m/n/10 for [693] Underfull \hbox (badness 10000) in paragraph at lines 3898--3906 []\T1/pcr/m/n/10 Baekmuk-Batang \T1/ptm/m/n/10 can be found at [][]$\T1/pcr/m/n /10 ftp : / / ftp . mizi . com / pub / baekmuk/$[][]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 3898--3906 \T1/pcr/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/pcr/m /n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 7344) in paragraph at lines 3916--3918 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [694] [695] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4030--4030 []\T1/pcr/m/n/10 quartz(title, width, height, pointsize, family, fontsmooth, a ntialias,[] [696] Underfull \hbox (badness 10000) in paragraph at lines 4119--4121 []\T1/ptm/m/n/10 Calling \T1/pcr/m/n/10 quartz() \T1/ptm/m/n/10 sets [][]\T1/pc r/m/n/10 .Device[][][] \T1/ptm/m/n/10 to \T1/pcr/m/n/10 "quartz" \T1/ptm/m/n/10 for on-screen de-vices and to [697] [698] [699] [700] [701] Underfull \hbox (badness 10000) in paragraph at lines 4387--4390 []\T1/pcr/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [702] [703] [704] [705] [706] [707] [708] Underfull \hbox (badness 1189) in paragraph at lines 4724--4726 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [709] Underfull \hbox (badness 1132) in paragraph at lines 4787--4789 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and \T1/pcr/m/n/10 "-cronyx- [710] [711] [712] Underfull \hbox (badness 2065) in paragraph at lines 5010--5016 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/pcr/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , Underfull \hbox (badness 1360) in paragraph at lines 5010--5016 \T1/pcr/m/n/10 Narrow"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "NewCenturySchoolbook"\T1 /ptm/m/n/10 , \T1/pcr/m/n/10 "Palatino" \T1/ptm/m/n/10 or \T1/pcr/m/n/10 "Times "\T1/ptm/m/n/10 . [713] Underfull \hbox (badness 1721) in paragraph at lines 5042--5045 []\T1/ptm/m/n/10 Windows users can make use of Win-FIG ([][]$\T1/pcr/m/n/10 htt p : / / www . schmidt-[]web-[]berlin . de / [714] [715] Underfull \hbox (badness 1231) in paragraph at lines 5185--5187 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/pcr/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [716] [717] [718]) (./graphics-pkg.tex Chapter 4. [719] [720] [721] Underfull \hbox (badness 2856) in paragraph at lines 160--163 []\T1/ptm/m/n/10 For each \T1/pcr/m/n/10 i\T1/ptm/m/n/10 , an ar-row is drawn b e-tween the point \T1/pcr/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the point (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [722] Underfull \hbox (badness 1412) in paragraph at lines 261--266 []\T1/ptm/m/n/10 Friendly, M. (1992), Graph-i-cal meth-ods for cat-e-gor-i-cal data. \T1/ptm/m/it/10 SAS User Group In-ter-na- [723] [724] [725] [726] Underfull \hbox (badness 2726) in paragraph at lines 429--435 []\T1/ptm/m/n/10 When \T1/pcr/m/n/10 at = NULL\T1/ptm/m/n/10 , pretty tick mark lo-ca-tions are com-puted in-ter-nally (the same way [727] [728] [729] Underfull \hbox (badness 10000) in paragraph at lines 617--620 []\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][]\T1/pcr/m /n/10 par[][][]("xaxp") \T1/ptm/m/n/10 or [730] [731] [732] [733] [734] [735] [736] [737] [738] [739] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1157--1157 [] \T1/pcr/m/n/10 horizontal = FALSE, add = FALSE, at = NULL, show.names = NULL,[] [740] Underfull \hbox (badness 1024) in paragraph at lines 1201--1209 \T1/pcr/m/n/10 col.main\T1/ptm/m/n/10 , \T1/pcr/m/n/10 sub\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 cex.sub\T1/ptm/m/n/10 , \T1/pcr/m/n/10 col.sub\T1/ptm/m/n/10 , \T1/p cr/m/n/10 xlab\T1/ptm/m/n/10 , \T1/pcr/m/n/10 ylab\T1/ptm/m/n/10 , \T1/pcr/m/n/ 10 cex.lab\T1/ptm/m/n/10 , and Underfull \hbox (badness 3375) in paragraph at lines 1242--1242 []\T1/ptm/m/n/10 whisker line type (de-fault: \T1/pcr/m/n/10 "dashed"\T1/ptm/m/ n/10 ), [741] [742] [743] [744] [745] [746] Underfull \hbox (badness 10000) in paragraph at lines 1580--1585 [][][]\T1/pcr/m/n/10 contourLines[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 fill ed.contour[][][] \T1/ptm/m/n/10 for color-filled con-tours, [][]\T1/pcr/m/n/10 contourplot[][][] \T1/ptm/m/n/10 (and [747] [748] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1699--1699 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns,[] [749] [750] [751] [752] Underfull \hbox (badness 4859) in paragraph at lines 1878--1881 []\T1/ptm/m/n/10 labels and graph-i-cal pa-ram-e-ters can also be spec-i-fied a s ar-gu-ments. [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] Underfull \hbox (badness 1226) in paragraph at lines 2472--2476 \T1/pcr/m/n/10 1)\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies \T1/pcr /m/n/10 counts/n \T1/ptm/m/n/10 and in gen-eral sat-isfy [764] Underfull \hbox (badness 10000) in paragraph at lines 2570--2573 []\T1/ptm/m/n/10 graphical pa-ram-e-ters, or ar-gu-ments to [][]\T1/pcr/m/n/10 hist.default[][][] \T1/ptm/m/n/10 such as [765] [766] [767] [768] Underfull \hbox (badness 1755) in paragraph at lines 2804--2808 []\T1/ptm/m/n/10 a list of col-ors such as that gen-er-ated by [][]\T1/pcr/m/n/ 10 rainbow[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 heat.colors[][][]\T1/ptm/m/ n/10 , [769] [770] [771] [772] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3032--3032 [] \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = par("fg"),[] [773] [774] [775] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3186--3186 [] \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce x = cexv[i])[] Underfull \vbox (badness 3803) has occurred while \output is active [776] Underfull \vbox (badness 10000) has occurred while \output is active [777] [778] [779] [780] Underfull \hbox (badness 1867) in paragraph at lines 3476--3480 []\T1/ptm/m/n/10 vector of back-ground (fill) col-ors for the open plot sym-bol s given by [781] [782] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [783] Underfull \hbox (badness 3930) in paragraph at lines 3633--3635 []\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a mul-ti-ple of [784] [785] [786] [787] [788] [789] [790] [791] Underfull \hbox (badness 1264) in paragraph at lines 4103--4115 \T1/ptm/m/n/10 func-tions such as [][]\T1/pcr/m/n/10 plot.default[][][]\T1/ptm/ m/n/10 , [][]\T1/pcr/m/n/10 plot.window[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/1 0 points[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 lines[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 abline[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 axis[][][]\T1 /ptm/m/n/10 , [792] [793] [794] [795] [796] [797] [798] [799] [800] [801] [802] [803] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4931--4931 [] \T1/pcr/m/n/9 col = c("purple", "violetred1", "green3", "cornsilk", "cya n", "white"))[] [804] Underfull \hbox (badness 1052) in paragraph at lines 4990--4990 \T1/ptm/m/n/10 All other \T1/pcr/m/n/10 type\T1/ptm/m/n/10 s give a warn-ing or an er-ror; us-ing, e.g., \T1/pcr/m/n/10 type = [805] [806] [807] [808] [809] [810] [811] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5348--5348 []\T1/pcr/m/n/9 plot(weight ~ group, data = PlantGrowth) # numeric vec tor ~ factor[] [812] [813] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5446--5446 [] \T1/pcr/m/n/10 axes = TRUE, labels = FALSE, add = FALSE, ann = TRUE, ...)[] [814] [815] [816] Underfull \hbox (badness 10000) in paragraph at lines 5652--5654 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [817] [818] Underfull \hbox (badness 1028) in paragraph at lines 5740--5740 []\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th is works as a mul-ti-ple of [819] [820] Underfull \vbox (badness 10000) has occurred while \output is active [821] [822] [823] [824] [825] [826] [827] [828] [829] [830] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6444--6444 [] \T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), space = "Lab")[] [831] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6455--6455 [] \T1/pcr/m/n/9 pairs(y, panel=function(...) {par(new=TRUE);smoothScatter(.. ., nrpoints=0)})[] [832] [833] [834] [835] [836] [837] [838] [839] [840] Overfull \hbox (30.78088pt too wide) in paragraph at lines 6932--6932 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 6933--6933 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [841] Underfull \hbox (badness 2080) in paragraph at lines 7028--7033 []\T1/ptm/m/n/10 integer vec-tor of length \T1/pcr/m/n/10 n\T1/ptm/m/n/10 . \T1 /pcr/m/n/10 number[i] \T1/ptm/m/n/10 = num-ber of repli-cates for [842] Underfull \hbox (badness 1533) in paragraph at lines 7065--7069 []\T1/ptm/m/n/10 For \T1/pcr/m/n/10 number[i]==1\T1/ptm/m/n/10 , a (slightly en -larged) usual plot-ting sym-bol (\T1/pcr/m/n/10 pch\T1/ptm/m/n/10 ) is drawn. For [843] [844] [845] [846] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [847] [848] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7410--7410 [] \T1/pcr/m/n/9 "Le français, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est façile: Règles, Liberté, Egalité, Fraternité...")[] Underfull \hbox (badness 6691) in paragraph at lines 7434--7437 []\T1/ptm/m/n/10 The main ti-tle (on top) us-ing font and size (char-ac-ter ex- pan-sion) [849] Underfull \hbox (badness 1584) in paragraph at lines 7470--7476 []\T1/ptm/m/n/10 The po-si-tions of \T1/pcr/m/n/10 xlab\T1/ptm/m/n/10 , \T1/pcr /m/n/10 ylab \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sub \T1/ptm/m/n/10 are \T1/pcr/m /n/10 line \T1/ptm/m/n/10 (de-fault for \T1/pcr/m/n/10 xlab \T1/ptm/m/n/10 and \T1/pcr/m/n/10 ylab \T1/ptm/m/n/10 be-ing [850]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.unit s}) has been already used, duplicate ignored \relax l.7515 \HeaderA{units}{Graphical Units}{units} [851] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7568--7568 []\T1/pcr/m/n/10 xspline(x, y = NULL, shape = 0, open = TRUE, repEnds = TRUE, draw = TRUE,[] Underfull \hbox (badness 1205) in paragraph at lines 7574--7576 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [852] [853] [854]) (./grid-pkg.tex Chapter 5. [855] [856] [857] [858] [859] Underfull \hbox (badness 10000) in paragraph at lines 259--265 \T1/ptm/m/n/10 (i.e., pop or up any view-ports that were pushed; again, see, fo r ex-am-ple, Underfull \hbox (badness 1024) in paragraph at lines 259--265 \T1/pcr/m/n/10 grid:::postDrawDetails.frame\T1/ptm/m/n/10 ). Note that the de-f ault be-haviour for grobs is to [860] [861] [862] [863] [864] [865] [866] [867] [868] [869] Overfull \hbox (9.78043pt too wide) in paragraph at lines 811--811 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 813--813 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 815--815 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [870] [871] Underfull \hbox (badness 2781) in paragraph at lines 949--952 []\T1/ptm/m/n/10 Both func-tions cre-ate an ar-rows grob (a graph-i-cal ob-ject de-scrib-ing ar-rows), but only [872] [873] [874] Underfull \hbox (badness 3219) in paragraph at lines 1073--1076 []\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject de-scrib-ing a cir-cle), but only [875] [876] [877] [878] [879] [880] [881] [882] [883] Underfull \hbox (badness 2961) in paragraph at lines 1585--1590 []\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio ns \T1/pcr/m/n/10 preDrawDetails\T1/ptm/m/n/10 , [884] [885] Underfull \hbox (badness 4479) in paragraph at lines 1664--1667 []\T1/ptm/m/n/10 Both func-tions call \T1/pcr/m/n/10 editDetails \T1/ptm/m/n/10 to al-low a grob to per-form cus-tom ac-tions and [886] Underfull \hbox (badness 2894) in paragraph at lines 1723--1730 []\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de -scrib-ing a frame), but only [887] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1763--1763 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [888] [889] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1907--1907 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [890] [891] [892] [893] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2119--2119 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [894] [895] [896] [897] [898] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2407--2407 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [899] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2445--2445 []\T1/pcr/m/n/10 moveToGrob(x = 0, y = 0, default.units = "npc", name = NULL, vp = NULL)[] [900] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2495--2495 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, w=0.25, h=0.25, just=c("left", "bottom")))[] [901] [902] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2607--2607 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2614--2614 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 10000) in paragraph at lines 2937--2939 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [909] [910] [911] [912] [913] Underfull \hbox (badness 1067) in paragraph at lines 3197--3200 []\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 [914] [915] [916] [917] [918] Underfull \hbox (badness 7256) in paragraph at lines 3409--3411 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] Underfull \hbox (badness 1867) in paragraph at lines 4500--4502 []\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for use in \T1/pcr/m/n/10 downViewport \T1/ptm/m/n/10 or [939] Underfull \hbox (badness 10000) in paragraph at lines 4532--4538 [][][]\T1/pcr/m/n/10 viewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 pushView port[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 seekV iewport[][][]\T1/ptm/m/n/10 , [940] [941] [942] Underfull \vbox (badness 3803) has occurred while \output is active [943] [944] [945]) (./methods-pkg.tex [946] Chapter 6. [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 1960) has occurred while \output is active [953] [954] [955] Underfull \hbox (badness 1281) in paragraph at lines 573--582 []\T1/ptm/m/n/10 Note that the pre-ced-ing def-i-ni-tion means that the next me thod is de-fined uniquely when [956] Overfull \hbox (4.38043pt too wide) in paragraph at lines 647--647 []\T1/pcr/m/n/9 setMethod("f", "B2", function(x) {x@b0 <- 111; c(x@b2, callNex tMethod())})[] [957] [958] [959] [960] [961] [962] [963] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1174--1174 []\T1/pcr/m/n/9 ## the super- and subclasses of "standardGeneric" and "derived DefaultMethod"[] [964] [965] [966] [967] [968] [969] Overfull \hbox (198.78021pt too wide) in paragraph at lines 1566--1566 []\T1/pcr/m/n/9 stopifnot(identical(cc(letters, character(), cd1), paste(lette rs, character(), cd1))) # the "character" method[] Overfull \hbox (355.38004pt too wide) in paragraph at lines 1568--1568 []\T1/pcr/m/n/9 stopifnot(identical(cc(letters, character(), cd2), c(letters, character(), cd2))) # the default, because "vdate" doesn\TS1/pcr/m/n/9 '\T1/pcr /m/n/9 t extend "character"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1570--1570 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N umber" method[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1572--1572 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 1578--1578 []\T1/pcr/m/n/9 setMethod("numMax", "numeric", function(...)max(...)) # won\TS 1/pcr/m/n/9 '\T1/pcr/m/n/9 t work for complex data[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 1579--1579 []\T1/pcr/m/n/9 setMethod("numMax", "Number", function(...) paste(...)) # shou ld not be selected w/o complex args[] [970] Underfull \hbox (badness 10000) in paragraph at lines 1615--1615 []\T1/pcr/m/n/10 signature(from = "ANY", to = "environment")\T1/ptm/m/n/10 : ca lls [971] [972] [973] [974] [975] Underfull \hbox (badness 3792) in paragraph at lines 1886--1889 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/pcr/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/pcr/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [976] [977] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1965--1965 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [978] [979] [980] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2161--2161 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [981] [982] [983] [984] [985] Underfull \hbox (badness 1552) in paragraph at lines 2491--2493 []\T1/pcr/m/n/10 packageName \T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [986] [987] [988] [989] [990] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2821--2821 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [991] [992] Underfull \hbox (badness 1394) in paragraph at lines 2893--2893 \T1/ptm/m/n/10 If ar-gu-ment \T1/pcr/m/n/10 fullInfo \T1/ptm/m/n/10 is \T1/pcr/ m/n/10 TRUE\T1/ptm/m/n/10 , the call re-turns a named list of ob-jects of class [993] [994] [995] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3103--3103 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3122--3122 []\T1/pcr/m/n/9 setClass("stringsDated", contains = "character", representatio n(stamp="POSIXt"))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3136--3136 []\T1/pcr/m/n/9 ## In contrast, a class that simply extends "factor" has no su ch ambiguities[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3137--3137 []\T1/pcr/m/n/9 setClass("factorDated", contains = "factor", representation(st amp="POSIXt"))[] [996] [997] [998] [999] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3328--3328 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3329--3329 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1000] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3381--3381 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here)[] [1001] [1002] [1003] [1004] [1005] [1006] Underfull \hbox (badness 10000) in paragraph at lines 3831--3840 []\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha t eval-u-ates a call to [1007] [1008] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3980--3980 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3994--3994 []\T1/pcr/m/n/9 mydf1[1:2, ] # a data frame object (with extra attributes "dat e" and "type")[] [1009] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4034--4034 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), 1:10)) # (version 2.9.0 or earlier fails here)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4048--4048 []\T1/pcr/m/n/9 ## S3 methods are selected from the S3 class defined; that is, "data.frame"[] [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 4155--4155 []\T1/pcr/m/n/10 signature(method = "MethodWithNext")\T1/ptm/m/n/10 : used in-t er-nally by [1012] [1013] [1014] [1015] [1016] Underfull \hbox (badness 1087) in paragraph at lines 4408--4413 []\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 [1017] [1018] [1019]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.4627 \aliasA{S4}{S3Part}{S4} [1020] [1021] [1022] Overfull \hbox (52.98038pt too wide) in paragraph at lines 4837--4837 []\T1/pcr/m/n/9 ## two examples extending S3 class "lm", class "xlm" directly and "ylm" indirectly[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4849--4849 []\T1/pcr/m/n/9 ## note the these classes can insert an S3 subclass of "lm" as the S3 part:[] [1023] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4854--4854 []\T1/pcr/m/n/9 ##similar classes to "xlm" and "ylm", but extending S3 class c ("mlm", "lm")[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4863--4863 []\T1/pcr/m/n/9 setClass("dataFrameD", representation(date = "Date"), contains = "data.frame")[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.4884 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.4886 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.4887 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.4889 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.4890 \aliasA{Summary}{S4groupGeneric}{Summary} [1024] Underfull \hbox (badness 2050) in paragraph at lines 4946--4974 []\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 Underfull \hbox (badness 6708) in paragraph at lines 4974--4974 []\T1/pcr/m/n/10 "abs"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "sign"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "sqrt"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ceiling"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "floor"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "trunc"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "cummax"\T1/ptm/m/n/10 , Underfull \hbox (badness 2012) in paragraph at lines 4974--4974 \T1/pcr/m/n/10 "acosh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "asin"\T1/ptm/m/n/10 , \T 1/pcr/m/n/10 "asinh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "atan"\T1/ptm/m/n/10 , \T1/ pcr/m/n/10 "atanh"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "exp"\T1/ptm/m/n/10 , \T1/pcr /m/n/10 "expm1"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "cos"\T1/ptm/m/n/10 , [1025] [1026] [1027] Underfull \hbox (badness 1694) in paragraph at lines 5100--5102 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see Underfull \hbox (badness 10000) in paragraph at lines 5122--5125 []\T1/ptm/m/n/10 The typ-i-cal user level func-tion is \T1/pcr/m/n/10 selectSup erClasses() \T1/ptm/m/n/10 which calls [1028] [1029] Underfull \hbox (badness 2111) in paragraph at lines 5223--5230 []\T1/ptm/m/n/10 The slots in a class def-i-ni-tion will be the union of all th e slots spec-i-fied di-rectly by [1030] [1031] [1032] [1033] [1034] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5530--5530 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(),[] [1035] [1036] Underfull \hbox (badness 2277) in paragraph at lines 5648--5649 []\T1/ptm/m/n/10 Note that call-ing \T1/pcr/m/n/10 setGeneric() \T1/ptm/m/n/10 in this form is not strictly nec-es-sary be-fore call-ing Underfull \hbox (badness 3128) in paragraph at lines 5673--5677 []\T1/ptm/m/n/10 If you \T1/ptm/m/it/10 don't \T1/ptm/m/n/10 want the ex-ist-in g func-tion to be taken as de-fault, sup-ply the ar-gu-ment [1037] [1038] [1039] Underfull \hbox (badness 1755) in paragraph at lines 5876--5879 []\T1/ptm/m/n/10 the en-vi-ron-ment in which to store the def-i-ni-tion of the method. For [1040] [1041] [1042] [1043] [1044] [1045] [1046] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6373--6373 []\T1/pcr/m/n/9 ## two examples extending S3 class "lm", class "xlm" directly and "ylm" indirectly[] [1047] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6401--6401 []\T1/pcr/m/n/9 setClass("stamped4", contains = "vector", representation(date = "POSIXt"))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 6409--6409 []\T1/pcr/m/n/9 someLetters <- stamped(sample(letters, 10), ISOdatetime(2008, 10, 15, 12, 0, 0))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6412--6412 []\T1/pcr/m/n/9 st # show() method prints the object\TS1/pcr/m/n/9 '\T1/pcr/m /n/9 s class, then calls the S3 print method.