RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: 2.6.24-31-xen #1 SMP Fri Apr 27 22:22:26 UTC 2012 x86_64 Buildd toolchain package versions: launchpad-buildd_113~0.IS.08.04 python-lpbuildd_113~0.IS.08.04 bzr-builder_0.7.2+bzr156-0ubuntu1~1.IS.8.04 bzr_2.4.0-0ubuntu2~11.IS.8.04. Syncing the system clock with the buildd NTP service... 8 Jun 01:18:24 ntpdate[3414]: step time server 10.211.37.1 offset -91767.295639 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', '6c7a5dd42c6da821a2330256af7358befeb1acfa', '/home/buildd/filecache-default/c021ff3d3373fb2201b3008c0ece6808393ff246'] Uncompressing the tarball... Unpacking chroot for build 6c7a5dd42c6da821a2330256af7358befeb1acfa RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', '6c7a5dd42c6da821a2330256af7358befeb1acfa'] Mounting chroot for build 6c7a5dd42c6da821a2330256af7358befeb1acfa RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', '6c7a5dd42c6da821a2330256af7358befeb1acfa', 'deb http://ppa.launchpad.net/nebc/bio-linux/ubuntu precise main', 'deb http://ftpmaster.internal/ubuntu precise main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu precise-security main restricted universe multiverse', 'deb http://ftpmaster.internal/ubuntu precise-updates main restricted universe multiverse'] Overriding sources.list in build-6c7a5dd42c6da821a2330256af7358befeb1acfa RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', '6c7a5dd42c6da821a2330256af7358befeb1acfa', 'amd64'] Updating debian chroot for build 6c7a5dd42c6da821a2330256af7358befeb1acfa Ign http://ftpmaster.internal precise InRelease Ign http://ftpmaster.internal precise-security InRelease Ign http://ftpmaster.internal precise-updates InRelease Get:1 http://ftpmaster.internal precise Release.gpg [198 B] Get:2 http://ftpmaster.internal precise-security Release.gpg [198 B] Get:3 http://ftpmaster.internal precise-updates Release.gpg [198 B] Get:4 http://ftpmaster.internal precise Release [49.6 kB] Get:5 http://ftpmaster.internal precise-security Release [49.6 kB] Get:6 http://ftpmaster.internal precise-updates Release [49.6 kB] Get:7 http://ftpmaster.internal precise/main amd64 Packages [1273 kB] Ign http://ppa.launchpad.net precise InRelease Get:8 http://ppa.launchpad.net precise Release.gpg [316 B] Get:9 http://ppa.launchpad.net precise Release [11.9 kB] Get:10 http://ftpmaster.internal precise/restricted amd64 Packages [8452 B] Get:11 http://ftpmaster.internal precise/universe amd64 Packages [4786 kB] Ign http://ppa.launchpad.net precise Release Get:12 http://ppa.launchpad.net precise/main amd64 Packages [889 B] Ign http://ppa.launchpad.net precise/main TranslationIndex Ign http://ppa.launchpad.net precise/main Translation-en Get:13 http://ftpmaster.internal precise/multiverse amd64 Packages [119 kB] Get:14 http://ftpmaster.internal precise/main TranslationIndex [3706 B] Get:15 http://ftpmaster.internal precise/multiverse TranslationIndex [2676 B] Get:16 http://ftpmaster.internal precise/restricted TranslationIndex [2596 B] Get:17 http://ftpmaster.internal precise/universe TranslationIndex [2922 B] Get:18 http://ftpmaster.internal precise-security/main amd64 Packages [49.6 kB] Get:19 http://ftpmaster.internal precise-security/restricted amd64 Packages [14 B] Get:20 http://ftpmaster.internal precise-security/universe amd64 Packages [11.6 kB] Get:21 http://ftpmaster.internal precise-security/multiverse amd64 Packages [1142 B] Get:22 http://ftpmaster.internal precise-security/main TranslationIndex [73 B] Get:23 http://ftpmaster.internal precise-security/multiverse TranslationIndex [71 B] Get:24 http://ftpmaster.internal precise-security/restricted TranslationIndex [70 B] Get:25 http://ftpmaster.internal precise-security/universe TranslationIndex [72 B] Get:26 http://ftpmaster.internal precise-updates/main amd64 Packages [237 kB] Get:27 http://ftpmaster.internal precise-updates/restricted amd64 Packages [2417 B] Get:28 http://ftpmaster.internal precise-updates/universe amd64 Packages [60.7 kB] Get:29 http://ftpmaster.internal precise-updates/multiverse amd64 Packages [1823 B] Get:30 http://ftpmaster.internal precise-updates/main TranslationIndex [74 B] Get:31 http://ftpmaster.internal precise-updates/multiverse TranslationIndex [71 B] Get:32 http://ftpmaster.internal precise-updates/restricted TranslationIndex [71 B] Get:33 http://ftpmaster.internal precise-updates/universe TranslationIndex [73 B] Get:34 http://ftpmaster.internal precise/main Translation-en [726 kB] Get:35 http://ftpmaster.internal precise/multiverse Translation-en [93.4 kB] Get:36 http://ftpmaster.internal precise/restricted Translation-en [2395 B] Get:37 http://ftpmaster.internal precise/universe Translation-en [3341 kB] Get:38 http://ftpmaster.internal precise-security/main Translation-en [25.3 kB] Get:39 http://ftpmaster.internal precise-security/multiverse Translation-en [587 B] Get:40 http://ftpmaster.internal precise-security/restricted Translation-en [14 B] Get:41 http://ftpmaster.internal precise-security/universe Translation-en [8506 B] Get:42 http://ftpmaster.internal precise-updates/main Translation-en [111 kB] Get:43 http://ftpmaster.internal precise-updates/multiverse Translation-en [912 B] Get:44 http://ftpmaster.internal precise-updates/restricted Translation-en [798 B] Get:45 http://ftpmaster.internal precise-updates/universe Translation-en [36.6 kB] Fetched 11.1 MB in 5s (2101 kB/s) Reading package lists... W: GPG error: http://ppa.launchpad.net precise Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 759A8E0E5BA15160 Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: libgcrypt11 libgssapi-krb5-2 libk5crypto3 libkrb5-3 libkrb5support0 libsasl2-2 libssl1.0.0 libtasn1-3 linux-libc-dev openssl upstart 11 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 3645 kB of archives. After this operation, 5120 B of additional disk space will be used. WARNING: The following packages cannot be authenticated! libssl1.0.0 libgcrypt11 libk5crypto3 libgssapi-krb5-2 libkrb5-3 libkrb5support0 libsasl2-2 libtasn1-3 upstart linux-libc-dev openssl Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ precise-security/main libssl1.0.0 amd64 1.0.1-4ubuntu5.2 [1011 kB] Get:2 http://ftpmaster.internal/ubuntu/ precise-updates/main libgcrypt11 amd64 1.5.0-3ubuntu0.1 [280 kB] Get:3 http://ftpmaster.internal/ubuntu/ precise-updates/main libk5crypto3 amd64 1.10+dfsg~beta1-2ubuntu0.1 [79.9 kB] Get:4 http://ftpmaster.internal/ubuntu/ precise-updates/main libgssapi-krb5-2 amd64 1.10+dfsg~beta1-2ubuntu0.1 [118 kB] Get:5 http://ftpmaster.internal/ubuntu/ precise-updates/main libkrb5-3 amd64 1.10+dfsg~beta1-2ubuntu0.1 [354 kB] Get:6 http://ftpmaster.internal/ubuntu/ precise-updates/main libkrb5support0 amd64 1.10+dfsg~beta1-2ubuntu0.1 [23.4 kB] Get:7 http://ftpmaster.internal/ubuntu/ precise-updates/main libsasl2-2 amd64 2.1.25.dfsg1-3ubuntu0.1 [69.1 kB] Get:8 http://ftpmaster.internal/ubuntu/ precise-security/main libtasn1-3 amd64 2.10-1ubuntu1.1 [43.3 kB] Get:9 http://ftpmaster.internal/ubuntu/ precise-updates/main upstart amd64 1.5-0ubuntu7 [311 kB] Get:10 http://ftpmaster.internal/ubuntu/ precise-updates/main linux-libc-dev amd64 3.2.0-24.39 [831 kB] Get:11 http://ftpmaster.internal/ubuntu/ precise-security/main openssl amd64 1.0.1-4ubuntu5.2 [523 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 3645 kB in 0s (26.3 MB/s) (Reading database ... 12243 files and directories currently installed.) Preparing to replace libssl1.0.0 1.0.1-4ubuntu3 (using .../libssl1.0.0_1.0.1-4ubuntu5.2_amd64.deb) ... Unpacking replacement libssl1.0.0 ... Setting up libssl1.0.0 (1.0.1-4ubuntu5.2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place (Reading database ... 12243 files and directories currently installed.) Preparing to replace libgcrypt11 1.5.0-3 (using .../libgcrypt11_1.5.0-3ubuntu0.1_amd64.deb) ... Unpacking replacement libgcrypt11 ... Preparing to replace libk5crypto3 1.10+dfsg~beta1-2 (using .../libk5crypto3_1.10+dfsg~beta1-2ubuntu0.1_amd64.deb) ... Unpacking replacement libk5crypto3 ... Preparing to replace libgssapi-krb5-2 1.10+dfsg~beta1-2 (using .../libgssapi-krb5-2_1.10+dfsg~beta1-2ubuntu0.1_amd64.deb) ... Unpacking replacement libgssapi-krb5-2 ... Preparing to replace libkrb5-3 1.10+dfsg~beta1-2 (using .../libkrb5-3_1.10+dfsg~beta1-2ubuntu0.1_amd64.deb) ... Unpacking replacement libkrb5-3 ... Preparing to replace libkrb5support0 1.10+dfsg~beta1-2 (using .../libkrb5support0_1.10+dfsg~beta1-2ubuntu0.1_amd64.deb) ... Unpacking replacement libkrb5support0 ... Preparing to replace libsasl2-2 2.1.25.dfsg1-3 (using .../libsasl2-2_2.1.25.dfsg1-3ubuntu0.1_amd64.deb) ... Unpacking replacement libsasl2-2 ... Preparing to replace libtasn1-3 2.10-1ubuntu1 (using .../libtasn1-3_2.10-1ubuntu1.1_amd64.deb) ... Unpacking replacement libtasn1-3 ... Preparing to replace upstart 1.5-0ubuntu5 (using .../upstart_1.5-0ubuntu7_amd64.deb) ... Unpacking replacement upstart ... Preparing to replace linux-libc-dev 3.2.0-23.36 (using .../linux-libc-dev_3.2.0-24.39_amd64.deb) ... Unpacking replacement linux-libc-dev ... Preparing to replace openssl 1.0.1-4ubuntu3 (using .../openssl_1.0.1-4ubuntu5.2_amd64.deb) ... Unpacking replacement openssl ... Setting up libgcrypt11 (1.5.0-3ubuntu0.1) ... Setting up libkrb5support0 (1.10+dfsg~beta1-2ubuntu0.1) ... Setting up libk5crypto3 (1.10+dfsg~beta1-2ubuntu0.1) ... Setting up libkrb5-3 (1.10+dfsg~beta1-2ubuntu0.1) ... Setting up libgssapi-krb5-2 (1.10+dfsg~beta1-2ubuntu0.1) ... Setting up libsasl2-2 (2.1.25.dfsg1-3ubuntu0.1) ... Setting up libtasn1-3 (2.10-1ubuntu1.1) ... Setting up upstart (1.5-0ubuntu7) ... Installing new version of config file /etc/logrotate.d/upstart ... Setting up linux-libc-dev (3.2.0-24.39) ... Setting up openssl (1.0.1-4ubuntu5.2) ... Processing triggers for libc-bin ... ldconfig deferred processing now taking place RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', '6c7a5dd42c6da821a2330256af7358befeb1acfa', 'amd64', 'precise', '--nolog', '--batch', '--archive=ubuntu', '--dist=precise', '--purpose=PPA', '--architecture=amd64', '--comp=main', 'arb_5.3-3ubuntu3.dsc'] Initiating build 6c7a5dd42c6da821a2330256af7358befeb1acfa with 2 jobs across 2 processor cores. Automatic build of arb_5.3-3ubuntu3 on americium by sbuild/amd64 1.170.5 Build started at 20120606-2350 ****************************************************************************** arb_5.3-3ubuntu3.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: chrpath, debhelper (>= 8), dpkg-dev (>= 1.15.4), freeglut3-dev | libglu-dev, bioperl, libglew1.5-dev, libglw1-mesa-dev, libmotif-dev (>= 2.3.3), libpng12-dev, libtiff4-dev, libxaw7-dev, libxml2-utils, libxpm-dev, lynx, time, xsltproc, xutils-dev Checking for already installed source dependencies... chrpath: missing debhelper: missing dpkg-dev: already installed (1.16.1.2ubuntu7 >= 1.15.4 is satisfied) freeglut3-dev: missing libglu-dev: missing bioperl: missing libglew1.5-dev: missing libglw1-mesa-dev: missing libmotif-dev: missing libpng12-dev: missing libtiff4-dev: missing libxaw7-dev: missing libxml2-utils: missing libxpm-dev: missing lynx: missing time: missing xsltproc: missing xutils-dev: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install chrpath debhelper freeglut3-dev bioperl libglew1.5-dev libglw1-mesa-dev libmotif-dev libpng12-dev libtiff4-dev libxaw7-dev libxml2-utils libxpm-dev lynx time xsltproc xutils-dev Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils dh-apparmor file fontconfig-config freeglut3 gettext gettext-base groff-base html2text intltool-debian libbio-perl-perl libbsd0 libcroco3 libdata-stag-perl libdrm-dev libexpat1 libfontconfig1 libfreetype6 libgettextpo0 libgl1-mesa-dev libgl1-mesa-glx libglapi-mesa libglew1.5 libglu1-mesa libglu1-mesa-dev libglw1-mesa libice-dev libice6 libio-string-perl libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libkms1 libmagic1 libmotif4 libpipeline1 libpthread-stubs0 libpthread-stubs0-dev libsm-dev libsm6 libtiff4 libtiffxx0c2 libunistring0 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-glx0 libxcb1 libxcb1-dev libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxft2 libxml2 libxmu-dev libxmu-headers libxmu6 libxp6 libxpm4 libxrender1 libxslt1.1 libxt-dev libxt6 libxxf86vm1 lynx-cur man-db mesa-common-dev po-debconf ttf-dejavu-core ucf x11-common x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-print-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff curl wget libmath-random-perl libxml-sax-expatxs-perl glew-utils1.5 libxcb-doc less www-browser libmail-box-perl Recommended packages: bioperl-run perl-doc libhttp-message-perl libwww-perl libcache-cache-perl libbio-perl-run-perl libdbi-perl libgd-gd2-perl libapache-dbi-perl liburi-perl libxml-simple-perl libyaml-perl libace-perl liblist-moreutils-perl libxml-twig-perl libset-scalar-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libpostscript-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-perl libxml-sax-writer-perl libxml-writer-perl libxml-libxml-perl perl-tk libxml-libxslt-perl libmldbm-perl libgl1-mesa-dri libx11-doc xml-core mime-support libmail-sendmail-perl The following NEW packages will be installed: bioperl bsdmainutils chrpath debhelper dh-apparmor file fontconfig-config freeglut3 freeglut3-dev gettext gettext-base groff-base html2text intltool-debian libbio-perl-perl libbsd0 libcroco3 libdata-stag-perl libdrm-dev libexpat1 libfontconfig1 libfreetype6 libgettextpo0 libgl1-mesa-dev libgl1-mesa-glx libglapi-mesa libglew1.5 libglew1.5-dev libglu1-mesa libglu1-mesa-dev libglw1-mesa libglw1-mesa-dev libice-dev libice6 libio-string-perl libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libkms1 libmagic1 libmotif-dev libmotif4 libpipeline1 libpng12-dev libpthread-stubs0 libpthread-stubs0-dev libsm-dev libsm6 libtiff4 libtiff4-dev libtiffxx0c2 libunistring0 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxaw7-dev libxcb-glx0 libxcb1 libxcb1-dev libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxft2 libxml2 libxml2-utils libxmu-dev libxmu-headers libxmu6 libxp6 libxpm-dev libxpm4 libxrender1 libxslt1.1 libxt-dev libxt6 libxxf86vm1 lynx lynx-cur man-db mesa-common-dev po-debconf time ttf-dejavu-core ucf x11-common x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-print-dev x11proto-xext-dev xorg-sgml-doctools xsltproc xtrans-dev xutils-dev zlib1g-dev 0 upgraded, 104 newly installed, 0 to remove and 0 not upgraded. Need to get 29.4 MB of archives. After this operation, 92.2 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! libexpat1 libbsd0 libpipeline1 libxau6 libxdmcp6 libxcb1 libx11-data libx11-6 libxext6 libxml2 libcroco3 libfreetype6 ucf ttf-dejavu-core fontconfig-config libfontconfig1 libunistring0 libgettextpo0 libglapi-mesa libx11-xcb1 libxcb-glx0 libxdamage1 libxfixes3 libxxf86vm1 libgl1-mesa-glx x11-common libice6 libjpeg-turbo8 libkms1 libsm6 libjpeg8 libtiff4 libtiffxx0c2 libxt6 libxmu6 libxpm4 libxaw7 libxrender1 libxft2 libxp6 libxslt1.1 libglu1-mesa libmotif4 libmagic1 file bsdmainutils gettext-base groff-base man-db time libio-string-perl libdata-stag-perl libbio-perl-perl bioperl chrpath html2text gettext intltool-debian po-debconf dh-apparmor debhelper freeglut3 xorg-sgml-doctools x11proto-core-dev libxau-dev libxdmcp-dev x11proto-input-dev x11proto-kb-dev xtrans-dev libpthread-stubs0 libpthread-stubs0-dev libxcb1-dev libx11-dev libdrm-dev mesa-common-dev x11proto-xext-dev libxext-dev libgl1-mesa-dev libglu1-mesa-dev libice-dev libsm-dev libxt-dev freeglut3-dev libglew1.5 libglew1.5-dev libglw1-mesa libglw1-mesa-dev libjpeg-turbo8-dev libjpeg8-dev libjpeg-dev zlib1g-dev libpng12-dev libtiff4-dev libxmu-headers libxmu-dev libxpm-dev libxaw7-dev libxml2-utils x11proto-print-dev xsltproc xutils-dev libmotif-dev lynx-cur lynx Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu/ precise/main libexpat1 amd64 2.0.1-7.2ubuntu1 [131 kB] Get:2 http://ftpmaster.internal/ubuntu/ precise/main libbsd0 amd64 0.3.0-2 [31.6 kB] Get:3 http://ftpmaster.internal/ubuntu/ precise/main libpipeline1 amd64 1.2.1-1 [26.5 kB] Get:4 http://ftpmaster.internal/ubuntu/ precise/main libxau6 amd64 1:1.0.6-4 [8392 B] Get:5 http://ftpmaster.internal/ubuntu/ precise/main libxdmcp6 amd64 1:1.1.0-4 [12.7 kB] Get:6 http://ftpmaster.internal/ubuntu/ precise/main libxcb1 amd64 1.8.1-1 [44.7 kB] Get:7 http://ftpmaster.internal/ubuntu/ precise/main libx11-data all 2:1.4.99.1-0ubuntu2 [168 kB] Get:8 http://ftpmaster.internal/ubuntu/ precise/main libx11-6 amd64 2:1.4.99.1-0ubuntu2 [762 kB] Get:9 http://ftpmaster.internal/ubuntu/ precise/main libxext6 amd64 2:1.3.0-3build1 [33.2 kB] Get:10 http://ftpmaster.internal/ubuntu/ precise-security/main libxml2 amd64 2.7.8.dfsg-5.1ubuntu4.1 [673 kB] Get:11 http://ftpmaster.internal/ubuntu/ precise/main libcroco3 amd64 0.6.5-1 [99.3 kB] Get:12 http://ftpmaster.internal/ubuntu/ precise/main libfreetype6 amd64 2.4.8-1ubuntu2 [343 kB] Get:13 http://ftpmaster.internal/ubuntu/ precise/main ucf all 3.0025+nmu2ubuntu1 [54.4 kB] Get:14 http://ftpmaster.internal/ubuntu/ precise/main ttf-dejavu-core all 2.33-2ubuntu1 [1552 kB] Get:15 http://ftpmaster.internal/ubuntu/ precise/main fontconfig-config all 2.8.0-3ubuntu9 [44.4 kB] Get:16 http://ftpmaster.internal/ubuntu/ precise/main libfontconfig1 amd64 2.8.0-3ubuntu9 [124 kB] Get:17 http://ftpmaster.internal/ubuntu/ precise/main libunistring0 amd64 0.9.3-5 [427 kB] Get:18 http://ftpmaster.internal/ubuntu/ precise/main libgettextpo0 amd64 0.18.1.1-5ubuntu3 [120 kB] Get:19 http://ftpmaster.internal/ubuntu/ precise-updates/main libglapi-mesa amd64 8.0.2-0ubuntu3.1 [20.9 kB] Get:20 http://ftpmaster.internal/ubuntu/ precise/main libx11-xcb1 amd64 2:1.4.99.1-0ubuntu2 [10.3 kB] Get:21 http://ftpmaster.internal/ubuntu/ precise/main libxcb-glx0 amd64 1.8.1-1 [26.4 kB] Get:22 http://ftpmaster.internal/ubuntu/ precise/main libxdamage1 amd64 1:1.1.3-2build1 [7560 B] Get:23 http://ftpmaster.internal/ubuntu/ precise/main libxfixes3 amd64 1:5.0-4ubuntu4 [12.6 kB] Get:24 http://ftpmaster.internal/ubuntu/ precise/main libxxf86vm1 amd64 1:1.1.1-2build1 [11.6 kB] Get:25 http://ftpmaster.internal/ubuntu/ precise-updates/main libgl1-mesa-glx amd64 8.0.2-0ubuntu3.1 [105 kB] Get:26 http://ftpmaster.internal/ubuntu/ precise/main x11-common all 1:7.6+12ubuntu1 [57.7 kB] Get:27 http://ftpmaster.internal/ubuntu/ precise/main libice6 amd64 2:1.0.7-2build1 [46.1 kB] Get:28 http://ftpmaster.internal/ubuntu/ precise/main libjpeg-turbo8 amd64 1.1.90+svn733-0ubuntu4 [110 kB] Get:29 http://ftpmaster.internal/ubuntu/ precise/main libkms1 amd64 2.4.32-1ubuntu1 [9098 B] Get:30 http://ftpmaster.internal/ubuntu/ precise/main libsm6 amd64 2:1.2.0-2build1 [18.1 kB] Get:31 http://ftpmaster.internal/ubuntu/ precise/main libjpeg8 amd64 8c-2ubuntu7 [2112 B] Get:32 http://ftpmaster.internal/ubuntu/ precise/main libtiff4 amd64 3.9.5-2ubuntu1 [144 kB] Get:33 http://ftpmaster.internal/ubuntu/ precise/main libtiffxx0c2 amd64 3.9.5-2ubuntu1 [6526 B] Get:34 http://ftpmaster.internal/ubuntu/ precise/main libxt6 amd64 1:1.1.1-2build1 [186 kB] Get:35 http://ftpmaster.internal/ubuntu/ precise/main libxmu6 amd64 2:1.1.0-3 [52.7 kB] Get:36 http://ftpmaster.internal/ubuntu/ precise/main libxpm4 amd64 1:3.5.9-4 [37.0 kB] Get:37 http://ftpmaster.internal/ubuntu/ precise/main libxaw7 amd64 2:1.0.9-3ubuntu1 [201 kB] Get:38 http://ftpmaster.internal/ubuntu/ precise/main libxrender1 amd64 1:0.9.6-2build1 [20.2 kB] Get:39 http://ftpmaster.internal/ubuntu/ precise/main libxft2 amd64 2.2.0-3ubuntu2 [42.3 kB] Get:40 http://ftpmaster.internal/ubuntu/ precise/main libxp6 amd64 1:1.0.1-2 [18.4 kB] Get:41 http://ftpmaster.internal/ubuntu/ precise/main libxslt1.1 amd64 1.1.26-8ubuntu1 [166 kB] Get:42 http://ftpmaster.internal/ubuntu/ precise-updates/main libglu1-mesa amd64 8.0.2-0ubuntu3.1 [161 kB] Get:43 http://ftpmaster.internal/ubuntu/ precise/multiverse libmotif4 amd64 2.3.3-5ubuntu1 [1417 kB] Get:44 http://ftpmaster.internal/ubuntu/ precise/main libmagic1 amd64 5.09-2 [217 kB] Get:45 http://ftpmaster.internal/ubuntu/ precise/main file amd64 5.09-2 [19.7 kB] Get:46 http://ftpmaster.internal/ubuntu/ precise/main bsdmainutils amd64 8.2.3ubuntu1 [200 kB] Get:47 http://ftpmaster.internal/ubuntu/ precise/main gettext-base amd64 0.18.1.1-5ubuntu3 [80.0 kB] Get:48 http://ftpmaster.internal/ubuntu/ precise/main groff-base amd64 1.21-7 [1046 kB] Get:49 http://ftpmaster.internal/ubuntu/ precise/main man-db amd64 2.6.1-2 [756 kB] Get:50 http://ftpmaster.internal/ubuntu/ precise/main time amd64 1.7-23.1 [30.6 kB] Get:51 http://ftpmaster.internal/ubuntu/ precise/main libio-string-perl all 1.08-2 [12.0 kB] Get:52 http://ftpmaster.internal/ubuntu/ precise/universe libdata-stag-perl all 0.11-2 [505 kB] Get:53 http://ftpmaster.internal/ubuntu/ precise/universe libbio-perl-perl all 1.6.901-2 [6098 kB] Get:54 http://ftpmaster.internal/ubuntu/ precise/universe bioperl all 1.6.901-2 [439 kB] Get:55 http://ftpmaster.internal/ubuntu/ precise/main chrpath amd64 0.13-2build2 [14.4 kB] Get:56 http://ftpmaster.internal/ubuntu/ precise/main html2text amd64 1.3.2a-15 [104 kB] Get:57 http://ftpmaster.internal/ubuntu/ precise/main gettext amd64 0.18.1.1-5ubuntu3 [1188 kB] Get:58 http://ftpmaster.internal/ubuntu/ precise/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:59 http://ftpmaster.internal/ubuntu/ precise/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:60 http://ftpmaster.internal/ubuntu/ precise/main dh-apparmor all 2.7.102-0ubuntu3 [9622 B] Get:61 http://ftpmaster.internal/ubuntu/ precise/main debhelper all 9.20120115ubuntu3 [616 kB] Get:62 http://ftpmaster.internal/ubuntu/ precise/main freeglut3 amd64 2.6.0-1ubuntu2 [91.5 kB] Get:63 http://ftpmaster.internal/ubuntu/ precise/main xorg-sgml-doctools all 1:1.10-1 [12.0 kB] Get:64 http://ftpmaster.internal/ubuntu/ precise/main x11proto-core-dev all 7.0.22-1 [299 kB] Get:65 http://ftpmaster.internal/ubuntu/ precise/main libxau-dev amd64 1:1.0.6-4 [10.5 kB] Get:66 http://ftpmaster.internal/ubuntu/ precise/main libxdmcp-dev amd64 1:1.1.0-4 [26.9 kB] Get:67 http://ftpmaster.internal/ubuntu/ precise/main x11proto-input-dev all 2.1.99.6-1 [133 kB] Get:68 http://ftpmaster.internal/ubuntu/ precise/main x11proto-kb-dev all 1.0.5-2 [27.6 kB] Get:69 http://ftpmaster.internal/ubuntu/ precise/main xtrans-dev all 1.2.6-2 [82.9 kB] Get:70 http://ftpmaster.internal/ubuntu/ precise/main libpthread-stubs0 amd64 0.3-3 [3258 B] Get:71 http://ftpmaster.internal/ubuntu/ precise/main libpthread-stubs0-dev amd64 0.3-3 [2866 B] Get:72 http://ftpmaster.internal/ubuntu/ precise/main libxcb1-dev amd64 1.8.1-1 [81.6 kB] Get:73 http://ftpmaster.internal/ubuntu/ precise/main libx11-dev amd64 2:1.4.99.1-0ubuntu2 [908 kB] Get:74 http://ftpmaster.internal/ubuntu/ precise/main libdrm-dev amd64 2.4.32-1ubuntu1 [182 kB] Get:75 http://ftpmaster.internal/ubuntu/ precise-updates/main mesa-common-dev amd64 8.0.2-0ubuntu3.1 [242 kB] Get:76 http://ftpmaster.internal/ubuntu/ precise/main x11proto-xext-dev all 7.2.0-3 [253 kB] Get:77 http://ftpmaster.internal/ubuntu/ precise/main libxext-dev amd64 2:1.3.0-3build1 [159 kB] Get:78 http://ftpmaster.internal/ubuntu/ precise-updates/main libgl1-mesa-dev amd64 8.0.2-0ubuntu3.1 [4990 B] Get:79 http://ftpmaster.internal/ubuntu/ precise-updates/main libglu1-mesa-dev amd64 8.0.2-0ubuntu3.1 [196 kB] Get:80 http://ftpmaster.internal/ubuntu/ precise/main libice-dev amd64 2:1.0.7-2build1 [133 kB] Get:81 http://ftpmaster.internal/ubuntu/ precise/main libsm-dev amd64 2:1.2.0-2build1 [89.5 kB] Get:82 http://ftpmaster.internal/ubuntu/ precise/main libxt-dev amd64 1:1.1.1-2build1 [490 kB] Get:83 http://ftpmaster.internal/ubuntu/ precise/main freeglut3-dev amd64 2.6.0-1ubuntu2 [164 kB] Get:84 http://ftpmaster.internal/ubuntu/ precise/main libglew1.5 amd64 1.5.7.is.1.5.2-1ubuntu4 [94.0 kB] Get:85 http://ftpmaster.internal/ubuntu/ precise/main libglew1.5-dev amd64 1.5.7.is.1.5.2-1ubuntu4 [201 kB] Get:86 http://ftpmaster.internal/ubuntu/ precise/universe libglw1-mesa amd64 7.4-0ubuntu2 [30.4 kB] Get:87 http://ftpmaster.internal/ubuntu/ precise/universe libglw1-mesa-dev amd64 7.4-0ubuntu2 [30.7 kB] Get:88 http://ftpmaster.internal/ubuntu/ precise/main libjpeg-turbo8-dev amd64 1.1.90+svn733-0ubuntu4 [391 kB] Get:89 http://ftpmaster.internal/ubuntu/ precise/main libjpeg8-dev amd64 8c-2ubuntu7 [1544 B] Get:90 http://ftpmaster.internal/ubuntu/ precise/main libjpeg-dev all 8c-2ubuntu7 [1536 B] Get:91 http://ftpmaster.internal/ubuntu/ precise/main zlib1g-dev amd64 1:1.2.3.4.dfsg-3ubuntu4 [165 kB] Get:92 http://ftpmaster.internal/ubuntu/ precise/main libpng12-dev amd64 1.2.46-3ubuntu4 [207 kB] Get:93 http://ftpmaster.internal/ubuntu/ precise/main libtiff4-dev amd64 3.9.5-2ubuntu1 [279 kB] Get:94 http://ftpmaster.internal/ubuntu/ precise/main libxmu-headers all 2:1.1.0-3 [56.4 kB] Get:95 http://ftpmaster.internal/ubuntu/ precise/main libxmu-dev amd64 2:1.1.0-3 [62.7 kB] Get:96 http://ftpmaster.internal/ubuntu/ precise/main libxpm-dev amd64 1:3.5.9-4 [96.6 kB] Get:97 http://ftpmaster.internal/ubuntu/ precise/main libxaw7-dev amd64 2:1.0.9-3ubuntu1 [461 kB] Get:98 http://ftpmaster.internal/ubuntu/ precise-security/main libxml2-utils amd64 2.7.8.dfsg-5.1ubuntu4.1 [39.9 kB] Get:99 http://ftpmaster.internal/ubuntu/ precise/main x11proto-print-dev all 1.0.5-2 [10.7 kB] Get:100 http://ftpmaster.internal/ubuntu/ precise/main xsltproc amd64 1.1.26-8ubuntu1 [15.1 kB] Get:101 http://ftpmaster.internal/ubuntu/ precise/main xutils-dev amd64 1:7.7~1 [348 kB] Get:102 http://ftpmaster.internal/ubuntu/ precise/multiverse libmotif-dev amd64 2.3.3-5ubuntu1 [3166 kB] Get:103 http://ftpmaster.internal/ubuntu/ precise/main lynx-cur amd64 2.8.8dev.9-2 [1060 kB] Get:104 http://ftpmaster.internal/ubuntu/ precise/main lynx all 2.8.8dev.9-2 [3918 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 29.4 MB in 1s (18.3 MB/s) Selecting previously unselected package libexpat1. (Reading database ... 12243 files and directories currently installed.) Unpacking libexpat1 (from .../libexpat1_2.0.1-7.2ubuntu1_amd64.deb) ... Selecting previously unselected package libbsd0. Unpacking libbsd0 (from .../libbsd0_0.3.0-2_amd64.deb) ... Selecting previously unselected package libpipeline1. Unpacking libpipeline1 (from .../libpipeline1_1.2.1-1_amd64.deb) ... Selecting previously unselected package libxau6. Unpacking libxau6 (from .../libxau6_1%3a1.0.6-4_amd64.deb) ... Selecting previously unselected package libxdmcp6. Unpacking libxdmcp6 (from .../libxdmcp6_1%3a1.1.0-4_amd64.deb) ... Selecting previously unselected package libxcb1. Unpacking libxcb1 (from .../libxcb1_1.8.1-1_amd64.deb) ... Selecting previously unselected package libx11-data. Unpacking libx11-data (from .../libx11-data_2%3a1.4.99.1-0ubuntu2_all.deb) ... Selecting previously unselected package libx11-6. Unpacking libx11-6 (from .../libx11-6_2%3a1.4.99.1-0ubuntu2_amd64.deb) ... 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Setting up gettext-base (0.18.1.1-5ubuntu3) ... Setting up groff-base (1.21-7) ... Setting up man-db (2.6.1-2) ... Building database of manual pages ... Setting up time (1.7-23.1) ... 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 time should be updated. Setting up libio-string-perl (1.08-2) ... Setting up libdata-stag-perl (0.11-2) ... Setting up libbio-perl-perl (1.6.901-2) ... Setting up bioperl (1.6.901-2) ... Setting up chrpath (0.13-2build2) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5ubuntu3) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-apparmor (2.7.102-0ubuntu3) ... Setting up debhelper (9.20120115ubuntu3) ... Setting up freeglut3 (2.6.0-1ubuntu2) ... Setting up xorg-sgml-doctools (1:1.10-1) ... 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Processing triggers for libc-bin ... ldconfig deferred processing now taking place Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.15-0ubuntu10 make_3.81-8.1ubuntu1 dpkg-dev_1.16.1.2ubuntu7 gcc-4.6_4.6.3-1ubuntu5 g++-4.6_4.6.3-1ubuntu5 binutils_2.22-6ubuntu1 libstdc++6-4.6-dev_4.6.3-1ubuntu5 libstdc++6_4.6.3-1ubuntu5 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt gpgv: Signature made Fri Mar 2 11:33:35 2012 UTC using DSA key ID 113960C5 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./arb_5.3-3ubuntu3.dsc dpkg-source: info: extracting arb in arb-5.3 dpkg-source: info: unpacking arb_5.3.orig.tar.gz dpkg-source: info: unpacking arb_5.3-3ubuntu3.debian.tar.gz dpkg-source: info: applying 30_phyml dpkg-source: info: applying 20_config.makefiles dpkg-source: info: applying 30_Makefile_main dpkg-source: info: applying 20_Makefiles dpkg-source: info: applying 20_tmpfile_issue.patch dpkg-source: info: applying tmpfile_CVE-2008-5378.patch dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor): -D_FORTIFY_SOURCE=2 dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2 dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor): -Wl,-Bsymbolic-functions -Wl,-z,relro dpkg-buildpackage: source package arb dpkg-buildpackage: source version 5.3-3ubuntu3 dpkg-source --before-build arb-5.3 dpkg-buildpackage: host architecture amd64 /usr/bin/fakeroot debian/rules clean dh clean dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory `/build/buildd/arb-5.3' # Make does only work if config.makefile exists which is only the # case when quilt has installed the patches. So there is neither # a need nor the expection of success if config.makefile is missing [ ! -f config.makefile ] || /usr/bin/make DEBIAN=1 ARBHOME=/build/buildd/arb-5.3 clean make[2]: Entering directory `/build/buildd/arb-5.3' SOURCE_TOOLS/generate_all_links.sh make[3]: Entering directory `/build/buildd/arb-5.3/bin' find . -type l -exec rm {} \; ln -s -f `find ../SH ../PERL_SCRIPTS -perm -100 ! -type d ! -name 'config*' -print` . make[3]: Leaving directory `/build/buildd/arb-5.3/bin' generate_all_links.sh done. touch SOURCE_TOOLS/generate_all_links.stamp /usr/bin/make clean2 make[3]: Entering directory `/build/buildd/arb-5.3' make[4]: Entering directory `/build/buildd/arb-5.3/PROBE' rm -f PT_new_design.o PT_family.o PT_prefixtree.o PT_main.o PT_io.o PT_etc.o PT_secundaer.o PT_buildtree.o PT_match.o PT_findEx.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/PROBE' make[4]: Entering directory `/build/buildd/arb-5.3/AISC' rm -f aisc.o aisc_commands.o aisc_var_ref.o aisc_mix.o aisc make[4]: Leaving directory `/build/buildd/arb-5.3/AISC' make[4]: Entering directory `/build/buildd/arb-5.3/AISC_MKPTPS' rm -f mkptypes.o aisc_mkpt make[4]: Leaving directory `/build/buildd/arb-5.3/AISC_MKPTPS' make[4]: Entering directory `/build/buildd/arb-5.3/ALIV3' rm -f a3.o a3_seq.o a3_ptree1.o a3_ptree2.o a3_helix.o a3_darray.o a3_ali.o a3_matrix.o a3_arbdb.o a3_basen.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/ALIV3' make[4]: Entering directory `/build/buildd/arb-5.3/ARBDB' rm -f adsort.o adlang1.o adstring.o admatch.o arbdb.o ad_core.o admath.o adoptimize.o adsystem.o adindex.o adperl.o adlink.o adsocket.o adcomm.o adhash.o adquery.o ad_save_load.o adcompr.o admalloc.o ad_load.o admap.o adTest.o adtune.o adGene.o adtcp.o adhashtools.o adExperiment.o adtools.o adseqcompr.o adtables.o adRevCompl.o adChangeKey.o adali.o adcolumns.o adtree.o adname.o aditem.o arbdbpp.o ad_config.o *.a *.so make[4]: Leaving directory `/build/buildd/arb-5.3/ARBDB' make[4]: Entering directory `/build/buildd/arb-5.3/ARBDB2' rm -f adsort.o adlang1.o adstring.o admatch.o arbdb.o ad_core.o admath.o adoptimize.o adsystem.o adindex.o adperl.o adlink.o adsocket.o adcomm.o adhash.o adquery.o ad_save_load.o adcompr.o admalloc.o ad_load.o admap.o adTest.o adtune.o adGene.o adtcp.o adhashtools.o adExperiment.o adtools.o adseqcompr.o adtables.o adRevCompl.o adChangeKey.o adali.o adcolumns.o adtree.o adname.o aditem.o ad_config.o *.a *.so make[4]: Leaving directory `/build/buildd/arb-5.3/ARBDB2' make[4]: Entering directory `/build/buildd/arb-5.3/ARBDBPP' rm -f adtsequence.o adt_edit.o adtali.o adextended.o adseq.o adspecies.o admain.o adali.o liste.o *.a *.so make[4]: Leaving directory `/build/buildd/arb-5.3/ARBDBPP' make[4]: Entering directory `/build/buildd/arb-5.3/ARBDBS' rm -f adsort.o adlang1.o adstring.o admatch.o arbdb.o ad_core.o admath.o adoptimize.o adsystem.o adindex.o adperl.o adlink.o adsocket.o adcomm.o adhash.o adquery.o ad_save_load.o adcompr.o admalloc.o ad_load.o admap.o adTest.o adtune.o adGene.o adtcp.o adhashtools.o adExperiment.o adtools.o adseqcompr.o adtables.o adRevCompl.o adChangeKey.o adali.o adcolumns.o adtree.o adname.o aditem.o arbdbpp.o ad_config.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/ARBDBS' make[4]: Entering directory `/build/buildd/arb-5.3/ARB_GDE' rm -f GDE_ParseMenu.o GDE.o GDE_event.o GDE_arbdb_io.o GDE_HGLfile.o GDE_Genbank.o GDE_FileIO.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/ARB_GDE' make[4]: Entering directory `/build/buildd/arb-5.3/AWT' rm -f AWT_input_mask.o AWT_hotkeys.o AWT_www.o AWT_tables.o AWT_irstree.o AWT_asciiprint.o AWT_map_key.o AWT_tree_cmp.o AWT_seq_colors.o AWT_pro_a_nucs.o AWT_csp.o AWT_canvas.o AWT_dtree.o AWT_tree.o AWT_tree_cb.o AWT_nei.o AWT_filter.o AWT_sel_boxes.o AWT_canio.o AWT_nds.o AWT_query_and_functions.o AWT_file_selection.o AWT_preset.o AWT_seq_dna.o AWT_seq_protein.o AWT_seq_simple_pro.o AWT_codon_table.o AWT_iupac.o AWT_config_manager.o AWT_advice.o AWT_db_browser.o AWT_attributes.o AWT_changekey.o AWT_item_sel_list.o AWT_macro.o AWT_translate.o *.a *.so make[4]: Leaving directory `/build/buildd/arb-5.3/AWT' make[4]: Entering directory `/build/buildd/arb-5.3/AWTC' rm -f AWTC_constructSequence.o AWTC_next_neighbours.o AWTC_seq_search.o AWTC_submission.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/AWTC' make[4]: Entering directory `/build/buildd/arb-5.3/AWTI' rm -f AWTI_import.o AWTI_export.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/AWTI' make[4]: Entering directory `/build/buildd/arb-5.3/CONSENSUS_TREE' rm -f CT_part.o CT_hash.o CT_ntree.o CT_rbtree.o CT_dtree.o CT_ctree.o CT_mem.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/CONSENSUS_TREE' make[4]: Entering directory `/build/buildd/arb-5.3/CONVERTALN' rm -f main.o fconv.o mg.o genbank.o macke.o phylip.o paup.o util.o date.o embl.o gcg.o printable.o alma.o routines.o convert.o /build/buildd/arb-5.3/bin/arb_convert_aln make[4]: Leaving directory `/build/buildd/arb-5.3/CONVERTALN' make[4]: Entering directory `/build/buildd/arb-5.3/DBSERVER' rm -f db_server.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/DBSERVER' make[4]: Entering directory `/build/buildd/arb-5.3/DIST' rm -f DI_mldist.o DI_protdist.o DI_compress_matrix.o DI_view_matrix.o DI_save_matr.o DI_main.o DI_matr.o distanalyse.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/DIST' make[4]: Entering directory `/build/buildd/arb-5.3/EDIT' rm -f edit.o edit_naligner.o edit_tools.o ed_conf.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/EDIT' make[4]: Entering directory `/build/buildd/arb-5.3/EDIT4' rm -f ED4_protein_2nd_structure.o ED4_ProteinViewer.o ED4_search.o ED4_cursor.o ED4_dump.o ED4_nds.o ED4_secedit.o ED4_RNA3D.o ED4_main.o ED4_mini_classes.o ED4_edit_string.o ED4_base.o ED4_manager.o ED4_terminal.o ED4_root.o EDB_root_bact.o ED4_window.o ED4_members.o ED4_no_class.o ED4_list.o ED4_text_terminals.o ED4_tools.o ED4_block.o ED4_visualizeSAI.o edit_naligner.o graph_aligner_gui.o ED4_dots.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/EDIT4' make[4]: Entering directory `/build/buildd/arb-5.3/EISPACK' rm -f eispack.o d_sign.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/EISPACK' make[4]: Entering directory `/build/buildd/arb-5.3/GDE' make[5]: Entering directory `/build/buildd/arb-5.3/GDE/CLUSTAL' rm -f clustalv.o amenu.o myers.o sequence.o showpair.o upgma.o util.o trees.o gcgcheck.o /build/buildd/arb-5.3/bin/clustalv make[5]: Leaving directory `/build/buildd/arb-5.3/GDE/CLUSTAL' make[5]: Entering directory `/build/buildd/arb-5.3/GDE/SUPPORT' rm -f /build/buildd/arb-5.3/bin/CAP2 /build/buildd/arb-5.3/bin/Restriction /build/buildd/arb-5.3/bin/Zuk_to_gen /build/buildd/arb-5.3/bin/count /build/buildd/arb-5.3/bin/findall /build/buildd/arb-5.3/bin/lsadt /build/buildd/arb-5.3/bin/sho_helix /build/buildd/arb-5.3/bin/varpos make[5]: Leaving directory `/build/buildd/arb-5.3/GDE/SUPPORT' make[5]: Entering directory `/build/buildd/arb-5.3/GDE/AxML' rm -f axml.o /build/buildd/arb-5.3/bin/axml make[5]: Leaving directory `/build/buildd/arb-5.3/GDE/AxML' make[5]: Entering directory `/build/buildd/arb-5.3/GDE/RAxML' rm -f axml.o raxmlParsimony.o rev_functions.o optimizeModel.o multiple.o searchAlgo.o topologies.o parsePartitions.o treeIO.o models.o bipartitionList.o rapidBootstrap.o evaluatePartialGeneric.o evaluateGeneric.o newviewGeneric.o makenewzGeneric.o evaluateGenericVector.o categorizeGeneric.o /build/buildd/arb-5.3/bin/raxmlHPC make[5]: Leaving directory `/build/buildd/arb-5.3/GDE/RAxML' make[5]: Entering directory `/build/buildd/arb-5.3/GDE/PHYML' rm -f main.o utilities.o optimiz.o lk.o bionj.o models.o free.o options.o simu.o eigen.o /build/buildd/arb-5.3/bin/phyml make[5]: Leaving directory `/build/buildd/arb-5.3/GDE/PHYML' make[4]: Leaving directory `/build/buildd/arb-5.3/GDE' make[4]: Entering directory `/build/buildd/arb-5.3/GENOM' rm -f GEN_interface.o GEN_map.o GEN_graphic.o GEN_gene.o GEN_nds.o GEN_color_groups.o GEN_translations.o EXP_interface.o EXP_main.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/GENOM' make[4]: Entering directory `/build/buildd/arb-5.3/GENOM_IMPORT' rm -f *.o rm -f *.a rm -f *.bak rm -f *~ rm -f *# rm -f *\% make[4]: Leaving directory `/build/buildd/arb-5.3/GENOM_IMPORT' make[4]: Entering directory `/build/buildd/arb-5.3/GL' make[5]: Entering directory `/build/buildd/arb-5.3/GL/glpng' rm -f glpng.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/GL/glpng' make[5]: Entering directory `/build/buildd/arb-5.3/GL/glAW' rm -f GLwMDrawA.o AW_window_ogl.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/GL/glAW' make[4]: Leaving directory `/build/buildd/arb-5.3/GL' make[4]: Entering directory `/build/buildd/arb-5.3/ISLAND_HOPPING' rm -f island_hopping.o i-hopper.o align.o memory.o trnsprob.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/ISLAND_HOPPING' make[4]: Entering directory `/build/buildd/arb-5.3/MERGE' rm -f MG_checkfield.o MG_main.o MG_trees.o MG_alignment.o MG_species.o MG_extendeds.o MG_names.o MG_gene_species.o MG_configs.o MG_preserves.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/MERGE' make[4]: Entering directory `/build/buildd/arb-5.3/MULTI_PROBE' rm -f MP_main.o MP_Window.o MP_noclass.o MP_sonde.o MP_sondentopf.o MP_mo_liste.o MP_probe.o MP_GenerationDuplicates.o MP_Generation.o MP_probe_combi_statistic.o MP_probe_tabs.o MP_permute.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/MULTI_PROBE' make[4]: Entering directory `/build/buildd/arb-5.3/NALIGNER' rm -f ali_aligner.o ali_arbdb.o ali_global.o ali_main.o ali_pathmap.o ali_prealigner.o ali_profile.o ali_pt.o ali_sequence.o ali_solution.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/NALIGNER' make[4]: Entering directory `/build/buildd/arb-5.3/NAMES' rm -f names.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/NAMES' make[4]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' rm -f aisc.o aisc_commands.o aisc_var_ref.o aisc_mix.o aisc make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' make[4]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' make[4]: Entering directory `/build/buildd/arb-5.3/NTREE' rm -f AP_consensus.o AP_conservProfile2Gnuplot.o AP_cprofile.o AP_csp_2_gnuplot.o AP_pos_var_pars.o NT_cb.o NT_concatenate.o NT_dbrepair.o NT_edconf.o NT_extern.o NT_import.o NT_ins_col.o NT_join.o NT_main.o NT_sort.o NT_trackAliChanges.o NT_validManual.o NT_validNameParser.o NT_validNames.o ad_ali.o ad_ext.o ad_spec.o ad_transpro.o ad_trees.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/NTREE' make[4]: Entering directory `/build/buildd/arb-5.3/PARSIMONY' rm -f PARS_main.o PARS_dtree.o PARS_debug.o PARS_klprops.o AP_buffer.o AP_main.o AP_tree_nlen.o AP_tree_edge.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/PARSIMONY' make[4]: Entering directory `/build/buildd/arb-5.3/PGT' rm -f main.o dialog.o arb_interface.o main_dialog.o import_dialog.o selection_dialog.o file_import.o tiff_image.o image_dialog.o plot.o analyze_window.o entry_sel_dialog.o config_dialog.o help_dialog.o msgbox.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/PGT' make[4]: Entering directory `/build/buildd/arb-5.3/PHYLO' rm -f PH_data.o PH_root.o PH_main.o PH_filt.o PH_display.o PH_matr.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/PHYLO' make[4]: Entering directory `/build/buildd/arb-5.3/PRIMER_DESIGN' rm -f PRD_Pair.o PRD_Item.o PRD_Node.o PRD_Range.o PRD_SequenceIterator.o PRD_SearchFIFO.o PRD_Design.o primer_design.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/PRIMER_DESIGN' make[4]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' make[5]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' rm -f aisc.o aisc_commands.o aisc_var_ref.o aisc_mix.o aisc make[5]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' make[4]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' make[4]: Entering directory `/build/buildd/arb-5.3/PROBE_DESIGN' rm -f probe_design.o SaiProbeVisualization.o probe_match_parser.