[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6423--6423 [] \T1/pcr/m/n/9 prototype(NA, tsp = rep(1,3))) # prototype to be a legal S3 time-series[] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Overfull \hbox (240.78088pt too wide) in paragraph at lines 6953--6953 []\T1/pcr/m/n/10 testInheritedMethods(f, signatures, test = TRUE, virtual = FA LSE, groupMethods = TRUE, where = .GlobalEnv)[] [1057] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7038--7038 []\T1/pcr/m/n/9 ## if no other attached packages have methods for \TS1/pcr/m/ n/9 `\T1/pcr/m/n/9 +\TS1/pcr/m/n/9 ` \T1/pcr/m/n/9 or its group generic[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7039--7039 []\T1/pcr/m/n/9 ## functions, this returns a 16 by 2 matrix of selection patte rns (in R 2.9.0)[] [1058] Underfull \hbox (badness 10000) in paragraph at lines 7094--7094 []\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., \T1/pcr/m/n/10 "function " \T1/ptm/m/n/10 for class Underfull \hbox (badness 1852) in paragraph at lines 7097--7101 []\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., Underfull \hbox (badness 1681) in paragraph at lines 7097--7101 \T1/pcr/m/n/10 "functionWithTrace" \T1/ptm/m/n/10 ex-tends \T1/pcr/m/n/10 "func tion"\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends [1059] Underfull \hbox (badness 1635) in paragraph at lines 7164--7170 []\T1/ptm/m/n/10 Note that va-lid-ity meth-ods do not have to check va-lid-ity of su-per-classes: the logic of [1060] [1061] [1062]) (./stats-pkg.tex Chapter 7. [1063] Underfull \hbox (badness 2781) in paragraph at lines 57--60 []\T1/pcr/m/n/10 .MFclass \T1/ptm/m/n/10 re-turns a char-ac-ter string, one of \T1/pcr/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "ordered"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "factor"\T1/ptm/m/n/10 , [1064] [1065] [1066] [1067] [1068] Overfull \hbox (12.78088pt too wide) in paragraph at lines 389--389 [] \T1/pcr/m/n/10 addmargins(A, margin = 1:length(dim(A)), FUN = sum, quiet = FALSE)[] [1069] [1070] [1071] [1072] [1073] [1074] Underfull \hbox (badness 1024) in paragraph at lines 704--706 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/pcr/m/n/10 lm \T1/ptm/m/n/10 or \T1/pcr/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1075] [1076] [1077] [1078] [1079] [1080] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1009--1009 [] \T1/pcr/m/n/10 c("Pillai", "Wilks", "Hotelling-Lawley", "Roy", "Sph erical"),[] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] [1101] [1102] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2291--2291 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(0), ma = numeric(0), lag.max = r, pacf = FALSE)[] [1103] [1104] [1105] [1106] [1107] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2498--2498 []\T1/pcr/m/n/9 legend(40,70, c("mean","median"), lty=1,col=c("blue","green"), bg="gray90")[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2520--2520 []\T1/pcr/m/n/10 bw.ucv(x, nb = 1000, lower = 0.1 * hmax, upper = hmax, tol = 0.1 * lower)[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2522--2522 []\T1/pcr/m/n/10 bw.bcv(x, nb = 1000, lower = 0.1 * hmax, upper = hmax, tol = 0.1 * lower)[] [1108] [1109] [1110] Underfull \hbox (badness 10000) in paragraph at lines 2676--2678 []\T1/ptm/m/n/10 the char-ac-ter string \T1/pcr/m/n/10 "Bartlett test of homoge neity of [1111] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2719--2719 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2720--2720 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3247--3247 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0)[] [1121] [1122] [1123] [1124] [1125] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3503--3503 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3504--3504 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1126] [1127] [1128] Underfull \hbox (badness 10000) in paragraph at lines 3648--3650 []\T1/ptm/m/n/10 the Pear-son resid-u-als, \T1/pcr/m/n/10 (observed - expected) / Overfull \hbox (4.38043pt too wide) in paragraph at lines 3693--3693 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1129] [1130] [1131] [1132] [1133] Underfull \hbox (badness 3989) in paragraph at lines 3931--3938 []\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 = [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4437--4437 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter"))[] [1142] Underfull \hbox (badness 10000) in paragraph at lines 4466--4468 []\T1/ptm/m/n/10 If \T1/pcr/m/n/10 r <- convolve(x,y, type = "open") \T1/ptm/m/ n/10 and \T1/pcr/m/n/10 n <- length(x)\T1/ptm/m/n/10 , \T1/pcr/m/n/10 m <- [1143] [1144] [1145] Underfull \hbox (badness 1436) in paragraph at lines 4630--4635 []\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i ng co-vari-ances Underfull \hbox (badness 1377) in paragraph at lines 4630--4635 \T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi -a-tion of) Underfull \hbox (badness 1448) in paragraph at lines 4630--4635 \T1/ptm/m/n/10 one of the strings \T1/pcr/m/n/10 "everything"\T1/ptm/m/n/10 , \ T1/pcr/m/n/10 "all.obs"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "complete.obs"\T1/ptm/m/ n/10 , [1146] [1147] [1148] [1149] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4931--4931 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE,[] [1150] [1151] [1152] [1153] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5093--5093 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL)[] [1154] [1155] [1156] [1157] [1158] Underfull \hbox (badness 5954) in paragraph at lines 5400--5402 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1159] Underfull \hbox (badness 2503) in paragraph at lines 5461--5463 []\T1/ptm/m/n/10 Objects of class \T1/pcr/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/pcr/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 5563) in paragraph at lines 5464--5466 []\T1/pcr/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/pcr/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1160] [1161] [1162] [1163] [1164] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5729--5729 [] \T1/pcr/m/n/9 ylim = c(0, 1), xlab="", main="R\TS1/pcr/m/n/9 '\T1/pcr/m /n/9 s density() kernels with width = 1")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5737--5737 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] [1165] [1166] [1167] [1168] [1169] [1170] Underfull \hbox (badness 10000) in paragraph at lines 6077--6081 \T1/pcr/m/n/10 "maximum"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "manhattan"\T1/ptm/m/n/ 10 , \T1/pcr/m/n/10 "canberra"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "binary" \T1/ptm/ m/n/10 or [1171] Underfull \hbox (badness 6493) in paragraph at lines 6165--6168 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/pcr/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] Underfull \hbox (badness 3780) in paragraph at lines 6595--6600 []\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences \T 1/pcr/m/n/10 x[t]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 x[t-1]\T1/ptm/m/n/10 , ..., \T 1/pcr/m/n/10 x[t- [1180] [1181] [1182] [1183] (/usr/share/texmf-texlive/tex/latex/base/latin1.def ) [1184] Underfull \hbox (badness 1210) in paragraph at lines 6890--6892 []\T1/ptm/m/n/10 Components of \T1/pcr/m/n/10 control \T1/ptm/m/n/10 can also b e sup-plied as named ar-gu-ments to [1185] [1186] Underfull \hbox (badness 10000) in paragraph at lines 6999--7003 [][][]\T1/pcr/m/n/10 print.loadings[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 va rimax[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 princomp[][][]\T1/ptm/m/n/10 , [ ][]\T1/pcr/m/n/10 ability.cov[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 Harman23 .cor[][][]\T1/ptm/m/n/10 , [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7732--7732 [] \T1/pcr/m/n/9 satisfaction=c("VeryD", "LittleD", "ModerateS" , "VeryS")))[] [1200] [1201] [1202] [1203] [1204] [1205] [1206] [1207] [1208] Underfull \hbox (badness 2443) in paragraph at lines 8305--8311 [][][]\T1/pcr/m/n/10 ftable.formula[][][] \T1/ptm/m/n/10 for the for-mula in-te r-face (which al-lows a \T1/pcr/m/n/10 data = . \T1/ptm/m/n/10 ar-gu-ment); [1209] [1210] [1211] [1212] [1213] [1214] [1215] Underfull \hbox (badness 4518) in paragraph at lines 8713--8718 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1216] [1217] Underfull \hbox (badness 10000) in paragraph at lines 8829--8832 []\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][]\T1/pcr/m/n/10 coefficie nts[][][]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 effects\T1/ptm/m/n/10 , \T1/pcr/m/n/10 fitted.values \T1/ptm/m/n/10 and [1218] [1219] [1220] Underfull \hbox (badness 2142) in paragraph at lines 9007--9010 []\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 ^^@ [1221] Underfull \hbox (badness 1708) in paragraph at lines 9075--9078 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1222] Underfull \hbox (badness 10000) in paragraph at lines 9113--9119 [][][]\T1/pcr/m/n/10 glm[][][] \T1/ptm/m/n/10 for com-put-ing \T1/pcr/m/n/10 gl m.obj\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 anova.glm[][][]\T1/ptm/m/n/10 ; the co r-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions, [1223] [1224] Underfull \hbox (badness 2635) in paragraph at lines 9264--9270 []\T1/ptm/m/n/10 There are [][]\T1/pcr/m/n/10 print[][][]\T1/ptm/m/n/10 , [][]\ T1/pcr/m/n/10 plot[][][] \T1/ptm/m/n/10 and \T1/pcr/m/n/10 identify \T1/ptm/m/n /10 (see [][]\T1/pcr/m/n/10 identify.hclust[][][]\T1/ptm/m/n/10 ) meth-ods and the [1225] [1226] [1227] Underfull \hbox (badness 1694) in paragraph at lines 9412--9415 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1228] [1229] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9533--9533 [] \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 0.1),[] Underfull \hbox (badness 10000) in paragraph at lines 9545--9549 []\T1/ptm/m/n/10 Character string to se-lect an \T1/pcr/m/n/10 "additive" \T1/p tm/m/n/10 (the de-fault) or [1230] [1231] [1232] [1233] [1234] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9814--9814 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]),col=2:4), D EV.FUN = nD)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.9829 \aliasA{hat}{influence.measures}{hat} [1235] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9881--9881 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] [1236] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9893--9893 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] Underfull \hbox (badness 1062) in paragraph at lines 9936--9941 []\T1/ptm/m/n/10 The op-tional \T1/pcr/m/n/10 infl\T1/ptm/m/n/10 , \T1/pcr/m/n/ 10 res \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sd \T1/ptm/m/n/10 ar-gu-ments are ther e to en-cour-age the use of these di- Underfull \hbox (badness 1052) in paragraph at lines 9947--9949 []\T1/ptm/m/n/10 The func-tion \T1/pcr/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] Underfull \hbox (badness 4518) in paragraph at lines 11260--11265 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1261] [1262] [1263] Underfull \hbox (badness 10000) in paragraph at lines 11439--11447 []\T1/ptm/m/n/10 More \T1/pcr/m/n/10 lm() \T1/ptm/m/n/10 ex-am-ples are avail-a ble e.g., in [][]\T1/pcr/m/n/10 anscombe[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/ 10 attitude[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 freeny[][][]\T1/ptm/m/n/10 , [1264] [1265] [1266] [1267] [1268] Underfull \hbox (badness 1163) in paragraph at lines 11736--11744 \T1/ptm/m/n/10 els, [][]\T1/pcr/m/n/10 influence[][][] \T1/ptm/m/n/10 (etc on t hat page) for re-gres-sion di-ag-nos-tics, [][]\T1/pcr/m/n/10 weighted.residual s[][][]\T1/ptm/m/n/10 , [1269] Underfull \hbox (badness 2165) in paragraph at lines 11795--11797 []\T1/ptm/m/n/10 further ar-gu-ments for other meth-ods, such as \T1/pcr/m/n/10 cutoff \T1/ptm/m/n/10 and \T1/pcr/m/n/10 sort \T1/ptm/m/n/10 for [1270] Underfull \hbox (badness 4518) in paragraph at lines 11826--11831 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1271] [1272] [1273] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11988--11988 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11989--11989 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1274] Underfull \hbox (badness 10000) in paragraph at lines 12032--12035 []\T1/ptm/m/n/10 The dis-tri-bu-tion func-tion is a rescaled hy-per-bolic tan-g ent, \T1/pcr/m/n/10 plogis(x) == (1+ [1275] [1276] [1277] [1278] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12284--12284 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12285--12285 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \hbox (badness 2726) in paragraph at lines 12725--12728 []\T1/ptm/m/n/10 character; one of \T1/pcr/m/n/10 "logit"\T1/ptm/m/n/10 , \T1/p cr/m/n/10 "probit"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "cauchit"\T1/ptm/m/n/10 , \T1 /pcr/m/n/10 "cloglog"\T1/ptm/m/n/10 , [1287] [1288] [1289] [1290] [1291] Underfull \vbox (badness 10000) has occurred while \output is active [1292] [1293] [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1648) in paragraph at lines 13541--13543 []\T1/ptm/m/n/10 a data frame cre-ated with [][]\T1/pcr/m/n/10 model.frame[][][ ]\T1/ptm/m/n/10 . If an-other sort of ob-ject, [1302] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13614--13614 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts = list(a="contr.sum", b="c ontr.poly"))[] [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14117--14117 []\T1/pcr/m/n/9 stopifnot(all(na.omit(1:3) == 1:3)) # does not affect objects with no NA\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s[] [1312] [1313] [1314] [1315] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14315--14315 []\T1/pcr/m/n/9 persp(x,size, dnb <- outer(x, size, function(x,s) dnbinom(x,s, prob= 0.4)),[] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] Underfull \vbox (badness 10000) has occurred while \output is active [1326] Underfull \vbox (badness 10000) has occurred while \output is active [1327] [1328] [1329] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15067--15067 []\T1/pcr/m/n/9 NLSstAsymptotic(sortedXyData(expression(age), expression(heigh t), Lob.329))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15102--15102 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1330] Overfull \hbox (20.58041pt too wide) in paragraph at lines 15143--15143 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1331] Overfull \hbox (20.58041pt too wide) in paragraph at lines 15184--15184 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1332] [1333] [1334] [1335] [1336] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15458--15458 [] \T1/pcr/m/n/10 method = c("Nelder-Mead", "BFGS", "CG", "L-BFGS-B", "SA NN"),[] [1337] [1338] Underfull \hbox (badness 1248) in paragraph at lines 15601--15601 []\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 1127) in paragraph at lines 15601--15601 \T1/ptm/m/n/10 value by a fac-tor of \T1/pcr/m/n/10 reltol * (abs(val) + reltol ) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 1478) in paragraph at lines 15601--15601 \T1/ptm/m/n/10 if \T1/pcr/m/n/10 control$trace \T1/ptm/m/n/10 is pos-i-tive. De -faults to ev-ery 10 it-er-a-tions for \T1/pcr/m/n/10 "BFGS" \T1/ptm/m/n/10 and [1339] Underfull \hbox (badness 2042) in paragraph at lines 15626--15626 []\T1/ptm/m/n/10 indicates an er-ror from the \T1/pcr/m/n/10 "L-BFGS-B" \T1/ptm /m/n/10 method; see com-po-nent [1340] [1341] Overfull \hbox (15.18042pt too wide) in paragraph at lines 15744--15744 [] \T1/pcr/m/n/9 control = list(maxit=30000, temp=2000, trace=TRUE , REPORT=500))[] Underfull \vbox (badness 10000) has occurred while \output is active [1342] Underfull \hbox (badness 2564) in paragraph at lines 15816--15827 []\T1/ptm/m/n/10 The func-tion \T1/pcr/m/n/10 f \T1/ptm/m/n/10 is never eval-u- ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m/n/1 0 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/10 t ol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 , Underfull \hbox (badness 1082) in paragraph at lines 15816--15827 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately \T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) \T1/ptm/m/n/10 and $\OML/cmm /m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa [1343] Overfull \hbox (9.78043pt too wide) in paragraph at lines 15868--15868 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1344] [1345] [1346] [1347] [1348] Overfull \hbox (24.78088pt too wide) in paragraph at lines 16119--16119 [] \T1/pcr/m/n/10 alternative = c("two.sided", "less", "greater "), ...)[] Underfull \hbox (badness 1337) in paragraph at lines 16130--16133 []\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 [1349] [1350] [1351] [1352] [1353] [1354] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16415--16415 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1355] [1356] Overfull \hbox (42.78088pt too wide) in paragraph at lines 16498--16498 [] \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s d ist vs Leverage " * h[ii] / (1 - h[ii]))),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 16501--16501 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] Underfull \hbox (badness 2762) in paragraph at lines 16523--16527 \T1/ptm/m/n/10 oth-er-wise. If \T1/pcr/m/n/10 NULL\T1/ptm/m/n/10 , as by de-fau lt, a pos-si-ble short-ened ver-sion of [1357] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16611--16611 []\T1/pcr/m/n/9 plot(lm.SR <- lm(sr ~ pop15 + pop75 + dpi + ddpi, data = LifeC ycleSavings))[] [1358] [1359] [1360] [1361] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16780--16780 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 16789--16792 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1362] Underfull \hbox (badness 1107) in paragraph at lines 16844--16846 []\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate \T 1/pcr/m/n/10 x\T1/ptm/m/n/10 . De-faults to [1363] [1364] Overfull \hbox (20.58041pt too wide) in paragraph at lines 16985--16985 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1365] [1366] [1367] Underfull \hbox (badness 2343) in paragraph at lines 17147--17149 []\T1/ptm/m/n/10 the char-ac-ter string \T1/pcr/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/pcr/m/n/10 "Comparison of [1368] [1369] [1370] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1371] [1372] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1373] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] Underfull \hbox (badness 6859) in paragraph at lines 18008--18015 [][][]\T1/pcr/m/n/10 predict.glm[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predi ct.lm[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predict.loess[][][]\T1/ptm/m/n/1 0 , [][]\T1/pcr/m/n/10 predict.nls[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 pre dict.poly[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18016--18022 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/pcr/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/pcr/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] Overfull \hbox (6.78088pt too wide) in paragraph at lines 18886--18886 [] \T1/pcr/m/n/10 cs.ind = 1L:k, tst.ind = k + 1L, zap.ind = integ er(0),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 18889--18889 [] \T1/pcr/m/n/10 substr(colnames(x)[nc], 1L, 3L) == "Pr(",[] [1401] [1402] [1403] [1404] [1405] Underfull \hbox (badness 1337) in paragraph at lines 19181--19187 []\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 [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] Underfull \hbox (badness 10000) in paragraph at lines 19847--19850 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 5091) in paragraph at lines 19847--19850 \T1/pcr/m/n/10 cutree(hclust.obj, k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1427] Underfull \hbox (badness 8094) in paragraph at lines 20376--20379 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/pcr/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has \T1/pcr/m/n/10 y[j] = [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] Underfull \hbox (badness 1412) in paragraph at lines 21116--21118 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1442] [1443] [1444] [1445] [1446] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21445--21445 []\T1/pcr/m/n/9 (s2 <- smooth.spline(y18, control = list(trace=TRUE,tol=1e-6, low= -1.5)))[] [1447] [1448] Overfull \hbox (0.78088pt too wide) in paragraph at lines 21570--21570 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail,[] [1449] [1450] [1451] [1452] [1453] [1454] Overfull \hbox (60.78088pt too wide) in paragraph at lines 21907--21907 []\T1/pcr/m/n/10 splinefun(x, y = NULL, method = c("fmm", "periodic", "natural ", "monoH.FC"),[] [1455] [1456] [1457] Overfull \hbox (31.3804pt too wide) in paragraph at lines 22053--22053 []\T1/pcr/m/n/9 legend("topleft", paste("splinefun( \"", c("fmm", "monoH.CS"), "\" )", sep=\TS1/pcr/m/n/9 ''\T1/pcr/m/n/9 ),[] [1458] Underfull \hbox (badness 3240) in paragraph at lines 22148--22152 [][][]\T1/pcr/m/n/10 nls[][][]\T1/ptm/m/n/10 , [][]\T1/pcr/m/n/10 selfStart[][] []\T1/ptm/m/n/10 ; \T1/pcr/m/n/10 example(SSasympOff) \T1/ptm/m/n/10 gives grap h show-ing the \T1/pcr/m/n/10 SSasympOff [1459] [1460] [1461] [1462] Underfull \hbox (badness 10000) in paragraph at lines 22362--22365 \T1/pcr/m/n/10 exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input)-exp(-exp(lKa)*input)) / [1463] Overfull \hbox (15.18042pt too wide) in paragraph at lines 22381--22381 []\T1/pcr/m/n/9 SSfol( Theoph.1$Dose, Theoph.1$Time, lKe, lKa, lCl ) # respons e and gradient[] [1464] [1465] Underfull \hbox (badness 2922) in paragraph at lines 22516--22521 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/pcr/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1466] Underfull \hbox (badness 2922) in paragraph at lines 22564--22569 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/pcr/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1467] [1468] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22647--22647 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 22649--22649 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] [1469] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22700--22700 []\T1/pcr/m/n/10 stat.anova(table, test = c("Chisq", "F", "Cp"), scale, df.sca le, n)[] [1470] [1471] [1472] [1473] Underfull \hbox (badness 4353) in paragraph at lines 22958--22962 []\T1/ptm/m/n/10 A func-tion of class \T1/pcr/m/n/10 "stepfun"\T1/ptm/m/n/10 , say \T1/pcr/m/n/10 fn\T1/ptm/m/n/10 . There are meth-ods avail-able for sum- Underfull \hbox (badness 1342) in paragraph at lines 22958--22962 \T1/ptm/m/n/10 ma-riz-ing (\T1/pcr/m/n/10 "summary(.)"