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/PROBE_DESIGN' make[4]: Entering directory `/build/buildd/arb-5.3/PROBE_SET' rm -f ps_node.o ps_filebuffer.o ps_database.o ps_tools.o fb_test.o ps_convert_db.o ps_merge_my_dbs.o ps_detect_weak_differences.o ps_find_probes.o ps_eval_candidates.o ps_get_probes.o ps_my2ascii.o ps_my2asciipaths.o ps_arb2asciipaths.o ps_show_result.o rm -f /build/buildd/arb-5.3/PROBE_SET/bin/ps_show_result /build/buildd/arb-5.3/PROBE_SET/bin/ps_arb2asciipaths /build/buildd/arb-5.3/PROBE_SET/bin/ps_my2asciipaths /build/buildd/arb-5.3/PROBE_SET/bin/ps_my2ascii /build/buildd/arb-5.3/PROBE_SET/bin/ps_get_probes /build/buildd/arb-5.3/PROBE_SET/bin/ps_eval /build/buildd/arb-5.3/PROBE_SET/bin/ps_find /build/buildd/arb-5.3/PROBE_SET/bin/ps_detect /build/buildd/arb-5.3/PROBE_SET/bin/ps_merge /build/buildd/arb-5.3/PROBE_SET/bin/ps_convert /build/buildd/arb-5.3/PROBE_SET/bin/fb_test make[4]: Leaving directory `/build/buildd/arb-5.3/PROBE_SET' make[4]: Entering directory `/build/buildd/arb-5.3/READSEQ' rm -f readseq.o ureadseq.o /build/buildd/arb-5.3/bin/arb_readseq make[4]: Leaving directory `/build/buildd/arb-5.3/READSEQ' make[4]: Entering directory `/build/buildd/arb-5.3/RNA3D' rm -f RNA3D_Main.o RNA3D_Interface.o RNA3D_Graphics.o RNA3D_OpenGLEngine.o RNA3D_OpenGLGraphics.o RNA3D_Textures.o RNA3D_StructureData.o RNA3D_Renderer.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/RNA3D' make[4]: Entering directory `/build/buildd/arb-5.3/SECEDIT' rm -f SEC_toggle.o SEC_bonddef.o SEC_db.o SEC_helix.o SEC_graphic.o SEC_structure.o SEC_read.o SEC_io.o SEC_paint.o SEC_layout.o SEC_split.o SEC_abspos.o SEC_main.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/SECEDIT' make[4]: Entering directory `/build/buildd/arb-5.3/SEQ_QUALITY' rm -f SQ_main.o SQ_functions.o SQ_GroupData.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/SEQ_QUALITY' make[4]: Entering directory `/build/buildd/arb-5.3/SERVERCNTRL' rm -f servercntrl.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/SERVERCNTRL' make[4]: Entering directory `/build/buildd/arb-5.3/SL' make[5]: Entering directory `/build/buildd/arb-5.3/SL/TREE_READ' rm -f TreeRead.o TreeTools.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/TREE_READ' make[5]: Entering directory `/build/buildd/arb-5.3/SL/TREE_WRITE' rm -f TreeWrite.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/TREE_WRITE' make[5]: Entering directory `/build/buildd/arb-5.3/SL/HELIX' rm -f BI_helix.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/HELIX' make[5]: Entering directory `/build/buildd/arb-5.3/SL/AW_HELIX' rm -f AW_helix.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/AW_HELIX' make[5]: Entering directory `/build/buildd/arb-5.3/SL/AW_NAME' rm -f AW_rename.o AW_names_admin.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/AW_NAME' make[5]: Entering directory `/build/buildd/arb-5.3/SL/DB_SCANNER' rm -f db_scanner.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/DB_SCANNER' make[5]: Entering directory `/build/buildd/arb-5.3/SL/FILE_BUFFER' rm -f FileBuffer.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/FILE_BUFFER' make[5]: Entering directory `/build/buildd/arb-5.3/SL/REGEXPR' rm -f RegExpr.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/REGEXPR' make[5]: Entering directory `/build/buildd/arb-5.3/SL/FAST_ALIGNER' rm -f ClustalV.o fast_aligner.o *.a make[5]: Leaving directory `/build/buildd/arb-5.3/SL/FAST_ALIGNER' make[4]: Leaving directory `/build/buildd/arb-5.3/SL' make[4]: Entering directory `/build/buildd/arb-5.3/STAT' rm -f ST_quality.o ST_ml.o ST_window.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/STAT' make[4]: Entering directory `/build/buildd/arb-5.3/TOOLS' rm -f /build/buildd/arb-5.3/bin/arb_2_ascii /build/buildd/arb-5.3/bin/arb_2_bin /build/buildd/arb-5.3/bin/arb_a2ps /build/buildd/arb-5.3/bin/arb_count_chars /build/buildd/arb-5.3/bin/arb_dnarates /build/buildd/arb-5.3/bin/arb_export_rates /build/buildd/arb-5.3/bin/arb_export_tree /build/buildd/arb-5.3/bin/arb_gene_probe /build/buildd/arb-5.3/bin/arb_message /build/buildd/arb-5.3/bin/arb_notify /build/buildd/arb-5.3/bin/arb_primer /build/buildd/arb-5.3/bin/arb_probe /build/buildd/arb-5.3/bin/arb_proto_2_xsub /build/buildd/arb-5.3/bin/arb_read_tree /build/buildd/arb-5.3/bin/arb_replace /build/buildd/arb-5.3/bin/arb_swap_rnastr rm -f arb_2_ascii.o arb_2_bin.o arb_a2ps.o arb_count_chars.o arb_dnarates.o arb_export_rates.o arb_export_tree.o arb_gene_probe.o arb_message.o arb_notify.o arb_primer.o arb_probe.o arb_proto_2_xsub.o arb_read_tree.o arb_replace.o arb_swap_rnastr.o make[4]: Leaving directory `/build/buildd/arb-5.3/TOOLS' make[4]: Entering directory `/build/buildd/arb-5.3/TREEGEN' rm -f base.o defines.o frand.o readcfg.o rns.o sim.o simcfg.o spreadin.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/TREEGEN' make[4]: Entering directory `/build/buildd/arb-5.3/WETC' rm -f WETC_main.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/WETC' make[4]: Entering directory `/build/buildd/arb-5.3/WINDOW' rm -f AW_position.o AW_Xm.o AW_at.o AW_button.o AW_click.o AW_debug.o AW_device.o AW_font_group.o AW_global_awars.o AW_nawar.o AW_preset.o AW_print.o AW_question.o AW_size.o AW_status.o AW_window.o AW_xfig.o AW_xfigfont.o AW_xfont.o AW_xkey.o AW_window_Xm_interface.o *.a *.so make[4]: Leaving directory `/build/buildd/arb-5.3/WINDOW' make[4]: Entering directory `/build/buildd/arb-5.3/XML' rm -f xml.o *.a make[4]: Leaving directory `/build/buildd/arb-5.3/XML' make[4]: Entering directory `/build/buildd/arb-5.3/GDEHELP' rm -f MENUS/align.genmenu MENUS/desoete.genmenu MENUS/dnamlrates.genmenu MENUS/export.genmenu MENUS/fastdnaml.genmenu MENUS/import.genmenu MENUS/inc_fastdnaml.genmenu MENUS/phylip_dist.genmenu MENUS/phylip_dist_org.genmenu MENUS/phylip_help.genmenu MENUS/phylip_ml.genmenu MENUS/phylip_pars.genmenu MENUS/pretty_print.genmenu MENUS/puzzle.genmenu MENUS/raxml.genmenu MENUS/start_arb.genmenu MENUS/warning.genmenu ARB_GDEmenus make[5]: Entering directory `/build/buildd/arb-5.3/GDEHELP' rm -f ./HELP_GEN/*.help rm -f ./HELP_DOC_GEN/*.doc make[5]: Leaving directory `/build/buildd/arb-5.3/GDEHELP' rm -f helpfiles.lst make[4]: Leaving directory `/build/buildd/arb-5.3/GDEHELP' make[4]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' rm -f arb_help2xml.o /build/buildd/arb-5.3/bin/arb_help2xml rm -f `find ../lib/help -name "*.hlp"` rm -f `find ../lib/help_html -name "*.html"` find: `../lib/help_html': No such file or directory rm -f xml.stamp dummy _index.html rm -f `find Xml -name "*.xml"` find: `Xml': No such file or directory /usr/bin/make -C genhelp clean make[5]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE/genhelp' rm -f *.hlp make[5]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE/genhelp' make[4]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' make[4]: Entering directory `/build/buildd/arb-5.3/SOURCE_TOOLS' rm -f generate_all_links.stamp make[4]: Leaving directory `/build/buildd/arb-5.3/SOURCE_TOOLS' make[4]: Entering directory `/build/buildd/arb-5.3/bin' find . -type l -exec rm {} \; find . -type f -perm -100 -exec rm {} \; make[4]: Leaving directory `/build/buildd/arb-5.3/bin' make[4]: Entering directory `/build/buildd/arb-5.3/PERL2ARB' test -f Makefile && /usr/bin/make clean make[4]: [clean] Error 1 (ignored) rm -f Makefile.old proto.h debug.h ARB.c ARB.xs .depends depends.stamp Makefile.PL /build/buildd/arb-5.3/lib/ARB.pm /build/buildd/arb-5.3/lib/ARB.so make[4]: Leaving directory `/build/buildd/arb-5.3/PERL2ARB' rm -f *.last_gcc make[3]: Leaving directory `/build/buildd/arb-5.3' make[2]: Leaving directory `/build/buildd/arb-5.3' # fix broken clean process find . -type f -name "*.a" -delete find . -type f -name "*.o" -delete find . -type f -name "*.so" -delete rm -f `find bin -name "arb*" | grep -v ".pl$"` rm -f `find AWT ARBDBS ARBDB2 EDIT4 LIBLINK MAKEBIN NALIGNER NAMES_COM ORS_COM PROBE PROBE_COM PROBE_SERVER TOOLS bin lib/inputMasks lib/help -type l` find: `ORS_COM': No such file or directory find: `PROBE_SERVER': No such file or directory rm -f `find . -type f -name ".depends"` for dir in GENC GENH O ; do \ rm -rf `find . -name ${dir} -type d` ; \ done rm -f `find bin -maxdepth 1 -type f | grep -v Makefile` rm -f `find PROBE_WEB/CLIENT -name \*.class -type f` find: `PROBE_WEB/CLIENT': No such file or directory rm -f `find PROBE_WEB/CLIENT -name \*.jar -type f` find: `PROBE_WEB/CLIENT': No such file or directory rm -f libXm.so.3 NALIGNER/NALIGNER.com lib/nas/names.dat PERL2ARB/Makefile PERL2ARB/ARB.c HELP_SOURCE/date.xsl lib/arb_tcp.dat lib/ARB.pm *.last_gcc TEMPLATES/arb_build.h GDE/MOLPHY/prot_tml.h PERL2ARB/perlmain.c rm -fr INCLUDE HELP_SOURCE/Xml lib/help lib/help_html PERL5 lib/perl5 PROBE_SERVER/bin PERL2ARB/blib/man3 PROBE_SET/bin for dtc in AISC AISC_MKPTPS SOURCE_TOOLS; do if [ -d ${dtc} ] ; then cd ${dtc}; make clean ; fi; done make[2]: Entering directory `/build/buildd/arb-5.3/AISC' rm -f aisc.o aisc_commands.o aisc_var_ref.o aisc_mix.o aisc make[2]: Leaving directory `/build/buildd/arb-5.3/AISC' find . -name "*.stamp" -o -name "*.bs" -o -name ".exists" -delete make[1]: Leaving directory `/build/buildd/arb-5.3' dh_clean debian/rules build dh build dh_testdir dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory `/build/buildd/arb-5.3' mkdir -p LIBLINK MAKEBIN lib/help export LC_ALL=C ; \ export PATH=/build/buildd/arb-5.3/bin:${PATH} ; \ export LD_LIBRARY_PATH=/build/buildd/arb-5.3/lib:${LD_LIBRARY_PATH}; \ /usr/bin/make DEBIAN=1 ARBHOME=/build/buildd/arb-5.3 ARB_64=1 all ; \ export LD_LIBRARY_PATH=/build/buildd/arb-5.3/lib:${LD_LIBRARY_PATH}; \ /usr/bin/make DEBIAN=1 ARBHOME=/build/buildd/arb-5.3 ARB_64=1 arbxtras make[2]: Entering directory `/build/buildd/arb-5.3' All tools needed for ARB compilation have been located. GCC version check: - Your version is '4.6' - Supported gcc version '4.6' detected - fine! /usr/bin/make check_same_GCC_VERSION make[3]: Entering directory `/build/buildd/arb-5.3' /build/buildd/arb-5.3/SOURCE_TOOLS/check_same_gcc_version.pl 4.6 make[3]: Leaving directory `/build/buildd/arb-5.3' Your setup seems to be ok. /usr/bin/make links make[3]: Entering directory `/build/buildd/arb-5.3' SOURCE_TOOLS/generate_all_links.sh make[4]: Entering directory `/build/buildd/arb-5.3/bin' find . -type l -exec rm {} \; ln -s -f `find ../SH ../PERL_SCRIPTS -perm -100 ! -type d ! -name 'config*' -print` . make[4]: Leaving directory `/build/buildd/arb-5.3/bin' generate_all_links.sh done. touch SOURCE_TOOLS/generate_all_links.stamp make[3]: Leaving directory `/build/buildd/arb-5.3' /usr/bin/make com make[3]: Entering directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in AISC_MKPTPS make[4]: Entering directory `/build/buildd/arb-5.3/AISC_MKPTPS' gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AISC_MKPTPS -c mkptypes.c gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AISC_MKPTPS -o aisc_mkpt mkptypes.o make[4]: Leaving directory `/build/buildd/arb-5.3/AISC_MKPTPS' -------------------------------------------------------------------------------- Make everything in AISC make[4]: Entering directory `/build/buildd/arb-5.3/AISC' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AISC -c aisc.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AISC -c aisc_commands.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include aisc_commands.c: In function 'int do_com_next(const char*)': aisc_commands.c:906:21: warning: variable 'p' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AISC -c aisc_var_ref.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AISC -c aisc_mix.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AISC -o aisc aisc.o aisc_commands.o aisc_var_ref.o aisc_mix.o make[4]: Leaving directory `/build/buildd/arb-5.3/AISC' -------------------------------------------------------------------------------- Make everything in NAMES_COM make[4]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' AISC/Makefile:95: .depends: No such file or directory umask 002;makedepend C/*.c GENC/*.c -I GENH -I C -f- -w1 | grep -v ' /usr' | sed -e 's/^C/O/ig' > .depends_new makedepend: warning: C/aisc_extern.c (reading /usr/include/features.h, line 324): cannot find include file "bits/predefs.h" not in GENH/bits/predefs.h not in C/bits/predefs.h not in /usr/include/bits/predefs.h makedepend: warning: C/aisc_extern.c (reading /usr/include/features.h, line 357): cannot find include file "sys/cdefs.h" not in GENH/sys/cdefs.h not in C/sys/cdefs.h not in /usr/include/sys/cdefs.h makedepend: warning: C/aisc_extern.c (reading /usr/include/features.h, line 389): cannot find include file "gnu/stubs.h" not in GENH/gnu/stubs.h not in C/gnu/stubs.h not in /usr/include/gnu/stubs.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 34): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 36): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/aisc_extern.c (reading /usr/include/_G_config.h, line 9): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/aisc_extern.c (reading /usr/include/_G_config.h, line 15): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c (reading /usr/include/wchar.h, line 40): cannot find include file "stdarg.h" not in GENH/stdarg.h not in C/stdarg.h not in /usr/include/stdarg.h makedepend: warning: C/aisc_extern.c (reading /usr/include/wchar.h, line 42): cannot find include file "bits/wchar.h" not in GENH/bits/wchar.h not in C/bits/wchar.h not in /usr/include/bits/wchar.h makedepend: warning: C/aisc_extern.c (reading /usr/include/wchar.h, line 52): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c (reading /usr/include/libio.h, line 53): cannot find include file "stdarg.h" not in GENH/stdarg.h not in C/stdarg.h not in /usr/include/stdarg.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 165): cannot find include file "bits/stdio_lim.h" not in GENH/bits/stdio_lim.h not in C/bits/stdio_lim.h not in /usr/include/bits/stdio_lim.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 850): cannot find include file "bits/sys_errlist.h" not in GENH/bits/sys_errlist.h not in C/bits/sys_errlist.h not in /usr/include/bits/sys_errlist.h makedepend: warning: C/aisc_extern.c (reading /usr/include/string.h, line 34): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c, line 3: cannot find include file "aisc.h" not in GENH/aisc.h not in C/aisc.h not in /usr/include/aisc.h makedepend: warning: C/aisc_extern.c (reading C/aisc_extern_privat.h, line 19): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 33): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 42): cannot find include file "bits/waitflags.h" not in GENH/bits/waitflags.h not in C/bits/waitflags.h not in /usr/include/bits/waitflags.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 43): cannot find include file "bits/waitstatus.h" not in GENH/bits/waitstatus.h not in C/bits/waitstatus.h not in /usr/include/bits/waitstatus.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 320): cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/client.c (reading /usr/include/alloca.h, line 25): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 203): cannot find include file "bits/posix_opt.h" not in GENH/bits/posix_opt.h not in C/bits/posix_opt.h not in /usr/include/bits/posix_opt.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 218): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 227): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 610): cannot find include file "bits/confname.h" not in GENH/bits/confname.h not in C/bits/confname.h not in /usr/include/bits/confname.h makedepend: warning: C/client.c (reading /usr/include/ctype.h, line 28): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/endian.h, line 37): cannot find include file "bits/endian.h" not in GENH/bits/endian.h not in C/bits/endian.h not in /usr/include/bits/endian.h makedepend: warning: C/client.c (reading /usr/include/endian.h, line 61): cannot find include file "bits/byteswap.h" not in GENH/bits/byteswap.h not in C/bits/byteswap.h not in /usr/include/bits/byteswap.h makedepend: warning: C/client.c (reading /usr/include/errno.h, line 36): cannot find include file "bits/errno.h" not in GENH/bits/errno.h not in C/bits/errno.h not in /usr/include/bits/errno.h makedepend: warning: C/client.c (reading C/ad_varargs.h, line 1): cannot find include file "stdarg.h" not in GENH/stdarg.h not in C/stdarg.h not in /usr/include/stdarg.h makedepend: warning: C/client.c, line 9: cannot find include file "sys/time.h" not in GENH/sys/time.h not in C/sys/time.h not in /usr/include/sys/time.h makedepend: warning: C/client.c, line 10: cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/client.c, line 11: cannot find include file "sys/stat.h" not in GENH/sys/stat.h not in C/sys/stat.h not in /usr/include/sys/stat.h makedepend: warning: C/client.c, line 12: cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/client.c, line 13: cannot find include file "sys/un.h" not in GENH/sys/un.h not in C/sys/un.h not in /usr/include/sys/un.h makedepend: warning: C/client.c (reading /usr/include/stdint.h, line 27): cannot find include file "bits/wchar.h" not in GENH/bits/wchar.h not in C/bits/wchar.h not in /usr/include/bits/wchar.h makedepend: warning: C/client.c (reading /usr/include/stdint.h, line 28): cannot find include file "bits/wordsize.h" not in GENH/bits/wordsize.h not in C/bits/wordsize.h not in /usr/include/bits/wordsize.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 25): cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 26): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 356): cannot find include file "bits/in.h" not in GENH/bits/in.h not in C/bits/in.h not in /usr/include/bits/in.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 376): cannot find include file "bits/byteswap.h" not in GENH/bits/byteswap.h not in C/bits/byteswap.h not in /usr/include/bits/byteswap.h makedepend: warning: C/client.c (reading /usr/include/netinet/tcp.h, line 56): cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/client.c (reading /usr/include/netinet/tcp.h, line 57): cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/client.c (reading /usr/include/rpc/netdb.h, line 42): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/netdb.h, line 43): cannot find include file "bits/netdb.h" not in GENH/bits/netdb.h not in C/bits/netdb.h not in /usr/include/bits/netdb.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 33): cannot find include file "bits/sigset.h" not in GENH/bits/sigset.h not in C/bits/sigset.h not in /usr/include/bits/sigset.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 57): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 58): cannot find include file "bits/signum.h" not in GENH/bits/signum.h not in C/bits/signum.h not in /usr/include/bits/signum.h makedepend: warning: C/client.c (reading /usr/include/time.h, line 116): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 79): cannot find include file "bits/siginfo.h" not in GENH/bits/siginfo.h not in C/bits/siginfo.h not in /usr/include/bits/siginfo.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 252): cannot find include file "bits/sigaction.h" not in GENH/bits/sigaction.h not in C/bits/sigaction.h not in /usr/include/bits/sigaction.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 339): cannot find include file "bits/sigcontext.h" not in GENH/bits/sigcontext.h not in C/bits/sigcontext.h not in /usr/include/bits/sigcontext.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 349): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 356): cannot find include file "bits/sigstack.h" not in GENH/bits/sigstack.h not in C/bits/sigstack.h not in /usr/include/bits/sigstack.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 359): cannot find include file "sys/ucontext.h" not in GENH/sys/ucontext.h not in C/sys/ucontext.h not in /usr/include/sys/ucontext.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 394): cannot find include file "bits/pthreadtypes.h" not in GENH/bits/pthreadtypes.h not in C/bits/pthreadtypes.h not in /usr/include/bits/pthreadtypes.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 395): cannot find include file "bits/sigthread.h" not in GENH/bits/sigthread.h not in C/bits/sigthread.h not in /usr/include/bits/sigthread.h makedepend: warning: C/client.c (reading C/client.h, line 22): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: C/debug.c, line 6: cannot find include file "aisc_com.h" not in GENH/aisc_com.h not in C/aisc_com.h not in /usr/include/aisc_com.h makedepend: warning: C/server.c, line 7: cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/server.c, line 8: cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/server.c, line 9: cannot find include file "sys/un.h" not in GENH/sys/un.h not in C/sys/un.h not in /usr/include/sys/un.h makedepend: warning: C/server.c, line 13: cannot find include file "sys/stat.h" not in GENH/sys/stat.h not in C/sys/stat.h not in /usr/include/sys/stat.h makedepend: warning: C/server.c (reading /usr/include/limits.h, line 125): cannot find include file "limits.h" makedepend: warning: C/server.c (reading /usr/include/limits.h, line 145): cannot find include file "bits/posix1_lim.h" not in GENH/bits/posix1_lim.h not in C/bits/posix1_lim.h not in /usr/include/bits/posix1_lim.h makedepend: warning: C/server.c (reading /usr/include/limits.h, line 149): cannot find include file "bits/posix2_lim.h" not in GENH/bits/posix2_lim.h not in C/bits/posix2_lim.h not in /usr/include/bits/posix2_lim.h makedepend: warning: C/server.c, line 30: cannot find include file "sys/time.h" not in GENH/sys/time.h not in C/sys/time.h not in /usr/include/sys/time.h makedepend: warning: C/server.c, line 33: cannot find include file "aisc_com.h" not in aisc_com.h not in C/aisc_com.h not in GENH/aisc_com.h not in C/aisc_com.h not in /usr/include/aisc_com.h makedepend: warning: C/server.c (reading C/server.h, line 22): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: C/server.c (reading ../INCLUDE/arb_assert.h), line 33: # error Neither DEBUG nor NDEBUG is defined! makedepend: warning: C/server.c (reading ../INCLUDE/arb_assert.h, line 183): cannot find include file "arbdb_base.h" not in GENH/arbdb_base.h not in C/arbdb_base.h not in /usr/include/arbdb_base.h makedepend: warning: C/struct_man.c, line 5: cannot find include file "aisc.h" not in aisc.h not in C/aisc.h not in GENH/aisc.h not in C/aisc.h not in /usr/include/aisc.h makedepend: warning: C/struct_man.c (reading C/struct_man.h, line 19): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: cannot open "GENC/*.c" /build/buildd/arb-5.3/SOURCE_TOOLS/mv_if_diff .depends_new .depends .depends created. make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' ../MAKEBIN/aisc AISC/aisc.pa names.aisc GENH/aisc.h ../MAKEBIN/aisc AISC/aisc_com.pa names.aisc GENH/aisc_com.h g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/client.o C/client.c -IGENH -I. -IC g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/debug.o C/debug.c -IGENH -I. -IC rm -f GENH/aisc_server_extern.aisc ../MAKEBIN/aisc_mkpt -a C/aisc_extern.c names_extern.c >GENH/aisc_server_extern.aisc ../MAKEBIN/aisc AISC/aisc_debug_globals.pa names.aisc GENC/aisc_debug_globals.c GENH/aisc_server_extern.aisc GENH/import_proto.h g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o GENC/aisc_debug_globals.o GENC/aisc_debug_globals.c -IGENH -I. -IC ld -rpath=/usr/lib/arb/lib -r -o client.a O/client.o O/debug.o GENC/aisc_debug_globals.o g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/server.o C/server.c -IGENH -I. -IC g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/struct_man.o C/struct_man.c -IGENH -I. -IC g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/aisc_extern.o C/aisc_extern.c -IGENH -I. -IC ../MAKEBIN/aisc AISC/aisc_server.pa names.aisc GENC/aisc_server.c GENH/aisc_server_extern.aisc GENH/import_proto.h rm -f GENH/aisc_server_proto.h ../MAKEBIN/aisc_mkpt -C GENC/aisc_server.c >GENH/aisc_server_proto.h rm -f GENH/aisc_server_extern.h ../MAKEBIN/aisc_mkpt -C C/aisc_extern.c names_extern.c >GENH/aisc_server_extern.h ../MAKEBIN/aisc AISC/aisc_global.pa names.aisc GENC/aisc_global.c GENH/aisc_server_extern.aisc GENH/import_proto.h g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o GENC/aisc_global.o GENC/aisc_global.c -IGENH -I. -IC -DAISC_SAVE_YES g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o GENC/aisc_server.o GENC/aisc_server.c -IGENH -I. -IC -DAISC_SAVE_YES g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NAMES_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o names_extern.o names_extern.c -IGENH -I. -IC -DAISC_SAVE_YES ld -rpath=/usr/lib/arb/lib -r -o server.a O/server.o O/struct_man.o O/aisc_extern.o GENC/aisc_global.o GENC/aisc_server.o names_extern.o make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' make[4]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' -------------------------------------------------------------------------------- Make everything in PROBE_COM make[4]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' make[5]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' AISC/Makefile:95: .depends: No such file or directory umask 002;makedepend C/*.c GENC/*.c -I GENH -I C -f- -w1 | grep -v ' /usr' | sed -e 's/^C/O/ig' > .depends_new makedepend: warning: C/aisc_extern.c (reading /usr/include/features.h, line 324): cannot find include file "bits/predefs.h" not in GENH/bits/predefs.h not in C/bits/predefs.h not in /usr/include/bits/predefs.h makedepend: warning: C/aisc_extern.c (reading /usr/include/features.h, line 357): cannot find include file "sys/cdefs.h" not in GENH/sys/cdefs.h not in C/sys/cdefs.h not in /usr/include/sys/cdefs.h makedepend: warning: C/aisc_extern.c (reading /usr/include/features.h, line 389): cannot find include file "gnu/stubs.h" not in GENH/gnu/stubs.h not in C/gnu/stubs.h not in /usr/include/gnu/stubs.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 34): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 36): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/aisc_extern.c (reading /usr/include/_G_config.h, line 9): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/aisc_extern.c (reading /usr/include/_G_config.h, line 15): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c (reading /usr/include/wchar.h, line 40): cannot find include file "stdarg.h" not in GENH/stdarg.h not in C/stdarg.h not in /usr/include/stdarg.h makedepend: warning: C/aisc_extern.c (reading /usr/include/wchar.h, line 42): cannot find include file "bits/wchar.h" not in GENH/bits/wchar.h not in C/bits/wchar.h not in /usr/include/bits/wchar.h makedepend: warning: C/aisc_extern.c (reading /usr/include/wchar.h, line 52): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c (reading /usr/include/libio.h, line 53): cannot find include file "stdarg.h" not in GENH/stdarg.h not in C/stdarg.h not in /usr/include/stdarg.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 165): cannot find include file "bits/stdio_lim.h" not in GENH/bits/stdio_lim.h not in C/bits/stdio_lim.h not in /usr/include/bits/stdio_lim.h makedepend: warning: C/aisc_extern.c (reading /usr/include/stdio.h, line 850): cannot find include file "bits/sys_errlist.h" not in GENH/bits/sys_errlist.h not in C/bits/sys_errlist.h not in /usr/include/bits/sys_errlist.h makedepend: warning: C/aisc_extern.c (reading /usr/include/string.h, line 34): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/aisc_extern.c, line 3: cannot find include file "aisc.h" not in GENH/aisc.h not in C/aisc.h not in /usr/include/aisc.h makedepend: warning: C/aisc_extern.c (reading C/aisc_extern_privat.h, line 19): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 33): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 42): cannot find include file "bits/waitflags.h" not in GENH/bits/waitflags.h not in C/bits/waitflags.h not in /usr/include/bits/waitflags.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 43): cannot find include file "bits/waitstatus.h" not in GENH/bits/waitstatus.h not in C/bits/waitstatus.h not in /usr/include/bits/waitstatus.h makedepend: warning: C/client.c (reading /usr/include/stdlib.h, line 320): cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/client.c (reading /usr/include/alloca.h, line 25): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 203): cannot find include file "bits/posix_opt.h" not in GENH/bits/posix_opt.h not in C/bits/posix_opt.h not in /usr/include/bits/posix_opt.