\T1/ptm/m/n/10 ), rep-re- sent-ing (\T1/pcr/m/n/10 "print(.)"\T1/ptm/m/n/10 ) and plot-ting (\T1/pcr/m/n/ 10 "plot(.)"\T1/ptm/m/n/10 , see [1474] [1475] [1476] [1477] Overfull \hbox (6.78088pt too wide) in paragraph at lines 23161--23161 [] \T1/pcr/m/n/10 main = NULL, range.bars = TRUE, ..., col.range = "light gray")[] [1478] [1479] [1480] [1481] [1482] Underfull \hbox (badness 3396) in paragraph at lines 23447--23449 []\T1/ptm/m/n/10 an ob-ject of class \T1/pcr/m/n/10 "summary.glm"\T1/ptm/m/n/10 , usu-ally, a re-sult of a call to [1483] [1484] [1485] Underfull \hbox (badness 2237) in paragraph at lines 23613--23615 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/p cr/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1486] [1487] [1488] Underfull \hbox (badness 2591) in paragraph at lines 23759--23761 []\T1/ptm/m/n/10 an ob-ject of class \T1/pcr/m/n/10 "summary.nls"\T1/ptm/m/n/10 , usu-ally the re-sult of a call to [1489] Underfull \hbox (badness 2237) in paragraph at lines 23803--23806 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/p cr/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1490] [1491] [1492] Underfull \hbox (badness 3407) in paragraph at lines 23966--23970 []\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m ented\T1/ptm/m/n/10 , see \T1/pcr/m/n/10 corr \T1/ptm/m/n/10 be-low) [1493] [1494] Underfull \hbox (badness 1337) in paragraph at lines 24092--24096 []\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 [1495] (/usr/share/texmf-texlive/tex/latex/base/latin1.def) [1496] [1497] [1498] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24335--24335 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1499] Underfull \hbox (badness 1616) in paragraph at lines 24358--24361 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1500] [1501] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24474--24474 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1502] Underfull \hbox (badness 2205) in paragraph at lines 24552--24557 []\T1/ptm/m/n/10 If a \T1/pcr/m/n/10 specials \T1/ptm/m/n/10 ar-gu-ment was giv en to [][]\T1/pcr/m/n/10 terms.formula[][][] \T1/ptm/m/n/10 there is a [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] Underfull \hbox (badness 10000) in paragraph at lines 25012--25016 []\T1/ptm/m/n/10 The \T1/pcr/m/n/10 tsp \T1/ptm/m/n/10 at-tribute was pre-vi-ou sly de-scribed here as \T1/pcr/m/n/10 c(start(x), end(x), [1512] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25082--25082 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25083--25083 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] [1521] Underfull \hbox (badness 1337) in paragraph at lines 25527--25531 []\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 [1522] [1523] [1524] [1525] Underfull \hbox (badness 1043) in paragraph at lines 25746--25749 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/pcr/m/n/10 -pweibull(t, a, b, lower = Overfull \hbox (4.38043pt too wide) in paragraph at lines 25768--25768 []\T1/pcr/m/n/9 all.equal(pweibull(x, 2.5, pi, lower.tail=FALSE, log.p=TRUE), -(x/pi)^2.5,[] [1526] [1527] [1528] Underfull \hbox (badness 1337) in paragraph at lines 25887--25891 []\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 [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536]) (./tools-pkg.tex Chapter 8. Overfull \hbox (36.78088pt too wide) in paragraph at lines 33--33 []\T1/pcr/m/n/10 buildVignettes(package, dir, lib.loc = NULL, quiet = TRUE, cl ean = TRUE)[] [1537] Underfull \hbox (badness 2809) in paragraph at lines 87--92 []\T1/pcr/m/n/10 Adobe_glyphs \T1/ptm/m/n/10 in-clude all the Adobe glyph names which cor-re-spond to sin-gle Uni- Underfull \hbox (badness 1057) in paragraph at lines 87--92 \T1/ptm/m/n/10 code char-ac-ters. It is sorted by Uni-code point and within a p oint al-pha-bet-i-cally on the Underfull \hbox (badness 10000) in paragraph at lines 94--95 [][][]$\T1/pcr/m/n/10 http : / / partners . adobe . com / public / developer / en / opentype / glyphlist . [1538] [1539] [1540] [1541] [1542] [1543] Underfull \hbox (badness 10000) in paragraph at lines 407--410 []\T1/pcr/m/n/10 codocClasses \T1/ptm/m/n/10 and \T1/pcr/m/n/10 codocData \T1/p tm/m/n/10 re-turn ob-jects of class \T1/pcr/m/n/10 "codocClasses" \T1/ptm/m/n/1 0 and [1544] [1545] Overfull \hbox (54.78088pt too wide) in paragraph at lines 476--476 [] \T1/pcr/m/n/10 installed = installed.packages(lib.loc, fields = "Enhances"))[] Underfull \hbox (badness 7981) in paragraph at lines 482--485 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1546] [1547] [1548] [1549] [1550] [1551] [1552] Overfull \hbox (12.78088pt too wide) in paragraph at lines 861--861 [] \T1/pcr/m/n/10 depLevel = c("Depends", "Imports", "Sugg ests"))[] [1553] Overfull \hbox (18.78088pt too wide) in paragraph at lines 894--894 []\T1/pcr/m/n/10 parse_Rd(file, srcfile = NULL, encoding = "unknown", verbose = FALSE)[] [1554] [1555]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.Rd2txt}) has been already used, duplicate ignored \relax l.1046 \aliasA{Rd2txt}{Rd2HTML}{Rd2txt} Overfull \hbox (42.78088pt too wide) in paragraph at lines 1061--1061 []\T1/pcr/m/n/10 Rd2latex(Rd, out = "", defines = .Platform$OS.type, encoding = "unknown")[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1063--1063 []\T1/pcr/m/n/10 Rd2ex(Rd, out = "", defines = .Platform$OS.type, encoding = " unknown")[] [1556] Underfull \hbox (badness 1072) in paragraph at lines 1078--1080 []\T1/pcr/m/n/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-to r of links, as re-turned by [1557] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1143--1143 []\T1/pcr/m/n/9 con <- textConnection(toolsRd[[grep("Rd2HTML.Rd", names(toolsR d))]], "rt")[] [1558] [1559] [1560] [1561] [1562] [1563] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1452--1452 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"))[] Underfull \hbox (badness 2932) in paragraph at lines 1481--1484 []\T1/pcr/m/n/10 testInstalledBasic \T1/ptm/m/n/10 runs the ba-sic tests, if in -stalled. This should be run with [1564] [1565] [1566] [1567] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1674--1674 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE)[] Underfull \hbox (badness 1596) in paragraph at lines 1679--1682 []\T1/ptm/m/n/10 Character vec-tor de-scrib-ing the lo-ca-tion of the repos-i-t ory (di-rec-tory in- Underfull \hbox (badness 2103) in paragraph at lines 1679--1682 \T1/ptm/m/n/10 clud-ing source or bi-nary pack-ages) to gen-er-ate the `\T1/phv /m/n/10 PACKAGES\T1/ptm/m/n/10 ' and Underfull \hbox (badness 3895) in paragraph at lines 1683--1690 \T1/pcr/m/n/10 "Package"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Bundle"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Priority"\T1/ptm/m/n/10 , \T1/pcr/m/n/10 "Version"\T1/ptm/m/n /10 , \T1/pcr/m/n/10 "Depends"\T1/ptm/m/n/10 , [1568] Underfull \hbox (badness 2680) in paragraph at lines 1711--1714 []\T1/ptm/m/n/10 Invisibly re-turns the num-ber of pack-ages de-scribed in the re-sult-ing `\T1/phv/m/n/10 PACKAGES\T1/ptm/m/n/10 ' and Underfull \hbox (badness 3803) in paragraph at lines 1727--1730 []\T1/ptm/m/n/10 See [][]\T1/pcr/m/n/10 read.dcf[][][] \T1/ptm/m/n/10 and [][]\ T1/pcr/m/n/10 write.dcf[][][] \T1/ptm/m/n/10 for read-ing `\T1/phv/m/n/10 DESCR IPTION\T1/ptm/m/n/10 ' files and writ-ing the [1569] [1570]) (./utils-pkg.tex Chapter 9. [1571] [1572] [1573] [1574] [1575] Overfull \hbox (24.78088pt too wide) in paragraph at lines 287--287 []\T1/pcr/m/n/10 browseURL(url, browser = getOption("browser"), encodeIfNeeded = FALSE)[] [1576] [1577] [1578] [1579] Underfull \hbox (badness 1859) in paragraph at lines 506--515 []\T1/ptm/m/n/10 For ex-am-ple, sup-pose that on a data set which you know to b e quite large the com- [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] Underfull \hbox (badness 1874) in paragraph at lines 1158--1161 []\T1/ptm/m/n/10 To just look in the `\T1/phv/m/n/10 data\T1/ptm/m/n/10 ' di-re c-tory of the cur-rent work-ing di-rec-tory, set \T1/pcr/m/n/10 package = Overfull \hbox (15.18042pt too wide) in paragraph at lines 1192--1192 []\T1/pcr/m/n/9 data(USArrests, "VADeaths") # load the data sets \TS1/pcr/m/n /9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 '\ T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] [1592] Underfull \hbox (badness 2452) in paragraph at lines 1260--1263 []\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class \T1 /pcr/m/n/10 R_dataentry\T1/ptm/m/n/10 . Re-sources [1593] [1594] [1595] [1596] [1597] [1598] Underfull \hbox (badness 1072) in paragraph at lines 1596--1602 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/pcr/m/n/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the Underfull \hbox (badness 1377) in paragraph at lines 1596--1602 \T1/pcr/m/n/10 internet.info \T1/ptm/m/n/10 op-tion. The de-tails de-pend on th e plat-form and scheme, but set-ting Underfull \hbox (badness 1057) in paragraph at lines 1620--1634 []\T1/ptm/m/n/10 Proxies can be spec-i-fied via en-vi-ron-ment vari-ables. Set- ting \T1/pcr/m/n/10 "no_proxy" \T1/ptm/m/n/10 to \T1/pcr/m/n/10 "*" \T1/ptm/m/n /10 stops Underfull \hbox (badness 1742) in paragraph at lines 1620--1634 \T1/ptm/m/n/10 fail-ing that, the all upper-case ver-sion) is con-sulted and if non-empty used as a proxy Underfull \hbox (badness 1360) in paragraph at lines 1620--1634 \T1/ptm/m/n/10 site. For FTP trans-fers, the user-name and pass-word on the pro xy can be spec-i-fied by [1599] Underfull \hbox (badness 1231) in paragraph at lines 1635--1641 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [1600] [1601] Underfull \hbox (badness 1565) in paragraph at lines 1788--1792 []\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of [1602] [1603] Underfull \hbox (badness 3758) in paragraph at lines 1892--1899 []\T1/ptm/m/n/10 logical (or \T1/pcr/m/n/10 "default"\T1/ptm/m/n/10 ) in-di-cat -ing if [][]\T1/pcr/m/n/10 devAskNewPage[][][](ask=TRUE) [1604] [1605] [1606] [1607] [1608]pdfTeX warning (ext4): destination with the s ame identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.2113 ...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.2113 ...mat Unordered and Ordered Lists}{format} [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2744--2744 [] \T1/pcr/m/n/9 ## the arguments (one integer, the ot her numeric)[] [1620] Underfull \hbox (badness 10000) in paragraph at lines 2833--2837 []\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 http : / / www . r-[]p roject . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also [1621] Underfull \hbox (badness 1502) in paragraph at lines 2875--2881 []\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 2875--2881 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [1622] [1623] [1624] [1625] [1626] [1627] Underfull \hbox (badness 5133) in paragraph at lines 3241--3245 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's Underfull \hbox (badness 1622) in paragraph at lines 3248--3251 []\T1/pcr/m/n/10 installed.packages \T1/ptm/m/n/10 scans the `\T1/phv/m/n/10 DE SCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along [1628] Underfull \hbox (badness 6047) in paragraph at lines 3262--3269 []\T1/ptm/m/n/10 A ma-trix with one row per pack-age, row names the pack-age na mes and col-umn [1629] [1630] [1631] [1632] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3493--3493 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE)[] [1633] [1634] [1635] Underfull \hbox (badness 10000) in paragraph at lines 3642--3644 []\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if [1636] [1637] [1638] [1639] [1640] [1641] [1642] Underfull \hbox (badness 1087) in paragraph at lines 4043--4048 []\T1/ptm/m/n/10 If a `\T1/phv/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [1643] [1644] Underfull \hbox (badness 10000) in paragraph at lines 4135--4138 \T1/ptm/m/n/10 plus \T1/pcr/m/n/10 "Status"\T1/ptm/m/n/10 , a fac-tor with lev- els \T1/pcr/m/n/10 c("installed", "not [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1163) in paragraph at lines 4764--4767 []\T1/ptm/m/n/10 the to-ken that was (or, is to be) com-pleted, as set by the l ast call to [1655] [1656] Underfull \hbox (badness 1072) in paragraph at lines 4873--4881 \T1/pcr/m/n/10 = FALSE\T1/ptm/m/n/10 . Oth-er-wise, try-ing to com-plete \T1/pc r/m/n/10 foo@ba \T1/ptm/m/n/10 will eval-u-ate \T1/pcr/m/n/10 foo\T1/ptm/m/n/10 , try-ing to com-plete [1657] [1658] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5023--5023 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header= TRUE, tra nspose=TRUE)[] [1659] [1660] [1661] [1662] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5244--5244 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] [1663] Underfull \hbox (badness 1077) in paragraph at lines 5308--5311 []\T1/ptm/m/n/10 Using \T1/pcr/m/n/10 row.names = NULL \T1/ptm/m/n/10 forces ro w num-ber-ing. Miss-ing or \T1/pcr/m/n/10 NULL [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] Underfull \hbox (badness 10000) in paragraph at lines 5820--5824 \T1/pcr/m/n/10 en . wikipedia . org / w / index . php ? title = Roman _ numeral s \ &oldid = 78252134$[][]\T1/ptm/m/n/10 . [1673] [1674] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5926--5926 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0)[] [1675] [1676] [1677] [1678] Underfull \hbox (badness 6725) in paragraph at lines 6135--6144 \T1/ptm/m/n/10 (\T1/pcr/m/n/10 score\T1/ptm/m/n/10 , \T1/pcr/m/n/10 date:late \ T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first, Underfull \hbox (badness 6428) in paragraph at lines 6135--6144 \T1/pcr/m/n/10 date:early \T1/ptm/m/n/10 for ear-li-est first, \T1/pcr/m/n/10 s ubject \T1/ptm/m/n/10 for sub-ject in al-pha-bet-i- Underfull \hbox (badness 10000) in paragraph at lines 6135--6144 \T1/ptm/m/n/10 cal or-der, \T1/pcr/m/n/10 subject:descending \T1/ptm/m/n/10 for re-verse al-pha-bet-i-cal or-der, Underfull \hbox (badness 1997) in paragraph at lines 6135--6144 \T1/pcr/m/n/10 from \T1/ptm/m/n/10 or \T1/pcr/m/n/10 from:descending \T1/ptm/m/ n/10 for sender (when ap-pli-ca-ble), \T1/pcr/m/n/10 size \T1/ptm/m/n/10 or [1679] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6173--6173 []\T1/pcr/m/n/9 ## Search in R-devel archive and recent mail (and store the qu ery-string):[] [1680] Underfull \hbox (badness 10000) in paragraph at lines 6251--6253 [][][]$\T1/pcr/m/n/10 http : / / en . wikipedia . org / wiki / Ctags$[][]\T1/pt m/m/n/10 , [][]$\T1/pcr/m/n/10 http : / / www . gnu . org / software / [1681] [1682] [1683] [1684] [1685] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6531--6531 []\T1/pcr/m/n/10 select.list(list, preselect = NULL, multiple = FALSE, title = NULL)[] [1686] [1687] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6611--6611 []\T1/pcr/m/n/10 setRepositories(graphics = getOption("menu.graphics"), ind = NULL)[] [1688] [1689] [1690] [1691] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6835--6835 [] \T1/pcr/m/n/10 format(x, trim=TRUE, drop0trailing=TRU E, ...))[] Underfull \hbox (badness 5970) in paragraph at lines 6862--6865 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive Underfull \hbox (badness 2600) in paragraph at lines 6862--6865 [][]\T1/pcr/m/n/10 options[][][]("width")\T1/ptm/m/n/10 ; note that this has on ly a weak ef-fect, un-less [1692] [1693] [1694] [1695] (/usr/share/texmf-texlive/tex/latex/base/latin1.def ) Underfull \hbox (badness 5504) in paragraph at lines 7086--7089 []\T1/ptm/m/n/10 An ob-ject of class \T1/pcr/m/n/10 SweaveSyntax \T1/ptm/m/n/10 or a char-ac-ter string with its Underfull \hbox (badness 3635) in paragraph at lines 7086--7089 \T1/ptm/m/n/10 name. The de-fault in-stal-la-tion pro-vides \T1/pcr/m/n/10 Swea veSyntaxNoweb \T1/ptm/m/n/10 and [1696] Underfull \hbox (badness 1178) in paragraph at lines 7110--7122 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, a num-ber of hook func- tions can be ex-e-cuted. 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\vbox (badness 1484) has occurred while \output is active [1759] [1760] [1761] Overfull \hbox (4.01662pt too wide) in paragraph at lines 5611--5613 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 5656--5658 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Underfull \vbox (badness 1117) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775]) (./refman.aux) ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.tkProgressBar} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.tk.Rul.select.list} has been referenced but doe s not exist, replaced by a fixed one pdfTeX warning (dest): 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warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.survival} has been referenced but does not exis t, replaced by a fixed one {/usr/share/texmf-texlive/fonts/enc/dvips/base/8r.enc} Output written on refman.pdf (1802 pages, 8610943 bytes). Transcript written on refman.log. /bin/bash: line 0: test: too many arguments TEXINPUTS=".:$TEXINPUTS" /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) 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] [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 677--680 []@textrm John M. Cham-bers (2008), ``Soft-ware for Data Anal-y-sis: Pro- Underfull \hbox (badness 8132) in paragraph at lines 677--680 @textrm gram-ming with R''. Springer, New York, ISBN 978-0-387-75935-7, Underfull \hbox (badness 10000) in paragraph at lines 685--688 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 685--688 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 2846) in paragraph at lines 704--707 []@textrm William N. Ven-ables and Brian D. Rip-ley (2002), ``Mod-ern Ap-plied Underfull \hbox (badness 10000) in paragraph at lines 704--707 @textrm Statis-tics with S'' (4th edi-tion). Springer, ISBN 0-387-95457-0, [7] [8] [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (5.53629pt too wide) in paragraph at lines 1613--1616 []@textrm See also [][]@texttt http://en.wikipedia.org/wiki/R_programming_langu age#Commercialized_ Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] Chapter 8 [41] Chapter 9 [42] [43] [44] Chapter 10 [45] [46] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (48 pages, 310493 bytes). Transcript written on R-FAQ.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-FAQ.aux) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (./R-FAQ.toc [-1] [-2]) [-3] (./R-FAQ.toc) (./R-FAQ.toc) Chapter 1 [1] Chapter 2 [2] [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 677--680 []@textrm John M. Cham-bers (2008), ``Soft-ware for Data Anal-y-sis: Pro- Underfull \hbox (badness 8132) in paragraph at lines 677--680 @textrm gram-ming with R''. Springer, New York, ISBN 978-0-387-75935-7, Underfull \hbox (badness 10000) in paragraph at lines 685--688 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 685--688 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 2846) in paragraph at lines 704--707 []@textrm William N. Ven-ables and Brian D. Rip-ley (2002), ``Mod-ern Ap-plied Underfull \hbox (badness 10000) in paragraph at lines 704--707 @textrm Statis-tics with S'' (4th edi-tion). Springer, ISBN 0-387-95457-0, [7] [8] [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (5.53629pt too wide) in paragraph at lines 1613--1616 []@textrm See also [][]@texttt http://en.wikipedia.org/wiki/R_programming_langu age#Commercialized_ Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] Chapter 8 [41] Chapter 9 [42] [43] [44] Chapter 10 [45] [46] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (50 pages, 359286 bytes). Transcript written on R-FAQ.