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 218): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 227): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/unistd.h, line 610): cannot find include file "bits/confname.h" not in GENH/bits/confname.h not in C/bits/confname.h not in /usr/include/bits/confname.h makedepend: warning: C/client.c (reading /usr/include/ctype.h, line 28): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/endian.h, line 37): cannot find include file "bits/endian.h" not in GENH/bits/endian.h not in C/bits/endian.h not in /usr/include/bits/endian.h makedepend: warning: C/client.c (reading /usr/include/endian.h, line 61): cannot find include file "bits/byteswap.h" not in GENH/bits/byteswap.h not in C/bits/byteswap.h not in /usr/include/bits/byteswap.h makedepend: warning: C/client.c (reading /usr/include/errno.h, line 36): cannot find include file "bits/errno.h" not in GENH/bits/errno.h not in C/bits/errno.h not in /usr/include/bits/errno.h makedepend: warning: C/client.c (reading C/ad_varargs.h, line 1): cannot find include file "stdarg.h" not in GENH/stdarg.h not in C/stdarg.h not in /usr/include/stdarg.h makedepend: warning: C/client.c, line 9: cannot find include file "sys/time.h" not in GENH/sys/time.h not in C/sys/time.h not in /usr/include/sys/time.h makedepend: warning: C/client.c, line 10: cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/client.c, line 11: cannot find include file "sys/stat.h" not in GENH/sys/stat.h not in C/sys/stat.h not in /usr/include/sys/stat.h makedepend: warning: C/client.c, line 12: cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/client.c, line 13: cannot find include file "sys/un.h" not in GENH/sys/un.h not in C/sys/un.h not in /usr/include/sys/un.h makedepend: warning: C/client.c (reading /usr/include/stdint.h, line 27): cannot find include file "bits/wchar.h" not in GENH/bits/wchar.h not in C/bits/wchar.h not in /usr/include/bits/wchar.h makedepend: warning: C/client.c (reading /usr/include/stdint.h, line 28): cannot find include file "bits/wordsize.h" not in GENH/bits/wordsize.h not in C/bits/wordsize.h not in /usr/include/bits/wordsize.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 25): cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 26): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 356): cannot find include file "bits/in.h" not in GENH/bits/in.h not in C/bits/in.h not in /usr/include/bits/in.h makedepend: warning: C/client.c (reading /usr/include/netinet/in.h, line 376): cannot find include file "bits/byteswap.h" not in GENH/bits/byteswap.h not in C/bits/byteswap.h not in /usr/include/bits/byteswap.h makedepend: warning: C/client.c (reading /usr/include/netinet/tcp.h, line 56): cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/client.c (reading /usr/include/netinet/tcp.h, line 57): cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/client.c (reading /usr/include/rpc/netdb.h, line 42): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/netdb.h, line 43): cannot find include file "bits/netdb.h" not in GENH/bits/netdb.h not in C/bits/netdb.h not in /usr/include/bits/netdb.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 33): cannot find include file "bits/sigset.h" not in GENH/bits/sigset.h not in C/bits/sigset.h not in /usr/include/bits/sigset.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 57): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 58): cannot find include file "bits/signum.h" not in GENH/bits/signum.h not in C/bits/signum.h not in /usr/include/bits/signum.h makedepend: warning: C/client.c (reading /usr/include/time.h, line 116): cannot find include file "bits/types.h" not in GENH/bits/types.h not in C/bits/types.h not in /usr/include/bits/types.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 79): cannot find include file "bits/siginfo.h" not in GENH/bits/siginfo.h not in C/bits/siginfo.h not in /usr/include/bits/siginfo.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 252): cannot find include file "bits/sigaction.h" not in GENH/bits/sigaction.h not in C/bits/sigaction.h not in /usr/include/bits/sigaction.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 339): cannot find include file "bits/sigcontext.h" not in GENH/bits/sigcontext.h not in C/bits/sigcontext.h not in /usr/include/bits/sigcontext.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 349): cannot find include file "stddef.h" not in GENH/stddef.h not in C/stddef.h not in /usr/include/stddef.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 356): cannot find include file "bits/sigstack.h" not in GENH/bits/sigstack.h not in C/bits/sigstack.h not in /usr/include/bits/sigstack.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 359): cannot find include file "sys/ucontext.h" not in GENH/sys/ucontext.h not in C/sys/ucontext.h not in /usr/include/sys/ucontext.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 394): cannot find include file "bits/pthreadtypes.h" not in GENH/bits/pthreadtypes.h not in C/bits/pthreadtypes.h not in /usr/include/bits/pthreadtypes.h makedepend: warning: C/client.c (reading /usr/include/signal.h, line 395): cannot find include file "bits/sigthread.h" not in GENH/bits/sigthread.h not in C/bits/sigthread.h not in /usr/include/bits/sigthread.h makedepend: warning: C/client.c (reading C/client.h, line 22): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: C/debug.c, line 6: cannot find include file "aisc_com.h" not in GENH/aisc_com.h not in C/aisc_com.h not in /usr/include/aisc_com.h makedepend: warning: C/server.c, line 7: cannot find include file "sys/types.h" not in GENH/sys/types.h not in C/sys/types.h not in /usr/include/sys/types.h makedepend: warning: C/server.c, line 8: cannot find include file "sys/socket.h" not in GENH/sys/socket.h not in C/sys/socket.h not in /usr/include/sys/socket.h makedepend: warning: C/server.c, line 9: cannot find include file "sys/un.h" not in GENH/sys/un.h not in C/sys/un.h not in /usr/include/sys/un.h makedepend: warning: C/server.c, line 13: cannot find include file "sys/stat.h" not in GENH/sys/stat.h not in C/sys/stat.h not in /usr/include/sys/stat.h makedepend: warning: C/server.c (reading /usr/include/limits.h, line 125): cannot find include file "limits.h" makedepend: warning: C/server.c (reading /usr/include/limits.h, line 145): cannot find include file "bits/posix1_lim.h" not in GENH/bits/posix1_lim.h not in C/bits/posix1_lim.h not in /usr/include/bits/posix1_lim.h makedepend: warning: C/server.c (reading /usr/include/limits.h, line 149): cannot find include file "bits/posix2_lim.h" not in GENH/bits/posix2_lim.h not in C/bits/posix2_lim.h not in /usr/include/bits/posix2_lim.h makedepend: warning: C/server.c, line 30: cannot find include file "sys/time.h" not in GENH/sys/time.h not in C/sys/time.h not in /usr/include/sys/time.h makedepend: warning: C/server.c, line 33: cannot find include file "aisc_com.h" not in aisc_com.h not in C/aisc_com.h not in GENH/aisc_com.h not in C/aisc_com.h not in /usr/include/aisc_com.h makedepend: warning: C/server.c (reading C/server.h, line 22): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: C/server.c (reading ../INCLUDE/arb_assert.h), line 33: # error Neither DEBUG nor NDEBUG is defined! makedepend: warning: C/server.c (reading ../INCLUDE/arb_assert.h, line 183): cannot find include file "arbdb_base.h" not in GENH/arbdb_base.h not in C/arbdb_base.h not in /usr/include/arbdb_base.h makedepend: warning: C/struct_man.c, line 5: cannot find include file "aisc.h" not in aisc.h not in C/aisc.h not in GENH/aisc.h not in C/aisc.h not in /usr/include/aisc.h makedepend: warning: C/struct_man.c (reading C/struct_man.h, line 19): cannot find include file "attributes.h" not in GENH/attributes.h not in C/attributes.h not in /usr/include/attributes.h makedepend: warning: cannot open "GENC/*.c" /build/buildd/arb-5.3/SOURCE_TOOLS/mv_if_diff .depends_new .depends .depends created. make[5]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' make[5]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' ../MAKEBIN/aisc AISC/aisc.pa PT.aisc GENH/aisc.h ../MAKEBIN/aisc AISC/aisc_com.pa PT.aisc GENH/aisc_com.h g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/client.o C/client.c -IGENH -I. -IC g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/debug.o C/debug.c -IGENH -I. -IC rm -f GENH/aisc_server_extern.aisc ../MAKEBIN/aisc_mkpt -a C/aisc_extern.c PT_extern.c >GENH/aisc_server_extern.aisc ../MAKEBIN/aisc AISC/aisc_debug_globals.pa PT.aisc GENC/aisc_debug_globals.c GENH/aisc_server_extern.aisc GENH/import_proto.h g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o GENC/aisc_debug_globals.o GENC/aisc_debug_globals.c -IGENH -I. -IC ld -rpath=/usr/lib/arb/lib -r -o client.a O/client.o O/debug.o GENC/aisc_debug_globals.o g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/server.o C/server.c -IGENH -I. -IC g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/struct_man.o C/struct_man.c -IGENH -I. -IC g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o O/aisc_extern.o C/aisc_extern.c -IGENH -I. -IC ../MAKEBIN/aisc AISC/aisc_server.pa PT.aisc GENC/aisc_server.c GENH/aisc_server_extern.aisc GENH/import_proto.h rm -f GENH/aisc_server_proto.h ../MAKEBIN/aisc_mkpt -C GENC/aisc_server.c >GENH/aisc_server_proto.h rm -f GENH/aisc_server_extern.h ../MAKEBIN/aisc_mkpt -C C/aisc_extern.c PT_extern.c >GENH/aisc_server_extern.h ../MAKEBIN/aisc AISC/aisc_global.pa PT.aisc GENC/aisc_global.c GENH/aisc_server_extern.aisc GENH/import_proto.h g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o GENC/aisc_global.o GENC/aisc_global.c -IGENH -I. -IC -DAISC_SAVE_NO g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o GENC/aisc_server.o GENC/aisc_server.c -IGENH -I. -IC -DAISC_SAVE_NO g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_COM -I/build/buildd/arb-5.3/INCLUDE -fno-strict-aliasing -Wno-unused -c -o PT_extern.o PT_extern.c -IGENH -I. -IC -DAISC_SAVE_NO ld -rpath=/usr/lib/arb/lib -r -o server.a O/server.o O/struct_man.o O/aisc_extern.o GENC/aisc_global.o GENC/aisc_server.o PT_extern.o make[5]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' make[4]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' make[3]: Leaving directory `/build/buildd/arb-5.3' /usr/bin/make arb make[3]: Entering directory `/build/buildd/arb-5.3' (cd lib;/usr/bin/make all) make[4]: Entering directory `/build/buildd/arb-5.3/lib' test -e arb_tcp.dat || cp -p arb_tcp_org.dat arb_tcp.dat test -L nas && echo "lib/nas is a link - skipped" || \ (cd nas;/usr/bin/make all) make[5]: Entering directory `/build/buildd/arb-5.3/lib/nas' rm -f names.dat cp names.dat.template names.dat rm -f *% make[5]: Leaving directory `/build/buildd/arb-5.3/lib/nas' make[4]: Leaving directory `/build/buildd/arb-5.3/lib' /usr/bin/make arbbasic2 make[4]: Entering directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in TEMPLATES make[5]: Entering directory `/build/buildd/arb-5.3/TEMPLATES' ../SOURCE_TOOLS/build_info.pl make[5]: Leaving directory `/build/buildd/arb-5.3/TEMPLATES' -------------------------------------------------------------------------------- Make everything in AISC_MKPTPS make[5]: Entering directory `/build/buildd/arb-5.3/AISC_MKPTPS' make[5]: Nothing to be done for `dummy.a'. make[5]: Leaving directory `/build/buildd/arb-5.3/AISC_MKPTPS' -------------------------------------------------------------------------------- Make everything in AISC make[5]: Entering directory `/build/buildd/arb-5.3/AISC' make[5]: Nothing to be done for `dummy.a'. make[5]: Leaving directory `/build/buildd/arb-5.3/AISC' -------------------------------------------------------------------------------- Make everything in NAMES_COM make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' -------------------------------------------------------------------------------- Make everything in PROBE_COM make[5]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' -------------------------------------------------------------------------------- Make everything in NAMES_COM make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' /usr/bin/make SL/SL.dummy make[5]: Entering directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in SL make[6]: Entering directory `/build/buildd/arb-5.3/SL' make[7]: Entering directory `/build/buildd/arb-5.3/SL/TREE_READ' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_TREE_READ -c TreeRead.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_TREE_READ -c TreeTools.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o TREE_READ.a TreeRead.o TreeTools.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/TREE_READ' make[7]: Entering directory `/build/buildd/arb-5.3/SL/TREE_WRITE' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_TREE_WRITE -c TreeWrite.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o TREE_WRITE.a TreeWrite.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/TREE_WRITE' make[7]: Entering directory `/build/buildd/arb-5.3/SL/HELIX' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_HELIX -c BI_helix.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o HELIX.a BI_helix.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/HELIX' make[7]: Entering directory `/build/buildd/arb-5.3/SL/AW_HELIX' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_AW_HELIX -c AW_helix.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o AW_HELIX.a AW_helix.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/AW_HELIX' make[7]: Entering directory `/build/buildd/arb-5.3/SL/AW_NAME' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_AW_NAME -c AW_rename.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_AW_NAME -c AW_names_admin.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o AW_NAME.a AW_rename.o AW_names_admin.