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-FAQ.aux) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (./R-FAQ.toc [-1] [-2]) [-3] (./R-FAQ.toc) (./R-FAQ.toc) Chapter 1 [1] Chapter 2 [2] [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 677--680 []@textrm John M. Cham-bers (2008), ``Soft-ware for Data Anal-y-sis: Pro- Underfull \hbox (badness 8132) in paragraph at lines 677--680 @textrm gram-ming with R''. Springer, New York, ISBN 978-0-387-75935-7, Underfull \hbox (badness 10000) in paragraph at lines 685--688 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 685--688 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 2846) in paragraph at lines 704--707 []@textrm William N. Ven-ables and Brian D. Rip-ley (2002), ``Mod-ern Ap-plied Underfull \hbox (badness 10000) in paragraph at lines 704--707 @textrm Statis-tics with S'' (4th edi-tion). Springer, ISBN 0-387-95457-0, [7] [8] [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (5.53629pt too wide) in paragraph at lines 1613--1616 []@textrm See also [][]@texttt http://en.wikipedia.org/wiki/R_programming_langu age#Commercialized_ Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] Chapter 8 [41] Chapter 9 [42] [43] [44] Chapter 10 [45] [46] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (50 pages, 359286 bytes). Transcript written on R-FAQ.log. /bin/bash: line 0: test: too many arguments TEXINPUTS=".:$TEXINPUTS" /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Overfull \hbox (5.09695pt too wide) in paragraph at lines 169--174 @textsl x.y.0 @textrm re-lease are avail-able from `@texttt https://svn.r-proje ct.org/R/branches/R-@textttsl x@texttt -@textttsl y@texttt -branch/[]@textrm '[ ] [1] Overfull \hbox (14.94176pt too wide) in paragraph at lines 182--182 [] @texttt - Issuer: Department of Mathematics, ETH Zurich, Zurich, Switzerlan d, CH[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 183--183 [] @texttt - Fingerprint: c9:5d:eb:f9:f2:56:d1:04:ba:44:61:f8:64:6b:d9:33:3f:9 3:6e:ad[] Chapter 2 [2] Underfull \hbox (badness 4242) in paragraph at lines 1--243 @texttt *-freebsd[]@textrm '[], `@texttt x86_64-*-freebsd[]@textrm '[], `@textt t i386-*-netbsd[]@textrm '[], `@texttt i386-*-openbsd[]@textrm '[], `@texttt i3 86-sun- Cross reference values unknown; you must run TeX again. [3] [4] [5] Underfull \hbox (badness 2103) in paragraph at lines 559--566 @textrm head-ers are not in-stalled into a sub-di-rec-tory you prob-a-bly want some-thing like [6] [7] Underfull \hbox (badness 2762) in paragraph at lines 703--709 @textrm be the last in-stalled, but architecture-specific ver-sions will be ava il-able in e.g. [8] Chapter 3 [9] Overfull \hbox (11.57986pt too wide) in paragraph at lines 921--934 []@textrm Optionally, you can in-stall a ver-sion of AT-LAS ([][]@texttt http: //math-atlas.sourceforge.net/[][][]@textrm ) [10] [11] [12] [13] Chapter 4 [14] Underfull \hbox (badness 10000) in paragraph at lines 1328--1332 []@textrm For com-pat-i-bil-ity with the @reducedrm CRAN @textrm dis-tri-bu-tio n you may need to spec-ify Chapter 5 [15] Chapter 6 [16] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1407--1407 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [17] [18] [19] [20] Chapter 7 [21] Underfull \hbox (badness 2393) in paragraph at lines 1784--1791 @texttt en.wikipedia.org/wiki/ISO_3166[][][]@textrm ). Some-times the com-bi-n a-tion of lan-guage Underfull \hbox (badness 2050) in paragraph at lines 1817--1823 []@textrm Modern Linux uses the XPG lo-cale spec-i-fi-ca-tions which have the f orm `@texttt en_GB[]@textrm '[], [22] Underfull \hbox (badness 8170) in paragraph at lines 1827--1831 @textrm found at [][]@texttt http://msdn.microsoft.com/library/default.asp?url= /library/en-us/ Overfull \hbox (55.52638pt too wide) in paragraph at lines 1845--1849 @textrm (which is @texttt UTF-8[]@textrm ). It is based on ICU lo-cales ([][]@t exttt http://icu.sourceforge.net/userguide/locale.html[][][]@textrm ) [23] Chapter 8 [24] [25] Chapter 9 [26] [27] [28] Appendix A [29] [30] Underfull \hbox (badness 2951) in paragraph at lines 2361--2364 []@textrm The @texttt bitmap[] @textrm and @texttt dev2bitmap[] @textrm de-vice s and also @texttt embedFonts()[] @textrm use ghost-script [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2644--2648 []@textrm For In-tel pro-ces-sors un-der Linux, there is In-tel's Math Ker-nel Li-brary Underfull \hbox (badness 10000) in paragraph at lines 2644--2648 @textrm ([][]@texttt http://www.intel.com/software/products/mkl/[][][]@textrm ) . You are strongly en-cour- [34] Overfull \hbox (43.6852pt too wide) in paragraph at lines 2666--2666 []@texttt MKL="-L${MKL_LIB_PATH} -lmkl_gf_lp64 -lmkl_sequential -lmkl_lapack - lmkl_core"[] [35] Overfull \hbox (27.70651pt too wide) in paragraph at lines 2764--2764 []@texttt ln -s /opt/acml4.3.0/gfortran64_mp/lib/libacml_mp.so @textttsl R_HOM E@texttt /lib/libRblas.so[] [36] Appendix B [37] [38] [39] Underfull \hbox (badness 3428) in paragraph at lines 3026--3039 @textrm `@texttt -L/usr/local/lib64[]@textrm '[] on most 64-bit Linux OSes) and `@texttt -I/usr/local/include[]@textrm '[] Underfull \hbox (badness 10000) in paragraph at lines 3040--3051 @textrm `@texttt '-Bdirect,--hash-style=both,-Wl,-O1'[]@textrm '[] is rec-om-me nded at [][]@texttt http://lwn.net/ [40] [41] [42] Underfull \hbox (badness 3701) in paragraph at lines 3258--3262 []@textrm To com-pile a pro-fil-ing ver-sion of R, one might for ex-am-ple want to use Appendix C [43] [44] Underfull \hbox (badness 3029) in paragraph at lines 3428--3432 @textrm is ap-pro-pri-ate since most (but not all) soft-ware in-stalls its 64-b it li-braries in [45] [46] Underfull \hbox (badness 10000) in paragraph at lines 3551--3557 @texttt us-en/assets/content_type/DownloadableAssets/dwamd_PGI_nov603.pdf[][][] @textrm sug-gests Overfull \hbox (22.7201pt too wide) in paragraph at lines 3561--3564 []@textrm Brian Rip-ley tested the Sun Stu-dio 12 (aka Sun Ceres) com-pil-ers ( [][]@texttt http://developers.sun.com/ [47] [48] Overfull \hbox (53.87451pt too wide) in paragraph at lines 3721--3721 [][][][][]@smalltt http://www.sun.com/download/index.jsp?cat=Application%20Deve lopment&tab=3&subcat=Development%20Tools[][][]| [49] [50] [51] [52] [53] [54] Underfull \hbox (badness 10000) in paragraph at lines 4231--4256 @textrm ([][]@texttt http://www-03.ibm.com/systems/power/software/aix/linux/[][ ][]@textrm ) and [][]@texttt http://www. Underfull \hbox (badness 3735) in paragraph at lines 4231--4256 @textrm ([][]@texttt http://www.icu-project.org/download/[][][]@textrm ), which of-fers pre-compiled bi-na-ries for [55] Overfull \hbox (27.03564pt too wide) in paragraph at lines 4304--4307 @textrm found in the ``R on AIX'' project on R-Forge ([][]@texttt http://R-Forg e.R-project.org/projects/aix/[][][]@textrm ). [56] Underfull \hbox (badness 2486) in paragraph at lines 4385--4393 []@textrm It seems that @texttt gcc[] @textrm 3.4.x and later on `@texttt ix86[ ]@textrm '[] Linux de-feat at-tempts by the Appendix D [57] [58] Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 []@textrm Marc Schwartz re-ports that the `Open-JDK' (for-merly called `IcedTea ') Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @textrm JVM that ships with Fe-dora @texttt >@textrm = 8 does not work with the search ap- Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @textrm plet. (The bug re-port is part of [][]@texttt https://bugzilla.redhat.c om/show_ Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @texttt bug.cgi?id=304021[][][]@textrm .) The Sun JRE and plu-gin can be in-sta lled: see Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @texttt mjm-fedora-f8.html#java[][][]@textrm , [][]@texttt http://www.mjmwired. net/resources/mjm-fedora-f9. Underfull \hbox (badness 4060) in paragraph at lines 4472--4478 [][]@texttt http://www.opera.com/support/search/supsearch.dml?index=459[][][] @ textrm and for De-bian [59] Appendix E [60] [61] [62] [63] Overfull \hbox (2.98291pt too wide) in paragraph at lines 4743--4747 []@textrm Other builds of @texttt gcc[] @textrm 4 are avail-able from [][]@text tt http://gcc.gnu.org/wiki/GFortranBinaries/[][][] (Function and variable index) [64] (Concept index) [65] (Environment variable index) [66] [67] ) (see the transcript file for additional information) Output written on R-admin.pdf (70 pages, 375820 bytes). Transcript written on R-admin.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-admin.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-admin.toc [-1] [-2]) [-3] (./R-admin.toc) (./R-admin.toc) Chapter 1 Overfull \hbox (5.09695pt too wide) in paragraph at lines 169--174 @textsl x.y.0 @textrm re-lease are avail-able from `@texttt https://svn.r-proje ct.org/R/branches/R-@textttsl x@texttt -@textttsl y@texttt -branch/[]@textrm '[ ] [1] Overfull \hbox (14.94176pt too wide) in paragraph at lines 182--182 [] @texttt - Issuer: Department of Mathematics, ETH Zurich, Zurich, Switzerlan d, CH[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 183--183 [] @texttt - Fingerprint: c9:5d:eb:f9:f2:56:d1:04:ba:44:61:f8:64:6b:d9:33:3f:9 3:6e:ad[] Chapter 2 [2] Underfull \hbox (badness 4242) in paragraph at lines 1--243 @texttt *-freebsd[]@textrm '[], `@texttt x86_64-*-freebsd[]@textrm '[], `@textt t i386-*-netbsd[]@textrm '[], `@texttt i386-*-openbsd[]@textrm '[], `@texttt i3 86-sun- [3] [4] [5] Underfull \hbox (badness 2103) in paragraph at lines 559--566 @textrm head-ers are not in-stalled into a sub-di-rec-tory you prob-a-bly want some-thing like [6] [7] Underfull \hbox (badness 2762) in paragraph at lines 703--709 @textrm be the last in-stalled, but architecture-specific ver-sions will be ava il-able in e.g. [8] Chapter 3 [9] Overfull \hbox (11.57986pt too wide) in paragraph at lines 921--934 []@textrm Optionally, you can in-stall a ver-sion of AT-LAS ([][]@texttt http: //math-atlas.sourceforge.net/[][][]@textrm ) [10] [11] [12] [13] Chapter 4 [14] Underfull \hbox (badness 10000) in paragraph at lines 1328--1332 []@textrm For com-pat-i-bil-ity with the @reducedrm CRAN @textrm dis-tri-bu-tio n you may need to spec-ify Chapter 5 [15] Chapter 6 [16] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1407--1407 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [17] [18] [19] [20] Chapter 7 [21] Underfull \hbox (badness 2393) in paragraph at lines 1784--1791 @texttt en.wikipedia.org/wiki/ISO_3166[][][]@textrm ). Some-times the com-bi-n a-tion of lan-guage Underfull \hbox (badness 2050) in paragraph at lines 1817--1823 []@textrm Modern Linux uses the XPG lo-cale spec-i-fi-ca-tions which have the f orm `@texttt en_GB[]@textrm '[], [22] Underfull \hbox (badness 8170) in paragraph at lines 1827--1831 @textrm found at [][]@texttt http://msdn.microsoft.com/library/default.asp?url= /library/en-us/ Overfull \hbox (55.52638pt too wide) in paragraph at lines 1845--1849 @textrm (which is @texttt UTF-8[]@textrm ). It is based on ICU lo-cales ([][]@t exttt http://icu.sourceforge.net/userguide/locale.html[][][]@textrm ) [23] Chapter 8 [24] [25] Chapter 9 [26] [27] [28] Appendix A [29] [30] Underfull \hbox (badness 2951) in paragraph at lines 2361--2364 []@textrm The @texttt bitmap[] @textrm and @texttt dev2bitmap[] @textrm de-vice s and also @texttt embedFonts()[] @textrm use ghost-script [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2644--2648 []@textrm For In-tel pro-ces-sors un-der Linux, there is In-tel's Math Ker-nel Li-brary Underfull \hbox (badness 10000) in paragraph at lines 2644--2648 @textrm ([][]@texttt http://www.intel.com/software/products/mkl/[][][]@textrm ) . You are strongly en-cour- [34] Overfull \hbox (43.6852pt too wide) in paragraph at lines 2666--2666 []@texttt MKL="-L${MKL_LIB_PATH} -lmkl_gf_lp64 -lmkl_sequential -lmkl_lapack - lmkl_core"[] [35] Overfull \hbox (27.70651pt too wide) in paragraph at lines 2764--2764 []@texttt ln -s /opt/acml4.3.0/gfortran64_mp/lib/libacml_mp.so @textttsl R_HOM E@texttt /lib/libRblas.so[] [36] Appendix B [37] [38] [39] Underfull \hbox (badness 3428) in paragraph at lines 3026--3039 @textrm `@texttt -L/usr/local/lib64[]@textrm '[] on most 64-bit Linux OSes) and `@texttt -I/usr/local/include[]@textrm '[] Underfull \hbox (badness 10000) in paragraph at lines 3040--3051 @textrm `@texttt '-Bdirect,--hash-style=both,-Wl,-O1'[]@textrm '[] is rec-om-me nded at [][]@texttt http://lwn.net/ [40] [41] [42] Underfull \hbox (badness 3701) in paragraph at lines 3258--3262 []@textrm To com-pile a pro-fil-ing ver-sion of R, one might for ex-am-ple want to use Appendix C [43] [44] Underfull \hbox (badness 3029) in paragraph at lines 3428--3432 @textrm is ap-pro-pri-ate since most (but not all) soft-ware in-stalls its 64-b it li-braries in [45] [46] Underfull \hbox (badness 10000) in paragraph at lines 3551--3557 @texttt us-en/assets/content_type/DownloadableAssets/dwamd_PGI_nov603.pdf[][][] @textrm sug-gests Overfull \hbox (22.7201pt too wide) in paragraph at lines 3561--3564 []@textrm Brian Rip-ley tested the Sun Stu-dio 12 (aka Sun Ceres) com-pil-ers ( [][]@texttt http://developers.sun.com/ [47] [48] Overfull \hbox (53.87451pt too wide) in paragraph at lines 3721--3721 [][][][][]@smalltt http://www.sun.com/download/index.jsp?cat=Application%20Deve lopment&tab=3&subcat=Development%20Tools[][][]| [49] [50] [51] [52] [53] [54] Underfull \hbox (badness 10000) in paragraph at lines 4231--4256 @textrm ([][]@texttt http://www-03.ibm.com/systems/power/software/aix/linux/[][ ][]@textrm ) and [][]@texttt http://www. Underfull \hbox (badness 3735) in paragraph at lines 4231--4256 @textrm ([][]@texttt http://www.icu-project.org/download/[][][]@textrm ), which of-fers pre-compiled bi-na-ries for [55] Overfull \hbox (27.03564pt too wide) in paragraph at lines 4304--4307 @textrm found in the ``R on AIX'' project on R-Forge ([][]@texttt http://R-Forg e.R-project.org/projects/aix/[][][]@textrm ). [56] Underfull \hbox (badness 2486) in paragraph at lines 4385--4393 []@textrm It seems that @texttt gcc[] @textrm 3.4.x and later on `@texttt ix86[ ]@textrm '[] Linux de-feat at-tempts by the Appendix D [57] [58] Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 []@textrm Marc Schwartz re-ports that the `Open-JDK' (for-merly called `IcedTea ') Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @textrm JVM that ships with Fe-dora @texttt >@textrm = 8 does not work with the search ap- Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @textrm plet. (The bug re-port is part of [][]@texttt https://bugzilla.redhat.c om/show_ Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @texttt bug.cgi?id=304021[][][]@textrm .) The Sun JRE and plu-gin can be in-sta lled: see Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @texttt mjm-fedora-f8.html#java[][][]@textrm , [][]@texttt http://www.mjmwired. net/resources/mjm-fedora-f9. Underfull \hbox (badness 4060) in paragraph at lines 4472--4478 [][]@texttt http://www.opera.com/support/search/supsearch.dml?index=459[][][] @ textrm and for De-bian [59] Appendix E [60] [61] [62] [63] Overfull \hbox (2.98291pt too wide) in paragraph at lines 4743--4747 []@textrm Other builds of @texttt gcc[] @textrm 4 are avail-able from [][]@text tt http://gcc.gnu.org/wiki/GFortranBinaries/[][][] (Function and variable index) [64] (./R-admin.vrs) (Concept index) [65] (./R-admin.cps) (Environment variable index) [66] (./R-admin.ens) [67] ) (see the transcript file for additional information) Output written on R-admin.pdf (72 pages, 453103 bytes). Transcript written on R-admin.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-admin.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-admin.toc [-1] [-2]) [-3] (./R-admin.toc) (./R-admin.toc) Chapter 1 Overfull \hbox (5.09695pt too wide) in paragraph at lines 169--174 @textsl x.y.0 @textrm re-lease are avail-able from `@texttt https://svn.r-proje ct.org/R/branches/R-@textttsl x@texttt -@textttsl y@texttt -branch/[]@textrm '[ ] [1] Overfull \hbox (14.94176pt too wide) in paragraph at lines 182--182 [] @texttt - Issuer: Department of Mathematics, ETH Zurich, Zurich, Switzerlan d, CH[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 183--183 [] @texttt - Fingerprint: c9:5d:eb:f9:f2:56:d1:04:ba:44:61:f8:64:6b:d9:33:3f:9 3:6e:ad[] Chapter 2 [2] Underfull \hbox (badness 4242) in paragraph at lines 1--243 @texttt *-freebsd[]@textrm '[], `@texttt x86_64-*-freebsd[]@textrm '[], `@textt t i386-*-netbsd[]@textrm '[], `@texttt i386-*-openbsd[]@textrm '[], `@texttt i3 86-sun- [3] [4] [5] Underfull \hbox (badness 2103) in paragraph at lines 559--566 @textrm head-ers are not in-stalled into a sub-di-rec-tory you prob-a-bly want some-thing like [6] [7] Underfull \hbox (badness 2762) in paragraph at lines 703--709 @textrm be the last in-stalled, but architecture-specific ver-sions will be ava il-able in e.g. [8] Chapter 3 [9] Overfull \hbox (11.57986pt too wide) in paragraph at lines 921--934 []@textrm Optionally, you can in-stall a ver-sion of AT-LAS ([][]@texttt http: //math-atlas.sourceforge.net/[][][]@textrm ) [10] [11] [12] [13] Chapter 4 [14] Underfull \hbox (badness 10000) in paragraph at lines 1328--1332 []@textrm For com-pat-i-bil-ity with the @reducedrm CRAN @textrm dis-tri-bu-tio n you may need to spec-ify Chapter 5 [15] Chapter 6 [16] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1407--1407 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [17] [18] [19] [20] Chapter 7 [21] Underfull \hbox (badness 2393) in paragraph at lines 1784--1791 @texttt en.wikipedia.org/wiki/ISO_3166[][][]@textrm ). Some-times the com-bi-n a-tion of lan-guage Underfull \hbox (badness 2050) in paragraph at lines 1817--1823 []@textrm Modern Linux uses the XPG lo-cale spec-i-fi-ca-tions which have the f orm `@texttt en_GB[]@textrm '[], [22] Underfull \hbox (badness 8170) in paragraph at lines 1827--1831 @textrm found at [][]@texttt http://msdn.microsoft.com/library/default.asp?url= /library/en-us/ Overfull \hbox (55.52638pt too wide) in paragraph at lines 1845--1849 @textrm (which is @texttt UTF-8[]@textrm ). It is based on ICU lo-cales ([][]@t exttt http://icu.sourceforge.net/userguide/locale.html[][][]@textrm ) [23] Chapter 8 [24] [25] Chapter 9 [26] [27] [28] Appendix A [29] [30] Underfull \hbox (badness 2951) in paragraph at lines 2361--2364 []@textrm The @texttt bitmap[] @textrm and @texttt dev2bitmap[] @textrm de-vice s and also @texttt embedFonts()[] @textrm use ghost-script [31] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2644--2648 []@textrm For In-tel pro-ces-sors un-der Linux, there is In-tel's Math Ker-nel Li-brary Underfull \hbox (badness 10000) in paragraph at lines 2644--2648 @textrm ([][]@texttt http://www.intel.com/software/products/mkl/[][][]@textrm ) . You are strongly en-cour- [34] Overfull \hbox (43.6852pt too wide) in paragraph at lines 2666--2666 []@texttt MKL="-L${MKL_LIB_PATH} -lmkl_gf_lp64 -lmkl_sequential -lmkl_lapack - lmkl_core"[] [35] Overfull \hbox (27.70651pt too wide) in paragraph at lines 2764--2764 []@texttt ln -s /opt/acml4.3.0/gfortran64_mp/lib/libacml_mp.so @textttsl R_HOM E@texttt /lib/libRblas.so[] [36] Appendix B [37] [38] [39] Underfull \hbox (badness 3428) in paragraph at lines 3026--3039 @textrm `@texttt -L/usr/local/lib64[]@textrm '[] on most 64-bit Linux OSes) and `@texttt -I/usr/local/include[]@textrm '[] Underfull \hbox (badness 10000) in paragraph at lines 3040--3051 @textrm `@texttt '-Bdirect,--hash-style=both,-Wl,-O1'[]@textrm '[] is rec-om-me nded at [][]@texttt http://lwn.net/ [40] [41] [42] Underfull \hbox (badness 3701) in paragraph at lines 3258--3262 []@textrm To com-pile a pro-fil-ing ver-sion of R, one might for ex-am-ple want to use Appendix C [43] [44] Underfull \hbox (badness 3029) in paragraph at lines 3428--3432 @textrm is ap-pro-pri-ate since most (but not all) soft-ware in-stalls its 64-b it li-braries in [45] [46] Underfull \hbox (badness 10000) in paragraph at lines 3551--3557 @texttt us-en/assets/content_type/DownloadableAssets/dwamd_PGI_nov603.pdf[][][] @textrm sug-gests Overfull \hbox (22.7201pt too wide) in paragraph at lines 3561--3564 []@textrm Brian Rip-ley tested the Sun Stu-dio 12 (aka Sun Ceres) com-pil-ers ( [][]@texttt http://developers.sun.com/ [47] [48] Overfull \hbox (53.87451pt too wide) in paragraph at lines 3721--3721 [][][][][]@smalltt http://www.sun.com/download/index.jsp?cat=Application%20Deve lopment&tab=3&subcat=Development%20Tools[][][]| [49] [50] [51] [52] [53] [54] Underfull \hbox (badness 10000) in paragraph at lines 4231--4256 @textrm ([][]@texttt http://www-03.ibm.com/systems/power/software/aix/linux/[][ ][]@textrm ) and [][]@texttt http://www. Underfull \hbox (badness 3735) in paragraph at lines 4231--4256 @textrm ([][]@texttt http://www.icu-project.org/download/[][][]@textrm ), which of-fers pre-compiled bi-na-ries for [55] Overfull \hbox (27.03564pt too wide) in paragraph at lines 4304--4307 @textrm found in the ``R on AIX'' project on R-Forge ([][]@texttt http://R-Forg e.R-project.org/projects/aix/[][][]@textrm ). [56] Underfull \hbox (badness 2486) in paragraph at lines 4385--4393 []@textrm It seems that @texttt gcc[] @textrm 3.4.x and later on `@texttt ix86[ ]@textrm '[] Linux de-feat at-tempts by the Appendix D [57] [58] Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 []@textrm Marc Schwartz re-ports that the `Open-JDK' (for-merly called `IcedTea ') Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @textrm JVM that ships with Fe-dora @texttt >@textrm = 8 does not work with the search ap- Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @textrm plet. (The bug re-port is part of [][]@texttt https://bugzilla.redhat.c om/show_ Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @texttt bug.cgi?id=304021[][][]@textrm .) The Sun JRE and plu-gin can be in-sta lled: see Underfull \hbox (badness 10000) in paragraph at lines 4461--4471 @texttt mjm-fedora-f8.html#java[][][]@textrm , [][]@texttt http://www.mjmwired. net/resources/mjm-fedora-f9. Underfull \hbox (badness 4060) in paragraph at lines 4472--4478 [][]@texttt http://www.opera.com/support/search/supsearch.dml?index=459[][][] @ textrm and for De-bian [59] Appendix E [60] [61] [62] [63] Overfull \hbox (2.98291pt too wide) in paragraph at lines 4743--4747 []@textrm Other builds of @texttt gcc[] @textrm 4 are avail-able from [][]@text tt http://gcc.gnu.org/wiki/GFortranBinaries/[][][] (Function and variable index) [64] (./R-admin.vrs) (Concept index) [65] (./R-admin.cps) (Environment variable index) [66] (./R-admin.ens) [67] ) (see the transcript file for additional information) Output written on R-admin.pdf (72 pages, 453103 bytes). Transcript written on R-admin.log. /bin/bash: line 0: test: too many arguments TEXINPUTS=".:$TEXINPUTS" /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Cross reference values unknown; you must run TeX again. [2] [3] [4] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] [14] [15] [16] [17] Overfull \hbox (9.3377pt too wide) in paragraph at lines 1333--1337 []@textrm On Mac OS X the Ac-tual Tech-nolo-gies ([][]@texttt http://www.actual technologies.com/product_ [18] [19] Chapter 5 [20] Underfull \hbox (badness 6808) in paragraph at lines 1593--1598 []@textrm Packages @textbf hdf5@textrm , @textbf RNetCDF @textrm and @textbf nc df @textrm on @reducedrm CRAN @textrm pro-vide in-ter-faces to @reducedrm NASA@ textrm 's Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm HDF5 (Hi-er-ar-chi-cal Data For-mat, see [][]@texttt http://hdf.ncsa.ui uc.edu/HDF5/[][][]@textrm ) Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm and to UCAR's netCDF data files (net-work Com-mon Data Form, see Chapter 6 [21] [22] [23] [24] [25] Chapter 7 [26] Underfull \hbox (badness 2538) in paragraph at lines 2077--2084 @textrm ap-pli-ca-tions to call meth-ods, or op-er-a-tions, in server ob-jects run-ning in other [27] Chapter 8 [28] Underfull \hbox (badness 4739) in paragraph at lines 2133--2142 []@textrm If you do not have Ex-cel, many other pro-grams are able to read such Underfull \hbox (badness 10000) in paragraph at lines 2133--2142 @textrm am-ple Gnu-meric ([][]@texttt http://www.gnome.org/projects/gnumeric/[] [][]@textrm ) and OpenOf-fice Appendix A [29] (Function and variable index) [30] (Concept index) [31] [32] ) (see the transcript file for additional information) Output written on R-data.pdf (35 pages, 212655 bytes). Transcript written on R-data.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-data.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-data.toc [-1]) [-2] (./R-data.toc) (./R-data.toc) (Acknowledgements) Chapter 1 [1] [2] [3] [4] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] [14] [15] [16] [17] Overfull \hbox (9.3377pt too wide) in paragraph at lines 1333--1337 []@textrm On Mac OS X the Ac-tual Tech-nolo-gies ([][]@texttt http://www.actual technologies.com/product_ [18] [19] Chapter 5 [20] Underfull \hbox (badness 6808) in paragraph at lines 1593--1598 []@textrm Packages @textbf hdf5@textrm , @textbf RNetCDF @textrm and @textbf nc df @textrm on @reducedrm CRAN @textrm pro-vide in-ter-faces to @reducedrm NASA@ textrm 's Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm HDF5 (Hi-er-ar-chi-cal Data For-mat, see [][]@texttt http://hdf.ncsa.ui uc.edu/HDF5/[][][]@textrm ) Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm and to UCAR's netCDF data files (net-work Com-mon Data Form, see Chapter 6 [21] [22] [23] [24] [25] Chapter 7 [26] Underfull \hbox (badness 2538) in paragraph at lines 2077--2084 @textrm ap-pli-ca-tions to call meth-ods, or op-er-a-tions, in server ob-jects run-ning in other [27] Chapter 8 [28] Underfull \hbox (badness 4739) in paragraph at lines 2133--2142 []@textrm If you do not have Ex-cel, many other pro-grams are able to read such Underfull \hbox (badness 10000) in paragraph at lines 2133--2142 @textrm am-ple Gnu-meric ([][]@texttt http://www.gnome.org/projects/gnumeric/[] [][]@textrm ) and OpenOf-fice Appendix A [29] (Function and variable index) [30] (./R-data.vrs [31]) (Concept index) [32] (./R-data.cps) [33] ) (see the transcript file for additional information) Output written on R-data.pdf (37 pages, 281092 bytes). Transcript written on R-data.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-data.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-data.toc [-1]) [-2] (./R-data.toc) (./R-data.toc) (Acknowledgements) Chapter 1 [1] [2] [3] [4] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] [14] [15] [16] [17] Overfull \hbox (9.3377pt too wide) in paragraph at lines 1333--1337 []@textrm On Mac OS X the Ac-tual Tech-nolo-gies ([][]@texttt http://www.actual technologies.com/product_ [18] [19] Chapter 5 [20] Underfull \hbox (badness 6808) in paragraph at lines 1593--1598 []@textrm Packages @textbf hdf5@textrm , @textbf RNetCDF @textrm and @textbf nc df @textrm on @reducedrm CRAN @textrm pro-vide in-ter-faces to @reducedrm NASA@ textrm 's Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm HDF5 (Hi-er-ar-chi-cal Data For-mat, see [][]@texttt http://hdf.ncsa.ui uc.edu/HDF5/[][][]@textrm ) Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm and to UCAR's netCDF data files (net-work Com-mon Data Form, see Chapter 6 [21] [22] [23] [24] [25] Chapter 7 [26] Underfull \hbox (badness 2538) in paragraph at lines 2077--2084 @textrm ap-pli-ca-tions to call meth-ods, or op-er-a-tions, in server ob-jects run-ning in other [27] Chapter 8 [28] Underfull \hbox (badness 4739) in paragraph at lines 2133--2142 []@textrm If you do not have Ex-cel, many other pro-grams are able to read such Underfull \hbox (badness 10000) in paragraph at lines 2133--2142 @textrm am-ple Gnu-meric ([][]@texttt http://www.gnome.org/projects/gnumeric/[] [][]@textrm ) and OpenOf-fice Appendix A [29] (Function and variable index) [30] (./R-data.vrs [31]) (Concept index) [32] (./R-data.cps) [33] ) (see the transcript file for additional information) Output written on R-data.pdf (37 pages, 281088 bytes). Transcript written on R-data.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-data.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-data.toc [-1]) [-2] (./R-data.toc) (./R-data.toc) (Acknowledgements) Chapter 1 [1] [2] [3] [4] Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] [14] [15] [16] [17] Overfull \hbox (9.3377pt too wide) in paragraph at lines 1333--1337 []@textrm On Mac OS X the Ac-tual Tech-nolo-gies ([][]@texttt http://www.actual technologies.com/product_ [18] [19] Chapter 5 [20] Underfull \hbox (badness 6808) in paragraph at lines 1593--1598 []@textrm Packages @textbf hdf5@textrm , @textbf RNetCDF @textrm and @textbf nc df @textrm on @reducedrm CRAN @textrm pro-vide in-ter-faces to @reducedrm NASA@ textrm 's Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm HDF5 (Hi-er-ar-chi-cal Data For-mat, see [][]@texttt http://hdf.ncsa.ui uc.edu/HDF5/[][][]@textrm ) Underfull \hbox (badness 10000) in paragraph at lines 1593--1598 @textrm and to UCAR's netCDF data files (net-work Com-mon Data Form, see Chapter 6 [21] [22] [23] [24] [25] Chapter 7 [26] Underfull \hbox (badness 2538) in paragraph at lines 2077--2084 @textrm ap-pli-ca-tions to call meth-ods, or op-er-a-tions, in server ob-jects run-ning in other [27] Chapter 8 [28] Underfull \hbox (badness 4739) in paragraph at lines 2133--2142 []@textrm If you do not have Ex-cel, many other pro-grams are able to read such Underfull \hbox (badness 10000) in paragraph at lines 2133--2142 @textrm am-ple Gnu-meric ([][]@texttt http://www.gnome.org/projects/gnumeric/[] [][]@textrm ) and OpenOf-fice Appendix A [29] (Function and variable index) [30] (./R-data.vrs [31]) (Concept index) [32] (./R-data.cps) [33] ) (see the transcript file for additional information) Output written on R-data.pdf (37 pages, 281088 bytes). Transcript written on R-data.log. /bin/bash: line 0: test: too many arguments TEXINPUTS=".:$TEXINPUTS" /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Cross reference values unknown; you must run TeX again. [2] [3] Underfull \hbox (badness 3826) in paragraph at lines 293--310 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 293--310 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [4] Underfull \hbox (badness 6741) in paragraph at lines 409--413 []@textrm Packages whose name space only is needed to load the pack-age us-ing Underfull \hbox (badness 3118) in paragraph at lines 413--417 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [5] Underfull \hbox (badness 2922) in paragraph at lines 497--508 @textrm op-tional fields `@texttt Classification/ACM[]@textrm '[] (us-ing the C om-put-ing Clas-si-fi-ca-tion Sys-tem Underfull \hbox (badness 10000) in paragraph at lines 497--508 @textrm of the As-so-ci-a-tion for Com-put-ing Ma-chin-ery, [][]@texttt http:// www.acm.org/class/[][][]@textrm ), Underfull \hbox (badness 2762) in paragraph at lines 497--508 @textrm `@texttt Classification/JEL[]@textrm '[] (the Jour-nal of Eco-nomic Lit -er-a-ture Clas-si-fi-ca-tion Sys-tem, Underfull \hbox (badness 4266) in paragraph at lines 497--508 @textrm (the Math-e-mat-ics Sub-ject Clas-si-fi-ca-tion of the Amer-i-can Math- e-mat-i-cal So-ci-ety, [6] Underfull \hbox (badness 10000) in paragraph at lines 509--518 @texttt wikipedia.org/wiki/ISO_639-1[][][]@textrm ) or 3-letter ISO 639-3 ([][] @texttt http://en.wikipedia. [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1283--1283 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [17] [18] Underfull \hbox (badness 3919) in paragraph at lines 1484--1490 @textrm de-fined$@textsy i$ @textrm [Writ-ing R doc-u-men-ta-tion files], page $@textsy h$@textrm un-de-fined$@textsy i$[][]@textrm , for in-for-ma-tion Underfull \hbox (badness 2662) in paragraph at lines 1484--1490 @textrm `@texttt tests/Examples/@textttsl pkg@texttt -Ex.Rout.save[]@textrm '[ ], the out-put of run-ning the ex-am-ples is [19] [20] [21] [22] [23] Underfull \hbox (badness 2951) in paragraph at lines 1789--1793 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at Underfull \hbox (badness 6978) in paragraph at lines 1826--1834 []@textrm Note also that for run-ning L[]T[]X, the De-bian GNU/Linux @reducedrm CRAN @textrm check Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm sys-tems use rea-son-ably re-cent ver-sions of the De-bian texlive dis- tri-bu-tion Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm ([][]@texttt http://packages.debian.org/de/sid/texlive[][][]@textrm ); for the Win-dows @reducedrm CRAN [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] Underfull \hbox (badness 2401) in paragraph at lines 2680--2685 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU [34] [35] [36] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2877--2877 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] Chapter 2 [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Underfull \hbox (badness 6526) in paragraph at lines 3962--3967 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 3962--3967 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2dvi[] @textrm looks at the [50] [51] [52] Chapter 3 [53] [54] [55] [56] [57] Underfull \hbox (badness 2941) in paragraph at lines 4565--4568 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http:// [58] [59] Underfull \hbox (badness 2343) in paragraph at lines 4656--4660 @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com/tools/shark optimize.html[][][] @textrm and [][]@texttt http:// Chapter 4 [60] [61] [62] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4862--4862 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [63] Overfull \hbox (25.25755pt too wide) in paragraph at lines 4902--4902 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [64] Overfull \hbox (20.53261pt too wide) in paragraph at lines 5006--5006 []@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 5036--5045 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [65] [66] [67] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5239--5239 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5242--5242 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [68] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5309--5309 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [69] [70] Chapter 5 [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6284--6284 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6297--6297 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [82] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6316--6316 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 6365--6365 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] Overfull \hbox (14.94176pt too wide) in paragraph at lines 7116--7116 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] Overfull \hbox (26.43913pt too wide) in paragraph at lines 7997--7997 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [104] [105] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8087--8087 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [106] Overfull \hbox (43.6852pt too wide) in paragraph at lines 8164--8164 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [107] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8252--8252 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [108] Chapter 6 [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] Underfull \hbox (badness 6332) in paragraph at lines 9675--9678 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault Underfull \hbox (badness 10000) in paragraph at lines 9731--9733 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on [126] Underfull \hbox (badness 10000) in paragraph at lines 9736--9741 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [127] [128] Chapter 8 [129] Underfull \hbox (badness 2213) in paragraph at lines 9976--9981 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [130] [131] Overfull \hbox (20.69044pt too wide) in paragraph at lines 10116--10116 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [132] [133] [134] Underfull \hbox (badness 2547) in paragraph at lines 10352--10359 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [135] [136] Overfull \hbox (34.81801pt too wide) in paragraph at lines 10474--10479 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/Paradigm.html[][][] [137] [138] [139] (Function and variable index) [140] (Concept index) [141] [142] ) (see the transcript file for additional information) Output written on R-exts.pdf (145 pages, 652870 bytes). Transcript written on R-exts.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-exts.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-exts.toc [-1] [-2] [-3]) [-4] (./R-exts.toc) (./R-exts.toc) (Acknowledgements) Chapter 1 [1] [2] [3] Underfull \hbox (badness 3826) in paragraph at lines 293--310 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 293--310 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [4] Underfull \hbox (badness 6741) in paragraph at lines 409--413 []@textrm Packages whose name space only is needed to load the pack-age us-ing Underfull \hbox (badness 3118) in paragraph at lines 413--417 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [5] Underfull \hbox (badness 2922) in paragraph at lines 497--508 @textrm op-tional fields `@texttt Classification/ACM[]@textrm '[] (us-ing the C om-put-ing Clas-si-fi-ca-tion Sys-tem Underfull \hbox (badness 10000) in paragraph at lines 497--508 @textrm of the As-so-ci-a-tion for Com-put-ing Ma-chin-ery, [][]@texttt http:// www.acm.org/class/[][][]@textrm ), Underfull \hbox (badness 2762) in paragraph at lines 497--508 @textrm `@texttt Classification/JEL[]@textrm '[] (the Jour-nal of Eco-nomic Lit -er-a-ture Clas-si-fi-ca-tion Sys-tem, Underfull \hbox (badness 4266) in paragraph at lines 497--508 @textrm (the Math-e-mat-ics Sub-ject Clas-si-fi-ca-tion of the Amer-i-can Math- e-mat-i-cal So-ci-ety, [6] Underfull \hbox (badness 10000) in paragraph at lines 509--518 @texttt wikipedia.org/wiki/ISO_639-1[][][]@textrm ) or 3-letter ISO 639-3 ([][] @texttt http://en.wikipedia. [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1283--1283 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [17] [18] [19] [20] [21] [22] l.1782: Undefined cross reference `Customizing package compilation-snt'. l.1782: Undefined cross reference `Customizing package compilation-snt'. l.1782: Undefined cross reference `Customizing package compilation-pg'. [23] Underfull \hbox (badness 2951) in paragraph at lines 1789--1793 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at Underfull \hbox (badness 6978) in paragraph at lines 1826--1834 []@textrm Note also that for run-ning L[]T[]X, the De-bian GNU/Linux @reducedrm CRAN @textrm check Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm sys-tems use rea-son-ably re-cent ver-sions of the De-bian texlive dis- tri-bu-tion Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm ([][]@texttt http://packages.debian.org/de/sid/texlive[][][]@textrm ); for the Win-dows @reducedrm CRAN [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] Underfull \hbox (badness 2401) in paragraph at lines 2680--2685 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU [34] [35] [36] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2877--2877 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] Chapter 2 [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Underfull \hbox (badness 6526) in paragraph at lines 3962--3967 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 3962--3967 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2dvi[] @textrm looks at the [50] [51] [52] Chapter 3 [53] [54] [55] [56] [57] Underfull \hbox (badness 2941) in paragraph at lines 4565--4568 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http:// [58] [59] Underfull \hbox (badness 2343) in paragraph at lines 4656--4660 @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com/tools/shark optimize.html[][][] @textrm and [][]@texttt http:// Chapter 4 [60] [61] [62] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4862--4862 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [63] Overfull \hbox (25.25755pt too wide) in paragraph at lines 4902--4902 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [64] Overfull \hbox (20.53261pt too wide) in paragraph at lines 5006--5006 []@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 5036--5045 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [65] [66] [67] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5239--5239 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5242--5242 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [68] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5309--5309 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [69] [70] Chapter 5 [71] [72] [73] [74] [75] [76] [77] [78] l.6040: Undefined cross reference `Customizing package compilation-snt'. l.6040: Undefined cross reference `Customizing package compilation-snt'. l.6040: Undefined cross reference `Customizing package compilation-pg'. [79] [80] [81] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6284--6284 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6297--6297 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [82] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6316--6316 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 6365--6365 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] Overfull \hbox (14.94176pt too wide) in paragraph at lines 7116--7116 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] Overfull \hbox (26.43913pt too wide) in paragraph at lines 7997--7997 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [104] [105] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8087--8087 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [106] Overfull \hbox (43.6852pt too wide) in paragraph at lines 8164--8164 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [107] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8252--8252 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [108] Chapter 6 [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] Underfull \hbox (badness 6332) in paragraph at lines 9675--9678 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault Underfull \hbox (badness 10000) in paragraph at lines 9731--9733 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on [126] Underfull \hbox (badness 10000) in paragraph at lines 9736--9741 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [127] [128] Chapter 8 [129] Underfull \hbox (badness 2213) in paragraph at lines 9976--9981 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [130] [131] Overfull \hbox (20.69044pt too wide) in paragraph at lines 10116--10116 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [132] [133] [134] Underfull \hbox (badness 2547) in paragraph at lines 10352--10359 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [135] [136] Overfull \hbox (34.81801pt too wide) in paragraph at lines 10474--10479 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/Paradigm.html[][][] [137] [138] [139] (Function and variable index) [140] (./R-exts.vrs [141] [142]) (Concept index) [143] (./R-exts.cps [144]) [145] ) (see the transcript file for additional information) Output written on R-exts.pdf (151 pages, 804764 bytes). Transcript written on R-exts.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-exts.