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/AW_NAME' make[7]: Entering directory `/build/buildd/arb-5.3/SL/DB_SCANNER' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_DB_SCANNER -c db_scanner.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o DB_SCANNER.a db_scanner.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/DB_SCANNER' make[7]: Entering directory `/build/buildd/arb-5.3/SL/FILE_BUFFER' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_FILE_BUFFER -c FileBuffer.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o FILE_BUFFER.a FileBuffer.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/FILE_BUFFER' make[7]: Entering directory `/build/buildd/arb-5.3/SL/REGEXPR' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_REGEXPR -c RegExpr.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o REGEXPR.a RegExpr.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/REGEXPR' make[7]: Entering directory `/build/buildd/arb-5.3/SL/FAST_ALIGNER' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_FAST_ALIGNER -c ClustalV.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SL -DIN_ARB_FAST_ALIGNER -c fast_aligner.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include fast_aligner.cxx: In function 'const char* alignCompactedTo(AWTC_CompactedSubSequence*, const AWTC_FastSearchSequence*, int, GB_CSTR, long int, GBDATA*, GBDATA*, const AlignParams&)': fast_aligner.cxx:1254:31: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] fast_aligner.cxx:1254:84: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] ld -rpath=/usr/lib/arb/lib -r -o FAST_ALIGNER.a ClustalV.o fast_aligner.o make[7]: Leaving directory `/build/buildd/arb-5.3/SL/FAST_ALIGNER' make[6]: Leaving directory `/build/buildd/arb-5.3/SL' make[5]: Leaving directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in GL make[5]: Entering directory `/build/buildd/arb-5.3/GL' make[6]: Entering directory `/build/buildd/arb-5.3/GL/glpng' gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GL -DIN_ARB_glpng -c glpng.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include glpng.c: In function 'DefaultAlphaCallback': glpng.c:51:57: warning: parameter 'red' set but not used [-Wunused-but-set-parameter] glpng.c: In function 'pngLoadF': glpng.c:391:10: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] glpng.c: In function 'pngLoadRawF': glpng.c:286:10: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] ld -rpath=/usr/lib/arb/lib -r -o libglpng_arb.a glpng.o make[6]: Leaving directory `/build/buildd/arb-5.3/GL/glpng' make[6]: Entering directory `/build/buildd/arb-5.3/GL/glAW' gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GL -DIN_ARB_glAW -c GLwMDrawA.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GL -DIN_ARB_glAW -c AW_window_ogl.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include -I/build/buildd/arb-5.3/WINDOW ld -rpath=/usr/lib/arb/lib -r -o libglAW.a GLwMDrawA.o AW_window_ogl.o make[6]: Leaving directory `/build/buildd/arb-5.3/GL/glAW' make[5]: Leaving directory `/build/buildd/arb-5.3/GL' make[4]: Leaving directory `/build/buildd/arb-5.3' /usr/bin/make arbshared arbapplications help make[4]: Entering directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in ARBDB make[5]: Entering directory `/build/buildd/arb-5.3/ARBDB' gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adsort.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adlang1.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adstring.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c admatch.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include admatch.c: In function 'GBS_string_eval': admatch.c:763:37: warning: ignoring return value of 'gbs_build_replace_string', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c arbdb.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include arbdb.c: In function 'GB_copy_with_protection': arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c: In function 'gb_remove_callback': arbdb.c:2239:13: warning: variable 'removed' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c ad_core.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_core.c: In function 'ad_use': ad_core.c:11:17: warning: parameter 'dummy' set but not used [-Wunused-but-set-parameter] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c admath.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adoptimize.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adsystem.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adsystem.c: In function 'gb_load_single_key_data': adsystem.c:141:101: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] adsystem.c:159:123: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] adsystem.c:160:123: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adindex.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adperl.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adlink.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adsocket.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adsocket.c: In function 'GB_get_full_path': adsocket.c:1256:21: warning: ignoring return value of 'realpath', declared with attribute warn_unused_result [-Wunused-result] adsocket.c:1260:21: warning: ignoring return value of 'realpath', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adcomm.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adcomm.c: In function 'gbcms_write_updated': adcomm.c:303:23: warning: variable 'hs' set but not used [-Wunused-but-set-variable] adcomm.c: In function 'gbcms_talking_init_transaction': adcomm.c:533:14: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] adcomm.c: In function 'gbcm_read_bin': adcomm.c:1231:27: warning: variable 'flags3' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adhash.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adquery.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adquery.c: In function 'gb_search': adquery.c:449:28: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c:455:28: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c:526:31: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c: In function 'GB_command_interpreter': adquery.c:861:19: warning: variable 'len' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c ad_save_load.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_save_load.c: In function 'gb_write_bin_rek': ad_save_load.c:799:13: warning: null argument where non-null required (argument 1) [-Wnonnull] ad_save_load.c: In function 'GB_save_as': ad_save_load.c:1079:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'GB_save_quick_as': ad_save_load.c:1126:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1148:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1173:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1184:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'GB_save_quick': ad_save_load.c:1213:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1234:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1267:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'gb_check_saveable': ad_save_load.c:1307:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1312:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adcompr.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c admalloc.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c ad_load.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_load.c: In function 'GB_login': ad_load.c:1380:34: warning: ignoring return value of 'gb_scan_directory', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c admap.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include admap.c: In function 'gb_save_mapfile': admap.c:636:9: warning: variable 'writeOffset' set but not used [-Wunused-but-set-variable] admap.c:635:10: warning: variable 'calcOffset' set but not used [-Wunused-but-set-variable] admap.c: In function 'gb_is_valid_mapfile': admap.c:722:14: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adTest.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adTest.c: In function 'testData': adTest.c:36:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adtune.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adGene.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adtcp.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adhashtools.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adExperiment.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adtools.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adtools.c: In function 'GBT_check_arb_file': adtools.c:74:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adseqcompr.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adtables.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adRevCompl.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adChangeKey.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adali.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adali.c: In function 'GBT_create_sequence_data': adali.c:597:5: warning: 'GBT_add_data' is deprecated (declared at adali.c:568) [-Wdeprecated-declarations] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adcolumns.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adtree.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c adname.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c aditem.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c arbdbpp.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB -c ad_config.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -shared -o libARBDB.so adsort.o adlang1.o adstring.o admatch.o arbdb.o ad_core.o admath.o adoptimize.o adsystem.o adindex.o adperl.o adlink.o adsocket.o adcomm.o adhash.o adquery.o ad_save_load.o adcompr.o admalloc.o ad_load.o admap.o adTest.o adtune.o adGene.o adtcp.o adhashtools.o adExperiment.o adtools.o adseqcompr.o adtables.o adRevCompl.o adChangeKey.o adali.o adcolumns.o adtree.o adname.o aditem.o arbdbpp.o ad_config.o touch libARBDB.a make[5]: Leaving directory `/build/buildd/arb-5.3/ARBDB' -------------------------------------------------------------------------------- Make everything in ARBDBS make[5]: Entering directory `/build/buildd/arb-5.3/ARBDBS' gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adsort.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adlang1.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adstring.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c admatch.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include admatch.c: In function 'GBS_string_eval': admatch.c:763:37: warning: ignoring return value of 'gbs_build_replace_string', declared with attribute warn_unused_result [-Wunused-result] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c arbdb.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include arbdb.c: In function 'GB_copy_with_protection': arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c: In function 'gb_remove_callback': arbdb.c:2239:13: warning: variable 'removed' set but not used [-Wunused-but-set-variable] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c ad_core.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_core.c: In function 'ad_use': ad_core.c:11:17: warning: parameter 'dummy' set but not used [-Wunused-but-set-parameter] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c admath.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adoptimize.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adsystem.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adsystem.c: In function 'gb_load_single_key_data': adsystem.c:141:101: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] adsystem.c:159:123: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] adsystem.c:160:123: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adindex.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adperl.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adlink.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adsocket.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adsocket.c: In function 'GB_get_full_path': adsocket.c:1256:21: warning: ignoring return value of 'realpath', declared with attribute warn_unused_result [-Wunused-result] adsocket.c:1260:21: warning: ignoring return value of 'realpath', declared with attribute warn_unused_result [-Wunused-result] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adcomm.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adcomm.c: In function 'gbcms_write_updated': adcomm.c:303:23: warning: variable 'hs' set but not used [-Wunused-but-set-variable] adcomm.c: In function 'gbcms_talking_init_transaction': adcomm.c:533:14: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] adcomm.c: In function 'gbcm_read_bin': adcomm.c:1231:27: warning: variable 'flags3' set but not used [-Wunused-but-set-variable] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adhash.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adquery.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adquery.c: In function 'gb_search': adquery.c:449:28: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c:455:28: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c:526:31: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c: In function 'GB_command_interpreter': adquery.c:861:19: warning: variable 'len' set but not used [-Wunused-but-set-variable] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c ad_save_load.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_save_load.c: In function 'gb_write_bin_rek': ad_save_load.c:799:13: warning: null argument where non-null required (argument 1) [-Wnonnull] ad_save_load.c: In function 'GB_save_as': ad_save_load.c:1079:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'GB_save_quick_as': ad_save_load.c:1126:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1148:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1173:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1184:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'GB_save_quick': ad_save_load.c:1213:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1234:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1267:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'gb_check_saveable': ad_save_load.c:1307:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1312:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adcompr.