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-exts.toc [-1] [-2] [-3]) [-4] (./R-exts.toc) (./R-exts.toc) (Acknowledgements) Chapter 1 [1] [2] [3] Underfull \hbox (badness 3826) in paragraph at lines 293--310 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 293--310 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [4] Underfull \hbox (badness 6741) in paragraph at lines 409--413 []@textrm Packages whose name space only is needed to load the pack-age us-ing Underfull \hbox (badness 3118) in paragraph at lines 413--417 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [5] Underfull \hbox (badness 2922) in paragraph at lines 497--508 @textrm op-tional fields `@texttt Classification/ACM[]@textrm '[] (us-ing the C om-put-ing Clas-si-fi-ca-tion Sys-tem Underfull \hbox (badness 10000) in paragraph at lines 497--508 @textrm of the As-so-ci-a-tion for Com-put-ing Ma-chin-ery, [][]@texttt http:// www.acm.org/class/[][][]@textrm ), Underfull \hbox (badness 2762) in paragraph at lines 497--508 @textrm `@texttt Classification/JEL[]@textrm '[] (the Jour-nal of Eco-nomic Lit -er-a-ture Clas-si-fi-ca-tion Sys-tem, Underfull \hbox (badness 4266) in paragraph at lines 497--508 @textrm (the Math-e-mat-ics Sub-ject Clas-si-fi-ca-tion of the Amer-i-can Math- e-mat-i-cal So-ci-ety, [6] Underfull \hbox (badness 10000) in paragraph at lines 509--518 @texttt wikipedia.org/wiki/ISO_639-1[][][]@textrm ) or 3-letter ISO 639-3 ([][] @texttt http://en.wikipedia. [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1283--1283 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [17] [18] [19] [20] [21] [22] l.1782: Undefined cross reference `Customizing package compilation-snt'. l.1782: Undefined cross reference `Customizing package compilation-snt'. l.1782: Undefined cross reference `Customizing package compilation-pg'. [23] Underfull \hbox (badness 2951) in paragraph at lines 1789--1793 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at Underfull \hbox (badness 6978) in paragraph at lines 1826--1834 []@textrm Note also that for run-ning L[]T[]X, the De-bian GNU/Linux @reducedrm CRAN @textrm check Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm sys-tems use rea-son-ably re-cent ver-sions of the De-bian texlive dis- tri-bu-tion Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm ([][]@texttt http://packages.debian.org/de/sid/texlive[][][]@textrm ); for the Win-dows @reducedrm CRAN [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] Underfull \hbox (badness 2401) in paragraph at lines 2680--2685 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU [34] [35] [36] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2877--2877 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] Chapter 2 [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Underfull \hbox (badness 6526) in paragraph at lines 3962--3967 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 3962--3967 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2dvi[] @textrm looks at the [50] [51] [52] Chapter 3 [53] [54] [55] [56] [57] Underfull \hbox (badness 2941) in paragraph at lines 4565--4568 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http:// [58] [59] Underfull \hbox (badness 2343) in paragraph at lines 4656--4660 @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com/tools/shark optimize.html[][][] @textrm and [][]@texttt http:// Chapter 4 [60] [61] [62] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4862--4862 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [63] Overfull \hbox (25.25755pt too wide) in paragraph at lines 4902--4902 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [64] Overfull \hbox (20.53261pt too wide) in paragraph at lines 5006--5006 []@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 5036--5045 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [65] [66] [67] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5239--5239 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5242--5242 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [68] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5309--5309 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [69] [70] Chapter 5 [71] [72] [73] [74] [75] [76] [77] [78] l.6040: Undefined cross reference `Customizing package compilation-snt'. l.6040: Undefined cross reference `Customizing package compilation-snt'. l.6040: Undefined cross reference `Customizing package compilation-pg'. [79] [80] [81] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6284--6284 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6297--6297 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [82] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6316--6316 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 6365--6365 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] Overfull \hbox (14.94176pt too wide) in paragraph at lines 7116--7116 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] Overfull \hbox (26.43913pt too wide) in paragraph at lines 7997--7997 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [104] [105] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8087--8087 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [106] Overfull \hbox (43.6852pt too wide) in paragraph at lines 8164--8164 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [107] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8252--8252 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [108] Chapter 6 [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] Underfull \hbox (badness 6332) in paragraph at lines 9675--9678 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault Underfull \hbox (badness 10000) in paragraph at lines 9731--9733 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on [126] Underfull \hbox (badness 10000) in paragraph at lines 9736--9741 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [127] [128] Chapter 8 [129] Underfull \hbox (badness 2213) in paragraph at lines 9976--9981 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [130] [131] Overfull \hbox (20.69044pt too wide) in paragraph at lines 10116--10116 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [132] [133] [134] Underfull \hbox (badness 2547) in paragraph at lines 10352--10359 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [135] [136] Overfull \hbox (34.81801pt too wide) in paragraph at lines 10474--10479 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/Paradigm.html[][][] [137] [138] [139] (Function and variable index) [140] (./R-exts.vrs [141] [142]) (Concept index) [143] (./R-exts.cps [144]) [145] ) (see the transcript file for additional information) Output written on R-exts.pdf (151 pages, 804969 bytes). Transcript written on R-exts.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-exts.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-exts.toc [-1] [-2] [-3]) [-4] (./R-exts.toc) (./R-exts.toc) (Acknowledgements) Chapter 1 [1] [2] [3] Underfull \hbox (badness 3826) in paragraph at lines 293--310 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 293--310 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [4] Underfull \hbox (badness 6741) in paragraph at lines 409--413 []@textrm Packages whose name space only is needed to load the pack-age us-ing Underfull \hbox (badness 3118) in paragraph at lines 413--417 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [5] Underfull \hbox (badness 2922) in paragraph at lines 497--508 @textrm op-tional fields `@texttt Classification/ACM[]@textrm '[] (us-ing the C om-put-ing Clas-si-fi-ca-tion Sys-tem Underfull \hbox (badness 10000) in paragraph at lines 497--508 @textrm of the As-so-ci-a-tion for Com-put-ing Ma-chin-ery, [][]@texttt http:// www.acm.org/class/[][][]@textrm ), Underfull \hbox (badness 2762) in paragraph at lines 497--508 @textrm `@texttt Classification/JEL[]@textrm '[] (the Jour-nal of Eco-nomic Lit -er-a-ture Clas-si-fi-ca-tion Sys-tem, Underfull \hbox (badness 4266) in paragraph at lines 497--508 @textrm (the Math-e-mat-ics Sub-ject Clas-si-fi-ca-tion of the Amer-i-can Math- e-mat-i-cal So-ci-ety, [6] Underfull \hbox (badness 10000) in paragraph at lines 509--518 @texttt wikipedia.org/wiki/ISO_639-1[][][]@textrm ) or 3-letter ISO 639-3 ([][] @texttt http://en.wikipedia. [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1283--1283 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [17] [18] [19] [20] [21] [22] l.1782: Undefined cross reference `Customizing package compilation-snt'. l.1782: Undefined cross reference `Customizing package compilation-snt'. l.1782: Undefined cross reference `Customizing package compilation-pg'. [23] Underfull \hbox (badness 2951) in paragraph at lines 1789--1793 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at Underfull \hbox (badness 6978) in paragraph at lines 1826--1834 []@textrm Note also that for run-ning L[]T[]X, the De-bian GNU/Linux @reducedrm CRAN @textrm check Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm sys-tems use rea-son-ably re-cent ver-sions of the De-bian texlive dis- tri-bu-tion Underfull \hbox (badness 10000) in paragraph at lines 1826--1834 @textrm ([][]@texttt http://packages.debian.org/de/sid/texlive[][][]@textrm ); for the Win-dows @reducedrm CRAN [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] Underfull \hbox (badness 2401) in paragraph at lines 2680--2685 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU [34] [35] [36] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2877--2877 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] Chapter 2 [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] Underfull \hbox (badness 6526) in paragraph at lines 3962--3967 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 3962--3967 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2dvi[] @textrm looks at the [50] [51] [52] Chapter 3 [53] [54] [55] [56] [57] Underfull \hbox (badness 2941) in paragraph at lines 4565--4568 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http:// [58] [59] Underfull \hbox (badness 2343) in paragraph at lines 4656--4660 @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com/tools/shark optimize.html[][][] @textrm and [][]@texttt http:// Chapter 4 [60] [61] [62] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4862--4862 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [63] Overfull \hbox (25.25755pt too wide) in paragraph at lines 4902--4902 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [64] Overfull \hbox (20.53261pt too wide) in paragraph at lines 5006--5006 []@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 5036--5045 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [65] [66] [67] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5239--5239 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5242--5242 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [68] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5309--5309 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [69] [70] Chapter 5 [71] [72] [73] [74] [75] [76] [77] [78] l.6040: Undefined cross reference `Customizing package compilation-snt'. l.6040: Undefined cross reference `Customizing package compilation-snt'. l.6040: Undefined cross reference `Customizing package compilation-pg'. [79] [80] [81] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6284--6284 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6297--6297 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [82] Overfull \hbox (37.93651pt too wide) in paragraph at lines 6316--6316 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 6365--6365 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] Overfull \hbox (14.94176pt too wide) in paragraph at lines 7116--7116 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] [103] Overfull \hbox (26.43913pt too wide) in paragraph at lines 7997--7997 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [104] [105] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8087--8087 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [106] Overfull \hbox (43.6852pt too wide) in paragraph at lines 8164--8164 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [107] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8252--8252 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [108] Chapter 6 [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122] [123] [124] [125] Underfull \hbox (badness 6332) in paragraph at lines 9675--9678 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault Underfull \hbox (badness 10000) in paragraph at lines 9731--9733 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on [126] Underfull \hbox (badness 10000) in paragraph at lines 9736--9741 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [127] [128] Chapter 8 [129] Underfull \hbox (badness 2213) in paragraph at lines 9976--9981 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [130] [131] Overfull \hbox (20.69044pt too wide) in paragraph at lines 10116--10116 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [132] [133] [134] Underfull \hbox (badness 2547) in paragraph at lines 10352--10359 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [135] [136] Overfull \hbox (34.81801pt too wide) in paragraph at lines 10474--10479 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/Paradigm.html[][][] [137] [138] [139] (Function and variable index) [140] (./R-exts.vrs [141] [142]) (Concept index) [143] (./R-exts.cps [144]) [145] ) (see the transcript file for additional information) Output written on R-exts.pdf (151 pages, 804969 bytes). Transcript written on R-exts.log. /bin/bash: line 0: test: too many arguments TEXINPUTS=".:$TEXINPUTS" /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] Chapter 6 [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] [35] <./images/hist.pdf> [36] <./images/ecdf.pdf> [37] <./images/QQ.pdf> [38] <./images/ice.pdf> [39] [40] Chapter 9 [41] [42] Chapter 10 [43] [44] [45] [46] [47] [48] [49] [50] [51] Chapter 11 [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] Chapter 12 [66] [67] [68] [69] [70] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5729--5729 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [71] [72] [73] [74] [75] <./images/fig11.pdf> [76] <./images/fig12.pdf> [77] [78] Underfull \hbox (badness 3240) in paragraph at lines 6211--6214 []@textrm More com-pli-cated ar-range-ments of mul-ti-ple fig-ures can be pro-d uced by the [79] [80] Underfull \hbox (badness 7832) in paragraph at lines 6400--6403 @textrm and these can be ac-cessed from R via the pack-age @textbf rggobi@textr m , de-scribed at Chapter 13 [81] Underfull \hbox (badness 10000) in paragraph at lines 6435--6440 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [82] Appendix A [83] [84] [85] [86] Appendix B [87] [88] [89] [90] [91] [92] [93] Appendix C [94] [95] Appendix D [96] Appendix E [97] Appendix F [98] [99] ) (see the transcript file for additional information) Output written on R-intro.pdf (102 pages, 510563 bytes). Transcript written on R-intro.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-intro.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-intro.toc [-1] [-2] [-3]) [-4] (./R-intro.toc) (./R-intro.toc) (Preface) Chapter 1 [1] [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] Chapter 6 [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] [35] <./images/hist.pdf> [36] <./images/ecdf.pdf> [37] <./images/QQ.pdf> [38] <./images/ice.pdf> [39] [40] Chapter 9 [41] [42] Chapter 10 [43] [44] [45] [46] [47] [48] [49] [50] [51] Chapter 11 [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] Chapter 12 [66] [67] [68] [69] [70] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5729--5729 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [71] [72] [73] [74] [75] <./images/fig11.pdf> [76] <./images/fig12.pdf> [77] [78] Underfull \hbox (badness 3240) in paragraph at lines 6211--6214 []@textrm More com-pli-cated ar-range-ments of mul-ti-ple fig-ures can be pro-d uced by the [79] [80] Underfull \hbox (badness 7832) in paragraph at lines 6400--6403 @textrm and these can be ac-cessed from R via the pack-age @textbf rggobi@textr m , de-scribed at Chapter 13 [81] Underfull \hbox (badness 10000) in paragraph at lines 6435--6440 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [82] Appendix A [83] [84] [85] [86] Appendix B [87] [88] [89] [90] [91] [92] [93] Appendix C [94] [95] Appendix D [96] (./R-intro.vrs [97] [98]) Appendix E [99] (./R-intro.cps [100]) Appendix F [101] [102] ) (see the transcript file for additional information) Output written on R-intro.pdf (108 pages, 648694 bytes). Transcript written on R-intro.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-intro.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-intro.toc [-1] [-2] [-3]) [-4] (./R-intro.toc) (./R-intro.toc) (Preface) Chapter 1 [1] [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] Chapter 6 [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] [35] <./images/hist.pdf> [36] <./images/ecdf.pdf> [37] <./images/QQ.pdf> [38] <./images/ice.pdf> [39] [40] Chapter 9 [41] [42] Chapter 10 [43] [44] [45] [46] [47] [48] [49] [50] [51] Chapter 11 [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] Chapter 12 [66] [67] [68] [69] [70] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5729--5729 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [71] [72] [73] [74] [75] <./images/fig11.pdf> [76] <./images/fig12.pdf> [77] [78] Underfull \hbox (badness 3240) in paragraph at lines 6211--6214 []@textrm More com-pli-cated ar-range-ments of mul-ti-ple fig-ures can be pro-d uced by the [79] [80] Underfull \hbox (badness 7832) in paragraph at lines 6400--6403 @textrm and these can be ac-cessed from R via the pack-age @textbf rggobi@textr m , de-scribed at Chapter 13 [81] Underfull \hbox (badness 10000) in paragraph at lines 6435--6440 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [82] Appendix A [83] [84] [85] [86] Appendix B [87] [88] [89] [90] [91] [92] [93] Appendix C [94] [95] Appendix D [96] (./R-intro.vrs [97] [98]) Appendix E [99] (./R-intro.cps [100]) Appendix F [101] [102] ) (see the transcript file for additional information) Output written on R-intro.pdf (108 pages, 648710 bytes). Transcript written on R-intro.log. /bin/bash: line 0: test: too many arguments TEXINPUTS=".:$TEXINPUTS" /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 [1] [2] [3] [4] [5] [6] [7] [8] [9] Underfull \hbox (badness 3780) in paragraph at lines 824--827 []@textrm The R @texttt sys.frame[] @textrm and @texttt sys.call[] @textrm work by count-ing calls to clo-sures (type [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 2 [24] [25] [26] [27] Chapter 3 [28] [29] Chapter 4 [30] Overfull \hbox (0.6417pt too wide) in paragraph at lines 2317--2320 []@textrm Some notes on the changes for 1.4.0 can be found at [][]@texttt http: //www.stat.auckland.ac.nz/ Underfull \hbox (badness 10000) in paragraph at lines 2317--2320 @texttt ~paul/R/basegraph.html[][][] @textrm and [][]@texttt http://www.stat.au ckland.ac.nz/~paul/R/ [31] [32] [33] [34] [35] [36] [37] [38] [39] Underfull \hbox (badness 2245) in paragraph at lines 3041--3045 []@textrm The base sys-tem state is con-tained in @texttt baseSystemState[] @te xtrm struc-ture de-fined in [40] Chapter 5 [41] [42] Chapter 6 [43] [44] Chapter 7 [45] (Function and variable index) [46] (Concept index) [47] [48] ) (see the transcript file for additional information) Output written on R-ints.pdf (51 pages, 289661 bytes). Transcript written on R-ints.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-ints.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-ints.toc [-1]) [-2] (./R-ints.toc) (./R-ints.toc) Chapter 1 [1] [2] [3] [4] [5] [6] [7] [8] [9] Underfull \hbox (badness 3780) in paragraph at lines 824--827 []@textrm The R @texttt sys.frame[] @textrm and @texttt sys.call[] @textrm work by count-ing calls to clo-sures (type [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 2 [24] [25] [26] [27] Chapter 3 [28] [29] Chapter 4 [30] Overfull \hbox (0.6417pt too wide) in paragraph at lines 2317--2320 []@textrm Some notes on the changes for 1.4.0 can be found at [][]@texttt http: //www.stat.auckland.ac.nz/ Underfull \hbox (badness 10000) in paragraph at lines 2317--2320 @texttt ~paul/R/basegraph.html[][][] @textrm and [][]@texttt http://www.stat.au ckland.ac.nz/~paul/R/ [31] [32] [33] [34] [35] [36] [37] [38] [39] Underfull \hbox (badness 2245) in paragraph at lines 3041--3045 []@textrm The base sys-tem state is con-tained in @texttt baseSystemState[] @te xtrm struc-ture de-fined in [40] Chapter 5 [41] [42] Chapter 6 [43] [44] Chapter 7 [45] (Function and variable index) [46] (./R-ints.vrs [47]) (Concept index) [48] (./R-ints.cps) [49] ) (see the transcript file for additional information) Output written on R-ints.pdf (53 pages, 355147 bytes). Transcript written on R-ints.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-ints.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-ints.toc [-1]) [-2] (./R-ints.toc) (./R-ints.toc) Chapter 1 [1] [2] [3] [4] [5] [6] [7] [8] [9] Underfull \hbox (badness 3780) in paragraph at lines 824--827 []@textrm The R @texttt sys.frame[] @textrm and @texttt sys.call[] @textrm work by count-ing calls to clo-sures (type [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 2 [24] [25] [26] [27] Chapter 3 [28] [29] Chapter 4 [30] Overfull \hbox (0.6417pt too wide) in paragraph at lines 2317--2320 []@textrm Some notes on the changes for 1.4.0 can be found at [][]@texttt http: //www.stat.auckland.ac.nz/ Underfull \hbox (badness 10000) in paragraph at lines 2317--2320 @texttt ~paul/R/basegraph.html[][][] @textrm and [][]@texttt http://www.stat.au ckland.ac.nz/~paul/R/ [31] [32] [33] [34] [35] [36] [37] [38] [39] Underfull \hbox (badness 2245) in paragraph at lines 3041--3045 []@textrm The base sys-tem state is con-tained in @texttt baseSystemState[] @te xtrm struc-ture de-fined in [40] Chapter 5 [41] [42] Chapter 6 [43] [44] Chapter 7 [45] (Function and variable index) [46] (./R-ints.vrs [47]) (Concept index) [48] (./R-ints.cps) [49] ) (see the transcript file for additional information) Output written on R-ints.pdf (53 pages, 355147 bytes). Transcript written on R-ints.log. /bin/bash: line 0: test: too many arguments TEXINPUTS=".:$TEXINPUTS" /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 300--301 @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] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] Chapter 7 [43] [44] Chapter 8 [45] [46] Chapter 9 [47] [48] [49] Chapter 10 [50] [51] [52] [53] [54] [55] [56] [57] (Function and Variable Index) [58] (Concept Index) [59] Appendix A [60] [61] ) (see the transcript file for additional information) Output written on R-lang.pdf (64 pages, 294619 bytes). Transcript written on R-lang.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-lang.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-lang.toc [-1] [-2]) [-3] (./R-lang.toc) (./R-lang.toc) Chapter 1 Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 300--301 @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] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] Chapter 7 [43] [44] Chapter 8 [45] [46] Chapter 9 [47] [48] [49] Chapter 10 [50] [51] [52] [53] [54] [55] [56] [57] (Function and Variable Index) [58] (./R-lang.vrs [59]) (Concept Index) [60] (./R-lang.cps) Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (67 pages, 410665 bytes). Transcript written on R-lang.log. This is pdfTeXk, Version 3.141592-1.40.3 (Web2C 7.5.6) file:line:error style messages enabled. %&-line parsing enabled. entering extended mode (/build/buildd/r-base-2.9.2/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.3 <23 July 2005> ) localization, formatting, and turning on texinfo input format.) (./R-lang.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-lang.toc [-1] [-2]) [-3] (./R-lang.toc) (./R-lang.toc) Chapter 1 Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 300--301 @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] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] Chapter 7 [43] [44] Chapter 8 [45] [46] Chapter 9 [47] [48] [49] Chapter 10 [50] [51] [52] [53] [54] [55] [56] [57] (Function and Variable Index) [58] (./R-lang.vrs [59]) (Concept Index) [60] (./R-lang.cps) Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (67 pages, 410667 bytes). Transcript written on R-lang.log. make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' touch make-indep-stamp *** check *** xvfb-run make check-all make: [check-stamp] Error 1 (ignored) touch check-stamp *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /build/buildd/r-base-2.9.2/debian/r-base-core /usr/bin/make DESTDIR=/build/buildd/r-base-2.9.2/debian/r-base-core install make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/m4' make[2]: Nothing to be done for `install'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/m4' make[2]: Entering directory `/build/buildd/r-base-2.9.2/tools' make[2]: Nothing to be done for `install'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/tools' make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc' installing doc ... mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/man/man1 /usr/bin/install -c -m 644 ../NEWS "/build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc" make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/html' installing doc/html ... mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc/html make[4]: Entering directory `/build/buildd/r-base-2.9.2/doc/html/search' installing doc/html/search ... mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc/html/search make[4]: Leaving directory `/build/buildd/r-base-2.9.2/doc/html/search' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/html' make[3]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' installing doc/manual ... mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc/manual make[3]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc' make[2]: Entering directory `/build/buildd/r-base-2.9.2/etc' mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/etc installing etc ... make[2]: Leaving directory `/build/buildd/r-base-2.9.2/etc' make[2]: Entering directory `/build/buildd/r-base-2.9.2/share' installing share ... mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/R mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/encodings mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/java mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/licenses mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/make mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/perl mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/perl/R mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/perl/File/Copy mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/perl/Text mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/texmf make[2]: Leaving directory `/build/buildd/r-base-2.9.2/share' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/scripts' mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/scripts' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/include' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/include/R_ext' mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/include/R_ext' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/include' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/extra' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/extra/blas' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra/blas' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/extra/bzip2' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra/bzip2' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/extra/pcre' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra/pcre' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/extra/xdr' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra/xdr' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/extra/zlib' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra/zlib' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/extra/intl' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra/intl' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/extra' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Nothing to be done for `install'. make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/appl' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Nothing to be done for `install'. make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -DR_HOME='"/usr/lib/R"' -o Rscript \ ./Rscript.c mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/main' mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/bin/exec mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/lib make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/main' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/main' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/modules' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/X11' mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/X11' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/internet' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/lapack' make[4]: Entering directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[4]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules/vfonts' make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/modules' make[3]: Entering directory `/build/buildd/r-base-2.9.2/src/library' mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... make[3]: Leaving directory `/build/buildd/r-base-2.9.2/src/library' make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src' make[2]: Entering directory `/build/buildd/r-base-2.9.2/tests' make[2]: Nothing to be done for `install'. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/tests' make[2]: Entering directory `/build/buildd/r-base-2.9.2/po' installing translations: mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/en/LC_MESSAGES en mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/en_GB/LC_MESSAGES en_GB mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/es/LC_MESSAGES es mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/fr/LC_MESSAGES fr mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/de/LC_MESSAGES de mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/it/LC_MESSAGES it mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/ja/LC_MESSAGES ja mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/ko/LC_MESSAGES ko mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/pt_BR/LC_MESSAGES pt_BR mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/ru/LC_MESSAGES ru mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/zh_CN/LC_MESSAGES zh_CN mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/zh_TW/LC_MESSAGES zh_TW mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/locale/en@quot/LC_MESSAGES en@quot make[2]: Leaving directory `/build/buildd/r-base-2.9.2/po' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' (cd src/unix; \ rm -vf Rscript /build/buildd/r-base-2.9.2/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="-std=gnu99 -O3 -pipe -g -D_REENTRANT" \ CXXFLAGS="-O3 -pipe -g -D_REENTRANT" \ FFLAGS="-O3 -pipe -g -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/build/buildd/r-base-2.9.2/debian/r-base-core \ install-Rscript ) removed `Rscript' removed `/build/buildd/r-base-2.9.2/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory `/build/buildd/r-base-2.9.2/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fpic -std=gnu99 -O3 -pipe -g -D_REENTRANT -DR_HOME='"/usr/lib/R"' -o Rscript \ ./Rscript.c make[1]: Leaving directory `/build/buildd/r-base-2.9.2/src/unix' #ls -ltr /build/buildd/r-base-2.9.2/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /build/buildd/r-base-2.9.2/debian/r-base-core/usr/bin/ `src/unix/Rscript' -> `/build/buildd/r-base-2.9.2/debian/r-base-core/usr/bin/Rscript' #ls -ltr /build/buildd/r-base-2.9.2/debian/r-base-core/usr/bin/ #strings /build/buildd/r-base-2.9.2/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/build/buildd/r-base-2.9.2/debian/r-base-core install ) make[1]: Entering directory `/build/buildd/r-base-2.9.2/src/nmath/standalone' make[2]: Entering directory `/build/buildd/r-base-2.9.2/src/include' make[2]: `Rmath.h' is up to date. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/src/include' /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory `/build/buildd/r-base-2.9.2/src/nmath/standalone' chmod a+x /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/sh/echo.sh \ /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/sh/help-links.sh \ /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/share/sh/help-print.sh rm -v /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/COPYING removed `/build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/COPYING' (cd /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc/COPYING \ /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc/COPYING.LIB removed `/build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc/COPYING' removed `/build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc/COPYING.LIB' (cd /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING; \ ln -s ../../../share/common-licenses/LGPL-2.1 COPYING.LIB ) # edd 03 Oct 2006 use link into /usr/share/, not /usr/lib/ (cd /build/buildd/r-base-2.9.2/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 dh_movefiles --sourcedir=debian/r-base-core -pr-base-latex make prefix=/build/buildd/r-base-2.9.2/debian/r-base-core/usr \ rdocdir=/build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' installing R manuals in PDF format ... make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' make prefix=/build/buildd/r-base-2.9.2/debian/r-base-core/usr \ infodir=/build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info install-info make[1]: Entering directory `/build/buildd/r-base-2.9.2' make[2]: Entering directory `/build/buildd/r-base-2.9.2/doc/manual' mkdir -p -- /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info" installing R info pages ... updating '/build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/dir' ... * R FAQ: (R-FAQ). The R statistical system FAQ. install-info.pl: creating new section `Programming' install-info.pl: no sections yet, creating Miscellaneous section too. * R Administration: (R-admin). R Installation and Administration. * R Data: (R-data). R Data Import/Export. * R Extensions: (R-exts). Writing R Extensions. * R Introduction: (R-intro). An introduction to R. * R Internals: (R-ints). R Internals. * R Language: (R-lang). The R Language Definition. make[2]: Leaving directory `/build/buildd/r-base-2.9.2/doc/manual' make[1]: Leaving directory `/build/buildd/r-base-2.9.2' dh_movefiles --sourcedir=debian/r-base-core -pr-doc-pdf dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html touch install-indep-stamp gunzip -9v /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/*.gz /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 66.7% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-FAQ.info /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-admin.info.gz: 67.9% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-admin.info /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-data.info.gz: 70.1% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-data.info /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 67.5% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-exts.info-1 /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 73.3% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-exts.info-2 /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-exts.info.gz: 62.2% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-exts.info /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.0% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-intro.info /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-ints.info.gz: 67.3% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-ints.info /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-lang.info.gz: 71.2% -- replaced with /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/info/R-lang.info dh_movefiles --sourcedir=debian/r-base-core -pr-doc-info rm -vf /build/buildd/r-base-2.9.2/debian/r-doc-info/usr/share/info/dir \ /build/buildd/r-base-2.9.2/debian/r-doc-info/usr/share/info/dir.old removed `/build/buildd/r-base-2.9.2/debian/r-doc-info/usr/share/info/dir' removed `/build/buildd/r-base-2.9.2/debian/r-doc-info/usr/share/info/dir.old' 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 /build/buildd/r-base-2.9.2/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 1320 -rw-r--r-- 1 root root 869242 Oct 17 04:59 libRmath.a -rwxr-xr-x 1 root root 466672 Oct 17 04:59 libRmath.so drwxr-xr-x 2 root root 4096 Oct 17 04:59 pkgconfig `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 \ /build/buildd/r-base-2.9.2/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /build/buildd/r-base-2.9.2/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /build/buildd/r-base-2.9.2/debian/r-base-core/etc/R (cd /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/etc; \ cat /build/buildd/r-base-2.9.2/debian/Renviron-R_LIBS.patch | patch --verbose; \ 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 . ) Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |--- Renviron.orig 2003-04-04 06:52:22.000000000 -0500 |+++ Renviron 2003-04-04 06:49:05.000000000 -0500 -------------------------- Patching file Renviron using Plan A... Hunk #1 succeeded at 43 with fuzz 2 (offset 10 lines). done (cd /build/buildd/r-base-2.9.2/debian/r-base-core/usr/lib/R/bin; \ cat /build/buildd/r-base-2.9.2/debian/javareconf.patch | patch --verbose ) Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |--- javareconf.orig 2008-08-25 06:26:13.000000000 -0500 |+++ javareconf 2008-08-25 06:30:49.000000000 -0500 -------------------------- Patching file javareconf using Plan A... Hunk #1 succeeded at 315 (offset 20 lines). done install -m 0644 debian/R.bash_completion \ debian/r-base-core/etc/bash_completion.d/R touch install-arch-stamp *** binary-arch *** dh_testdir -a dh_testroot -a dh_installdocs -pr-base-core NEWS ONEWS OONEWS README \ debian/README.Atlas \ debian/README.mathlib dh_installdocs -pr-mathlib NEWS ONEWS OONEWS README \ debian/README.mathlib dh_installdocs -pr-base-core-dbg dh_installexamples -pr-mathlib src/nmath/standalone/test.c dh_installmenu -a # (cd /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/doc .) install -p -m 0644 debian/r-base-core.lintian \ /build/buildd/r-base-2.9.2/debian/r-base-core/usr/share/lintian/overrides/r-base-core install -p -m 0644 debian/r-recommended.lintian \ /build/buildd/r-base-2.9.2/debian/r-recommended/usr/share/lintian/overrides/r-recommended install -p -m 0644 debian/r-mathlib.lintian \ /build/buildd/r-base-2.9.2/debian/r-mathlib/usr/share/lintian/overrides/r-mathlib install -p -m 0644 debian/r-base-core-dbg.lintian \ /build/buildd/r-base-2.9.2/debian/r-base-core-dbg/usr/share/lintian/overrides/r-base-core-dbg dh_installchangelogs -a -k NEWS dh_strip --sourcedir=/build/buildd/r-base-2.9.2/debian/r-base-core --dbg-package=r-base-core-dbg dh_strip debug symbol extraction: all non-arch-all packages for this build platform i386: r-base-core r-mathlib r-base-core-dbg dh_strip debug symbol extraction: not adding gnu debuglinks since --dbg-package is given dh_strip debug symbol extraction: packages to act on: r-base-core r-mathlib r-base-core-dbg dh_strip debug symbol extraction: ignored packages: WARNING: not running pkgbinarymangler for this package, as requested dpkg-deb: warning: '/build/buildd/r-base-2.9.2/debian/r-base-core-dbgsym/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base-core-dbgsym' in `../r-base-core-dbgsym_2.9.2-3ubuntu1_i386.ddeb'. WARNING: not running pkgbinarymangler for this package, as requested dpkg-deb: warning: '/build/buildd/r-base-2.9.2/debian/r-mathlib-dbgsym/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-mathlib-dbgsym' in `../r-mathlib-dbgsym_2.9.2-3ubuntu1_i386.ddeb'. Unknown option: sourcedir dh_strip.pkg-create-dbgsym: warning: unknown options will be a fatal error in a future debhelper release dh_strip --sourcedir=/build/buildd/r-base-2.9.2/debian/r-mathlib dh_strip debug symbol extraction: all non-arch-all packages for this build platform i386: r-base-core r-mathlib r-base-core-dbg dh_strip debug symbol extraction: packages to act on: r-base-core r-mathlib r-base-core-dbg dh_strip debug symbol extraction: ignored packages: WARNING: not running pkgbinarymangler for this package, as requested dpkg-deb: warning: '/build/buildd/r-base-2.9.2/debian/r-base-core-dbgsym/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base-core-dbgsym' in `../r-base-core-dbgsym_2.9.2-3ubuntu1_i386.ddeb'. WARNING: not running pkgbinarymangler for this package, as requested dpkg-deb: warning: '/build/buildd/r-base-2.9.2/debian/r-mathlib-dbgsym/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-mathlib-dbgsym' in `../r-mathlib-dbgsym_2.9.2-3ubuntu1_i386.ddeb'. Unknown option: sourcedir dh_strip.pkg-create-dbgsym: warning: unknown options will be a fatal error in a future debhelper release dh_compress -a dh_fixperms -a dh_link -a dh_makeshlibs -a dh_installdeb -a dh_perl -a dh_shlibdeps -a -l /build/buildd/r-base-2.9.2/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 `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: dependency on libglib-2.0.so.0 could be avoided if "debian/r-base-core/usr/lib/R/modules/R_X11.so" were not uselessly linked against it (they use none of its symbols). dpkg-shlibdeps: warning: dependency on libXss.so.1 could be avoided if "debian/r-base-core/usr/lib/R/library/tcltk/libs/tcltk.so" were not uselessly linked against it (they use none of its symbols). dpkg-shlibdeps: warning: dependency on libXext.so.6 could be avoided if "debian/r-base-core/usr/lib/R/library/tcltk/libs/tcltk.so" were not uselessly linked against it (they use none of its symbols). dpkg-shlibdeps: warning: dependency on libgmodule-2.0.so.0 could be avoided if "debian/r-base-core/usr/lib/R/modules/R_X11.so" were not uselessly linked against it (they use none of its symbols). dpkg-shlibdeps: warning: dependency on libSM.so.6 could be avoided if "debian/r-base-core/usr/lib/R/modules/R_X11.so" were not uselessly linked against it (they use none of its symbols). dpkg-shlibdeps: warning: dependency on libICE.so.6 could be avoided if "debian/r-base-core/usr/lib/R/modules/R_X11.so" were not uselessly linked against it (they use none of its symbols). dpkg-shlibdeps: warning: symbol hypot used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol fmod used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol trunc used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol sincos used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol sinh used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol floor used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol log10 used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol pow used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol expm1 used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol exp used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all). dh_gencontrol -a dpkg-gencontrol: warning: unused substitution variable ${shlibs:Depends} dh_md5sums -a -X'usr/bin/R' -X'usr/bin/Rscript' \ -X'usr/lib/debug/usr/bin/Rscript' \ -X'usr/lib/R/bin/Rscript' \ -X'usr/lib/R/etc/Renviron.ucf' \ -XLibIndex -Xindex.txt \ -Xfunction.html -Xpackages.html dh_builddeb -a pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: preparing translation tarball r-base_2.9.2-3ubuntu1_i386_translations.tar.gz...done (235 files) pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-base-core/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base-core' in `../r-base-core_2.9.2-3ubuntu1_i386.deb'. pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-mathlib/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-mathlib' in `../r-mathlib_2.9.2-3ubuntu1_i386.deb'. pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-base-core-dbg/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base-core-dbg' in `../r-base-core-dbg_2.9.2-3ubuntu1_i386.deb'. *** binary-indep *** dh_testdir -i dh_testroot -i dh_link -i dh_installdocs -i dh_installdocs -v -pr-doc-html install -g 0 -o 0 -m 644 -p debian/copyright debian/r-doc-html/usr/share/doc/r-doc-html/copyright install -g 0 -o 0 -m644 -p debian/r-doc-html.doc-base.admin debian/r-doc-html/usr/share/doc-base/r-admin install -g 0 -o 0 -m644 -p debian/r-doc-html.doc-base.faq debian/r-doc-html/usr/share/doc-base/r-faq install -g 0 -o 0 -m644 -p debian/r-doc-html.doc-base.exts debian/r-doc-html/usr/share/doc-base/r-extensions install -g 0 -o 0 -m644 -p debian/r-doc-html.doc-base.data debian/r-doc-html/usr/share/doc-base/r-data install -g 0 -o 0 -m644 -p debian/r-doc-html.doc-base.ints debian/r-doc-html/usr/share/doc-base/r-ints install -g 0 -o 0 -m644 -p debian/r-doc-html.doc-base.lang debian/r-doc-html/usr/share/doc-base/r-language install -g 0 -o 0 -m644 -p debian/r-doc-html.doc-base.intro debian/r-doc-html/usr/share/doc-base/r-intro dh_installchangelogs -i install -p -m 0644 debian/r-base-latex.lintian \ /build/buildd/r-base-2.9.2/debian/r-base-latex/usr/share/lintian/overrides/r-base-latex dh_installdirs -pr-base-dev usr/share/R/debian install -p -m 0755 debian/r-cran.mk \ /build/buildd/r-base-2.9.2/debian/r-base-dev/usr/share/R/debian dh_compress -i dh_fixperms -i dh_installdeb -i dh_gencontrol -i dh_md5sums -i -X'usr/bin/R' dh_builddeb -i pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-base/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base' in `../r-base_2.9.2-3ubuntu1_all.deb'. pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-base-dev/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base-dev' in `../r-base-dev_2.9.2-3ubuntu1_all.deb'. pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-base-html/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base-html' in `../r-base-html_2.9.2-3ubuntu1_all.deb'. pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-base-latex/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-base-latex' in `../r-base-latex_2.9.2-3ubuntu1_all.deb'. pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-doc-pdf/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-doc-pdf' in `../r-doc-pdf_2.9.2-3ubuntu1_all.deb'. pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-doc-html/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-doc-html' in `../r-doc-html_2.9.2-3ubuntu1_all.deb'. pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-doc-info/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-doc-info' in `../r-doc-info_2.9.2-3ubuntu1_all.deb'. pkgstriptranslations: processing control file: ./debian/r-base/DEBIAN/control, package r-base, directory ./debian/r-base pkgstriptranslations: r-base does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core/DEBIAN/control, package r-base-core, directory ./debian/r-base-core pkgstriptranslations: r-base-core does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-dev/DEBIAN/control, package r-base-dev, directory ./debian/r-base-dev pkgstriptranslations: r-base-dev does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-mathlib/DEBIAN/control, package r-mathlib, directory ./debian/r-mathlib pkgstriptranslations: r-mathlib does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-html/DEBIAN/control, package r-base-html, directory ./debian/r-base-html pkgstriptranslations: r-base-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-latex/DEBIAN/control, package r-base-latex, directory ./debian/r-base-latex pkgstriptranslations: r-base-latex does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-pdf/DEBIAN/control, package r-doc-pdf, directory ./debian/r-doc-pdf pkgstriptranslations: r-doc-pdf does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-html/DEBIAN/control, package r-doc-html, directory ./debian/r-doc-html pkgstriptranslations: r-doc-html does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-doc-info/DEBIAN/control, package r-doc-info, directory ./debian/r-doc-info pkgstriptranslations: r-doc-info does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-recommended/DEBIAN/control, package r-recommended, directory ./debian/r-recommended pkgstriptranslations: r-recommended does not contain translations, skipping pkgstriptranslations: processing control file: ./debian/r-base-core-dbg/DEBIAN/control, package r-base-core-dbg, directory ./debian/r-base-core-dbg pkgstriptranslations: r-base-core-dbg does not contain translations, skipping pkgstriptranslations: tarball already exists pkgstriptranslations: static tarball already exists pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com dpkg-deb: warning: 'debian/r-recommended/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warnings about the control file(s) dpkg-deb: building package `r-recommended' in `../r-recommended_2.9.2-3ubuntu1_all.deb'. dpkg-genchanges -b -mUbuntu/i386 Build Daemon >../r-base_2.9.2-3ubuntu1_i386.changes dpkg-genchanges: binary-only upload - not including any source code dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20091017-0601 Publishing chroot-autobuild/build/buildd/r-base_2.9.2-3ubuntu1_i386_translations.tar.gz for rosetta. Publishing debug debs. chroot-autobuild/build/buildd/r-base-core_2.9.2-3ubuntu1_i386.deb: new debian package, version 2.0. size 10614652 bytes: control archive= 80907 bytes. 118 bytes, 6 lines conffiles 2701 bytes, 46 lines control 215897 bytes, 2904 lines md5sums 2434 bytes, 73 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh 667 bytes, 34 lines * preinst #!/bin/sh 689 bytes, 26 lines * prerm #!/bin/sh 30 bytes, 1 lines shlibs Package: r-base-core Source: r-base Version: 2.9.2-3ubuntu1 Architecture: i386 Maintainer: Ubuntu MOTU Developers Installed-Size: 32608 Depends: perl, zip, unzip, libpaper-utils, xdg-utils, libblas3gf | libblas.so.3gf | libatlas3gf-base, libbz2-1.0, libc6 (>= 2.8), libcairo2 (>= 1.2.4), libgfortran3 (>= 4.3), libglib2.0-0 (>= 2.12.0), libice6 (>= 1:1.0.0), libjpeg62, liblapack3gf | liblapack.so.3gf | libatlas3gf-base, libpango1.0-0 (>= 1.14.0), libpcre3 (>= 7.7), libpng12-0 (>= 1.2.13-4), libreadline6, libsm6, libtiff4, libx11-6, libxext6, libxss1, libxt6, tcl8.5 (>= 8.5.0), tk8.5 (>= 8.5.0), zlib1g (>= 1:1.2.3.3.dfsg), ucf (>= 3.0) Recommends: r-recommended, r-base-dev Suggests: ess, r-doc-info | r-doc-pdf | r-doc-html, r-mathlib, r-base-html | r-base-latex Conflicts: r-cran-rcompgen, r-gnome Replaces: r-base (<= 1.4.1-1), r-cran-rcompgen (<= 0.1-17-1), r-gnome (<= 2.3.1), r-recommended (<< 1.9.0) Provides: 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, over 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-base-latex, r-doc-html, r-doc-pdf and r-doc-info have been split off to somewhat reduce the size of this package. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-mathlib_2.9.2-3ubuntu1_i386.deb: new debian package, version 2.0. size 526242 bytes: control archive= 1793 bytes. 1827 bytes, 39 lines control 867 bytes, 13 lines md5sums 135 bytes, 7 lines * postinst #!/bin/sh 132 bytes, 7 lines * postrm #!/bin/sh 30 bytes, 1 lines shlibs Package: r-mathlib Source: r-base Version: 2.9.2-3ubuntu1 Architecture: i386 Maintainer: Ubuntu MOTU Developers Installed-Size: 940 Recommends: r-base-core (= 2.9.2-3ubuntu1), r-base-dev (= 2.9.2-3ubuntu1) Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R standalone mathematics library 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This packages provides the libRmath shared and static libraries which can be called from standalone C or C++ code. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-base-core-dbg_2.9.2-3ubuntu1_i386.deb: new debian package, version 2.0. size 2302498 bytes: control archive= 1780 bytes. 1856 bytes, 39 lines control 1447 bytes, 18 lines md5sums Package: r-base-core-dbg Source: r-base Version: 2.9.2-3ubuntu1 Architecture: i386 Maintainer: Ubuntu MOTU Developers Installed-Size: 5580 Depends: r-base-core (= 2.9.2-3ubuntu1), r-base-dev (= 2.9.2-3ubuntu1) Section: debug Priority: extra Homepage: http://www.r-project.org/ Description: GNU R debug symbols for statistical comp. language and environment 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package contains debugging symbol tables for the binaries and dynamic libraries in the r-base-core package. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-base_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 33706 bytes: control archive= 1433 bytes. 2166 bytes, 43 lines control 209 bytes, 3 lines md5sums Package: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 76 Depends: r-base-core (>= 2.9.2-3ubuntu1), r-recommended (= 2.9.2-3ubuntu1) Recommends: r-base-html, r-base-latex Suggests: ess, r-doc-info | r-doc-pdf | r-doc-html 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. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package is a metapackage which eases the transition from the pre-1.5.0 package setup with its larger r-base package. Once installed, it can be safely removed and apt-get will automatically upgrade its components during future upgrades. Providing this packages gives a way to users to then only install r-base-core (but not, say, r-base-latex) if they so desire. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-base-dev_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 3542 bytes: control archive= 1526 bytes. 2045 bytes, 40 lines control 63 bytes, 1 lines md5sums 425 bytes, 26 lines * preinst #!/bin/sh Package: r-base-dev Source: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 36 Depends: r-base-core (>= 2.9.2-3ubuntu1), build-essential, gcc, g++, gfortran, libblas-dev | libatlas-base-dev, liblapack-dev | libatlas-base-dev, libncurses5-dev, libreadline-dev, libjpeg62-dev, libpcre3-dev, libpng12-dev, zlib1g-dev, libbz2-dev, dpatch Suggests: cdbs, debhelper 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. 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This packages ensures that other Debian packages needed for installation of some auxiliary R packages are installed. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-base-html_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 1319920 bytes: control archive= 36000 bytes. 2010 bytes, 43 lines control 98329 bytes, 1258 lines md5sums Package: r-base-html Source: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 7820 Depends: r-base-core Suggests: r-doc-html, mozilla | www-browser Replaces: r-base (<= 1.4.1-1), r-recommended (<< 1.9.0) Section: doc Priority: extra Homepage: http://www.r-project.org/ Description: GNU R html docs for statistical computing system functions 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This packages provides html documentation suitable for browsing with a web-browser for the libraries included in the r-base package. It is not a required package as the same documentation is already included for on-line browsing. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-base-latex_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 1235430 bytes: control archive= 35675 bytes. 1958 bytes, 41 lines control 97481 bytes, 1247 lines md5sums Package: r-base-latex Source: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 6732 Depends: r-base-core Replaces: r-base (<= 1.4.1-1), r-recommended (<< 1.9.0) Section: doc Priority: extra Homepage: http://www.r-project.org/ Description: GNU R LaTeX docs for statistical computing system functions 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This packages provides LaTeX documentation suitable for off-line printing for the libraries included in the r-base package. It is not a required package as the same documentation is already included for on-line browsing. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-doc-pdf_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 6822032 bytes: control archive= 1730 bytes. 1823 bytes, 39 lines control 691 bytes, 10 lines md5sums 422 bytes, 26 lines * preinst #!/bin/sh Package: r-doc-pdf Source: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 11796 Suggests: r-base-core, xdg-utils | pdf-viewer Section: doc Priority: optional Homepage: http://www.r-project.org/ Description: GNU R pdf manuals for statistical computing 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This packages provides the R manuals in pdf format. The sibling packages r-doc-html and r-doc-info provides the same manuals. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-doc-html_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 572674 bytes: control archive= 2030 bytes. 1853 bytes, 40 lines control 1063 bytes, 16 lines md5sums 635 bytes, 32 lines * preinst #!/bin/sh Package: r-doc-html Source: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 2224 Suggests: r-base-core, mozilla | www-browser Replaces: r-base (<= 1.4.1-1) Section: doc Priority: optional Homepage: http://www.r-project.org/ Description: GNU R html manuals for statistical computing 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This packages provides the R manuals in html format. The sibling packages r-doc-pdf and r-doc-info provides the same manuals. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-doc-info_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 492262 bytes: control archive= 1557 bytes. 1896 bytes, 41 lines control 729 bytes, 11 lines md5sums Package: r-doc-info Source: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 560 Depends: dpkg (>= 1.15.4) | install-info Suggests: r-base-core, info (>= 3.12) | info-browser Replaces: r-base (<= 1.4.1-1) Section: doc Priority: optional Homepage: http://www.r-project.org/ Description: GNU R info manuals statistical computing 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, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This packages provides the R manuals in info format. The sibling packages r-doc-html and r-doc-pdf provide the same manuals. Original-Maintainer: Dirk Eddelbuettel chroot-autobuild/build/buildd/r-recommended_2.9.2-3ubuntu1_all.deb: new debian package, version 2.0. size 2710 bytes: control archive= 2103 bytes. 3267 bytes, 57 lines control 76 bytes, 1 lines md5sums 434 bytes, 26 lines * preinst #!/bin/sh Package: r-recommended Source: r-base Version: 2.9.2-3ubuntu1 Architecture: all Maintainer: Ubuntu MOTU Developers Installed-Size: 48 Depends: r-base-core (>= 2.9.2-3ubuntu1), 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-vr (>= 7.2.8), 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, over 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 - VR: The 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. 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root/root 0 2009-10-17 05:59 ./usr/lib/ drwxr-xr-x root/root 0 2009-10-17 05:59 ./usr/lib/R/ drwxr-xr-x root/root 0 2009-10-17 05:59 ./usr/lib/R/library/ drwxr-xr-x root/root 0 2009-10-17 06:00 ./usr/share/ drwxr-xr-x root/root 0 2009-10-17 05:59 ./usr/share/lintian/ drwxr-xr-x root/root 0 2009-10-17 05:59 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 542 2009-10-17 05:48 ./usr/share/lintian/overrides/r-recommended drwxr-xr-x root/root 0 2009-10-17 06:00 ./usr/share/doc/ lrwxrwxrwx root/root 0 2009-10-17 06:00 ./usr/share/doc/r-recommended -> r-base-core r-base_2.9.2-3ubuntu1_i386.changes: Format: 1.8 Date: Fri, 16 Oct 2009 20:32:12 -0700 Source: r-base Binary: r-base r-base-core r-base-dev r-mathlib r-base-html r-base-latex r-doc-pdf r-doc-html r-doc-info r-recommended r-base-core-dbg Architecture: i386 i386_translations all Version: 2.9.2-3ubuntu1 Distribution: karmic Urgency: low Maintainer: Ubuntu/i386 Build Daemon Changed-By: Scott Ritchie Description: r-base - GNU R statistical computation and graphics system r-base-core - GNU R core of statistical computation and graphics system r-base-core-dbg - GNU R debug symbols for statistical comp. language and environmen r-base-dev - GNU R installation of auxiliary GNU R packages r-base-html - GNU R html docs for statistical computing system functions r-base-latex - GNU R LaTeX 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 (2.9.2-3ubuntu1) karmic; urgency=low . * update from https://launchpad.net/~revor/+archive/ppa. Checksums-Sha1: 469c457cb0e5f64ba85ec29d1a865210db08a24c 10614652 r-base-core_2.9.2-3ubuntu1_i386.deb a2c0f3b4dcf598ff558948fc2acd3e031ec46adb 526242 r-mathlib_2.9.2-3ubuntu1_i386.deb 11c41ef581274bd988b0d2d64b4387ede8df42b8 2302498 r-base-core-dbg_2.9.2-3ubuntu1_i386.deb 178974bb38e12c62395cec2544ef5dc92a67fb50 1549804 r-base_2.9.2-3ubuntu1_i386_translations.tar.gz 8caacb6508431a48ca790252c3c23abab509a645 33706 r-base_2.9.2-3ubuntu1_all.deb adf2cb98cbaef4d0587484da4e3da1fbb1f48214 3542 r-base-dev_2.9.2-3ubuntu1_all.deb 27eddb151ab4ecccd997e65f3f1a71c86f30d065 1319920 r-base-html_2.9.2-3ubuntu1_all.deb 2b4e51067ed9870edfd21d6025da940a7b0e7b9d 1235430 r-base-latex_2.9.2-3ubuntu1_all.deb 9d85093974f72eef89952bc9dd4bb1890ba29fed 6822032 r-doc-pdf_2.9.2-3ubuntu1_all.deb 6251ca0098435cbaf9d689823c0e7c6ade23dbec 572674 r-doc-html_2.9.2-3ubuntu1_all.deb bb5ca2d13044988cdc6b15337d8b3061de2266ab 492262 r-doc-info_2.9.2-3ubuntu1_all.deb d5490cc3353e13440bea78c0c92e449ece23760e 2710 r-recommended_2.9.2-3ubuntu1_all.deb Checksums-Sha256: 740ee9ae94185c4ece9bc6b23a29bcdb4e800355e581ded6ad11a04fdd84c5ef 10614652 r-base-core_2.9.2-3ubuntu1_i386.deb b80d167657de2d4e1bcc169ad7a8d7aa201cf44886124689cfec18ac70086539 526242 r-mathlib_2.9.2-3ubuntu1_i386.deb 9865fd259deb2fa2ab4b060f1ae66362e4d768d2f78c68b7599df1dd4c77f6ec 2302498 r-base-core-dbg_2.9.2-3ubuntu1_i386.deb 265e32298fa800882d40ffe7cbd26052ce407f35ed49d3d4eadcc1c1295c6664 1549804 r-base_2.9.2-3ubuntu1_i386_translations.tar.gz 32942c4ea5aee0329ad7a8e8652d442c6c7beb5b4a5703c83911cd51978edeae 33706 r-base_2.9.2-3ubuntu1_all.deb 22243daaa91957b232a5c6a679ff4c287c6e3198416711a6f9b45b4502b33d2b 3542 r-base-dev_2.9.2-3ubuntu1_all.deb cd501a5964972ba9c5f16b300a8ff988d6c585725730f0df5c6b16786c4b7de3 1319920 r-base-html_2.9.2-3ubuntu1_all.deb 9c63a2e4e5a9fd97820acfdb3098df50efb2ecc915c2ed9a8f4c4eed8b47d8bd 1235430 r-base-latex_2.9.2-3ubuntu1_all.deb 7ee25e05e077cdfe177804ccace98b9ac7de53581f4d3c6b49916eff9f35968d 6822032 r-doc-pdf_2.9.2-3ubuntu1_all.deb ca9df8ed4d065b5866e17cbb9d1156d78ae8e32241dc3ac97873d8d071efd0a2 572674 r-doc-html_2.9.2-3ubuntu1_all.deb 4eef808ad6800f0362b185a511b7abba32f6c94a1564c79c9af52d44c491a57b 492262 r-doc-info_2.9.2-3ubuntu1_all.deb 81cf34d4272a781112d7a518a4063fbede79c8ad9e7266a5b5a6053245c34f85 2710 r-recommended_2.9.2-3ubuntu1_all.deb Files: 3a64ea7713ff6fbb6a321dfdd43563fd 10614652 gnu-r optional r-base-core_2.9.2-3ubuntu1_i386.deb 9d5279b1ae80a1b9f312d004b9087841 526242 gnu-r optional r-mathlib_2.9.2-3ubuntu1_i386.deb 6e3051b2c8394fb340225f3c0286f5a9 2302498 debug extra r-base-core-dbg_2.9.2-3ubuntu1_i386.deb c2b7a12c9de39c1ad5e3946b9b18ebdc 1549804 raw-translations - r-base_2.9.2-3ubuntu1_i386_translations.tar.gz 9ab9230d3fbdc1a785d6a0aaf7702c5c 33706 gnu-r optional r-base_2.9.2-3ubuntu1_all.deb f8ed5a6922a39d60dba8e1a2727d518f 3542 gnu-r optional r-base-dev_2.9.2-3ubuntu1_all.deb 2757348a0f36f55dbe03e93a20ed95d2 1319920 doc extra r-base-html_2.9.2-3ubuntu1_all.deb 02550d68d73fc5435e2e0452f25aa4fe 1235430 doc extra r-base-latex_2.9.2-3ubuntu1_all.deb 30e65c9a46e36906beb2ca17d4653528 6822032 doc optional r-doc-pdf_2.9.2-3ubuntu1_all.deb df46cf797d32080652bfe74b9f42ef1b 572674 doc optional r-doc-html_2.9.2-3ubuntu1_all.deb 319d0b1ae5195243af2308aff5c93950 492262 doc optional r-doc-info_2.9.2-3ubuntu1_all.deb 835d6614388bcad37c79230a7afe3ecb 2710 gnu-r optional r-recommended_2.9.2-3ubuntu1_all.deb Original-Maintainer: Dirk Eddelbuettel ****************************************************************************** Built successfully Purging chroot-autobuild/build/buildd/r-base-2.9.2 ------------------------------------------------------------------------------ /usr/bin/sudo dpkg --purge groff-base libavahi-common3 libx11-data m4 fontconfig-config libkpathsea4 gettext file zlib1g-dev libxaw7 ttf-dejavu libcairo2 texlive-common openjdk-6-jdk x11-common openjdk-6-jre-lib python2.6 libx11-dev libvorbis0a tk8.5-dev libvorbisenc2 libfontenc1 libxi6 libpcre3-dev libjpeg62 libxcursor1 xvfb libwrap0 x11proto-input-dev libexpat1-dev libjasper1 libpixman-1-dev libjpeg62-dev libaccess-bridge-java-jni libfontconfig1 libtiffxx0c2 libnspr4-0d libblas3gf libgfortran3 texlive-latex-extra libpcrecpp0 texlive-fonts-recommended libsysfs-dev libx11-6 xtrans-dev tk8.5 libglib2.0-0 libgif4 libnewt0.52 libpango1.0-common libhal1 libxdamage1 libxt6 texlive-base libxss1 bison texlive-doc-base libglib2.0-dev libxcb-render-util0 x11proto-scrnsaver-dev tsconf libdirectfb-dev libxml2 x11proto-xext-dev pkg-config libthai-data libice6 xserver-common xauth intltool-debian libavahi-client3 libxrender1 libfontconfig1-dev texlive-extra-utils texlive-latex-base libxext-dev libcups2 libdirectfb-extra libxau-dev libdatrie1 libxcb-render-util0-dev libxrender-dev openjdk-6-jre xfonts-utils ttf-dejavu-extra libpng12-dev libavahi-common-data libxtst6 libxft2 x11proto-render-dev libxext6 libsysfs2 libasound2 libsqlite3-0 libxinerama1 preview-latex-style libpcre3 libblas-dev tzdata-java libsm-dev ca-certificates-java libncursesw5 libxmu6 xfonts-encodings defoma libxdmcp-dev ttf-dejavu-core libpulse0 libcairo2-dev fontconfig libxcb-render0-dev texi2html libxpm4 rhino libcroco3 libxmuu1 texlive-base-bin gfortran liblapack-dev libxt-dev libpopt0 xdg-utils libfreetype6 texlive-generic-recommended libice-dev texlive-latex-recommended libatk1.0-0 libfreetype6-dev texlive-pictures libgtk2.0-0 libxss-dev liblapack3gf libflac8 libxcb1 tex-common libnss3-1d html2text libsndfile1 libreadline6-dev libjline-java libxrandr2 debhelper libpthread-stubs0 libthai0 libncurses5-dev tcl8.5 libmagic1 libtiff4 libexpat1 tcl8.5-dev bsdmainutils libxau6 libpango1.0-dev libxcomposite1 mime-support x11proto-core-dev whiptail libogg0 libts-0.0-0 libxcb1-dev shared-mime-info libxdmcp6 libxfixes3 po-debconf libdirectfb-1.2-0 openjdk-6-jre-headless libxft-dev liblcms1 libxfont1 ed libpython2.6 libbz2-dev libpng12-0 xfonts-base man-db x11proto-kb-dev texinfo libpixman-1-0 libpoppler5 libreadline-dev libpango1.0-0 libpthread-stubs0-dev ucf libgtk2.0-common gettext-base libtiff4-dev libaccess-bridge-java libsm6 gfortran-4.4 libxcb-render0 java-common (Reading database ... 30182 files and directories currently installed.) Removing openjdk-6-jdk ... Purging configuration files for openjdk-6-jdk ... Removing tk8.5-dev ... Removing libpcre3-dev ... Removing xvfb ... Removing texlive-latex-extra ... Running 'mktexlsr /usr/share/texmf /var/lib/texmf /usr/share/texmf-texlive'. This may take some time... done. Purging configuration files for texlive-latex-extra ... Removing libpcrecpp0 ... Purging configuration files for libpcrecpp0 ... Removing texlive-fonts-recommended ... Running 'mktexlsr /usr/share/texmf /var/lib/texmf /usr/share/texmf-texlive'. This may take some time... done. Purging configuration files for texlive-fonts-recommended ... Removing tk8.5 ... Purging configuration files for tk8.5 ... Removing libhal1 ... Purging configuration files for libhal1 ... Removing bison ... Removing xserver-common ... Removing xauth ... Removing texlive-extra-utils ... Running 'mktexlsr /usr/share/texmf /var/lib/texmf /usr/share/texmf-texlive'. This may take some time... done. 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Removing libavahi-common-data ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place ****************************************************************************** Finished at 20091017-0602 Build needed 00:12:07, 261224k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', '1295764-2708701'] Scanning for processes to kill in build /home/buildd/build-1295764-2708701/chroot-autobuild... Scanning for processes to kill in build /home/buildd/build-1295764-2708701/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', '1295764-2708701'] Unmounting chroot for build 1295764-2708701... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', '1295764-2708701'] Removing build 1295764-2708701