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c admalloc.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c ad_load.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_load.c: In function 'GB_login': ad_load.c:1380:34: warning: ignoring return value of 'gb_scan_directory', declared with attribute warn_unused_result [-Wunused-result] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c admap.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include admap.c: In function 'gb_save_mapfile': admap.c:636:9: warning: variable 'writeOffset' set but not used [-Wunused-but-set-variable] admap.c:635:10: warning: variable 'calcOffset' set but not used [-Wunused-but-set-variable] admap.c: In function 'gb_is_valid_mapfile': admap.c:722:14: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adTest.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adTest.c: In function 'testData': adTest.c:36:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adtune.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adGene.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adtcp.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adhashtools.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adExperiment.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adtools.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adtools.c: In function 'GBT_check_arb_file': adtools.c:74:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adseqcompr.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adtables.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adRevCompl.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adChangeKey.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adali.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adali.c: In function 'GBT_create_sequence_data': adali.c:597:5: warning: 'GBT_add_data' is deprecated (declared at adali.c:568) [-Wdeprecated-declarations] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adcolumns.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adtree.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c adname.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c aditem.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c arbdbpp.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBS -c ad_config.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o libARBDB.a adsort.o adlang1.o adstring.o admatch.o arbdb.o ad_core.o admath.o adoptimize.o adsystem.o adindex.o adperl.o adlink.o adsocket.o adcomm.o adhash.o adquery.o ad_save_load.o adcompr.o admalloc.o ad_load.o admap.o adTest.o adtune.o adGene.o adtcp.o adhashtools.o adExperiment.o adtools.o adseqcompr.o adtables.o adRevCompl.o adChangeKey.o adali.o adcolumns.o adtree.o adname.o aditem.o arbdbpp.o ad_config.o make[5]: Leaving directory `/build/buildd/arb-5.3/ARBDBS' -------------------------------------------------------------------------------- Make everything in ARBDB2 make[5]: Entering directory `/build/buildd/arb-5.3/ARBDB2' gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adsort.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adlang1.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adstring.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c admatch.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include admatch.c: In function 'GBS_string_eval': admatch.c:763:37: warning: ignoring return value of 'gbs_build_replace_string', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c arbdb.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include arbdb.c: In function 'GB_copy_with_protection': arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c:1469:13: warning: null argument where non-null required (argument 2) [-Wnonnull] arbdb.c: In function 'gb_remove_callback': arbdb.c:2239:13: warning: variable 'removed' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c ad_core.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_core.c: In function 'ad_use': ad_core.c:11:17: warning: parameter 'dummy' set but not used [-Wunused-but-set-parameter] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c admath.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adoptimize.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adsystem.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adsystem.c: In function 'gb_load_single_key_data': adsystem.c:141:101: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] adsystem.c:159:123: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] adsystem.c:160:123: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adindex.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adperl.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adlink.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adsocket.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adsocket.c: In function 'GB_get_full_path': adsocket.c:1256:21: warning: ignoring return value of 'realpath', declared with attribute warn_unused_result [-Wunused-result] adsocket.c:1260:21: warning: ignoring return value of 'realpath', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adcomm.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adcomm.c: In function 'gbcms_write_updated': adcomm.c:303:23: warning: variable 'hs' set but not used [-Wunused-but-set-variable] adcomm.c: In function 'gbcms_talking_init_transaction': adcomm.c:533:14: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] adcomm.c: In function 'gbcm_read_bin': adcomm.c:1231:27: warning: variable 'flags3' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adhash.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adquery.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adquery.c: In function 'gb_search': adquery.c:449:28: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c:455:28: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c:526:31: warning: comparison between 'GB_TYPES' and 'enum gb_search_enum' [-Wenum-compare] adquery.c: In function 'GB_command_interpreter': adquery.c:861:19: warning: variable 'len' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c ad_save_load.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_save_load.c: In function 'gb_write_bin_rek': ad_save_load.c:799:13: warning: null argument where non-null required (argument 1) [-Wnonnull] ad_save_load.c: In function 'GB_save_as': ad_save_load.c:1079:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'GB_save_quick_as': ad_save_load.c:1126:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1148:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1173:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1184:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'GB_save_quick': ad_save_load.c:1213:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1234:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1267:5: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c: In function 'gb_check_saveable': ad_save_load.c:1307:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] ad_save_load.c:1312:9: warning: 'GB_get_error' is deprecated (declared at ./ad_prot.h:43) [-Wdeprecated-declarations] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adcompr.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c admalloc.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c ad_load.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_load.c: In function 'GB_login': ad_load.c:1380:34: warning: ignoring return value of 'gb_scan_directory', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c admap.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include admap.c: In function 'gb_save_mapfile': admap.c:636:9: warning: variable 'writeOffset' set but not used [-Wunused-but-set-variable] admap.c:635:10: warning: variable 'calcOffset' set but not used [-Wunused-but-set-variable] admap.c: In function 'gb_is_valid_mapfile': admap.c:722:14: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adTest.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adTest.c: In function 'testData': adTest.c:36:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adtune.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adGene.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adtcp.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adhashtools.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adExperiment.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adtools.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adtools.c: In function 'GBT_check_arb_file': adtools.c:74:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adseqcompr.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adtables.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adRevCompl.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adChangeKey.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adali.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adali.c: In function 'GBT_create_sequence_data': adali.c:597:5: warning: 'GBT_add_data' is deprecated (declared at adali.c:568) [-Wdeprecated-declarations] gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adcolumns.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adtree.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c adname.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c aditem.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDB2 -c ad_config.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -shared -o libARBDB.so adsort.o adlang1.o adstring.o admatch.o arbdb.o ad_core.o admath.o adoptimize.o adsystem.o adindex.o adperl.o adlink.o adsocket.o adcomm.o adhash.o adquery.o ad_save_load.o adcompr.o admalloc.o ad_load.o admap.o adTest.o adtune.o adGene.o adtcp.o adhashtools.o adExperiment.o adtools.o adseqcompr.o adtables.o adRevCompl.o adChangeKey.o adali.o adcolumns.o adtree.o adname.o aditem.o ad_config.o touch libARBDB.a make[5]: Leaving directory `/build/buildd/arb-5.3/ARBDB2' -------------------------------------------------------------------------------- Make everything in ARBDBPP make[5]: Entering directory `/build/buildd/arb-5.3/ARBDBPP' g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c adtsequence.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c adt_edit.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adt_edit.cxx: In member function 'AD_ERR* ADT_SEQUENCE::show_edit_search(ADT_SEARCH*, ADT_EDIT*)': adt_edit.cxx:581:13: warning: variable 'seq_empty_var' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c adtali.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c adextended.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c adseq.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include adseq.cxx: In member function 'AD_ERR* AD_CONT::create(AD_SPECIES*, AD_ALI*)': adseq.cxx:1012:20: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] adseq.cxx:1012:84: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c adspecies.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c admain.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c adali.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARBDBPP -c liste.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -shared -o libARBDBPP.so adtsequence.o adt_edit.o adtali.o adextended.o adseq.o adspecies.o admain.o adali.o liste.o touch libARBDBPP.a make[5]: Leaving directory `/build/buildd/arb-5.3/ARBDBPP' -------------------------------------------------------------------------------- Make everything in WINDOW make[5]: Entering directory `/build/buildd/arb-5.3/WINDOW' g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_position.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_Xm.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_at.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_button.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AW_button.cxx: In function 'void AW_variable_update_callback(Widget, XtPointer, XtPointer)': AW_button.cxx:199:37: warning: variable 'found' set but not used [-Wunused-but-set-variable] AW_button.cxx: In member function 'int AW_window::get_index_of_element(AW_selection_list*, const char*)': AW_button.cxx:1617:17: warning: variable 'found_index' set but not used [-Wunused-but-set-variable] AW_button.cxx: In function 'const char* detect_bitmap_size(const char*, int*, int*)': AW_button.cxx:398:47: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] AW_button.cxx:417:51: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] AW_button.cxx:418:51: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_click.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_debug.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_device.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AW_device.cxx: In member function 'int AW_device::text_overlay(int, const char*, long int, AW_pos, AW_pos, AW_pos, AW_bitset, AW_CL, AW_CL, AW_CL, AW_pos, AW_pos, int (*)(AW_device*, int, const char*, size_t, size_t, size_t, AW_pos, AW_pos, AW_pos, AW_pos, AW_CL, AW_CL, AW_CL))': AW_device.cxx:721:22: warning: variable 'yi' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_font_group.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_global_awars.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_nawar.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AW_nawar.cxx: In member function 'AW_awar* AW_root::awar_pointer(const char*, void*, AW_default)': AW_nawar.cxx:193:111: warning: passing NULL to non-pointer argument 4 of 'AW_awar::AW_awar(AW_VARIABLE_TYPE, const char*, const char*, double, AW_default, AW_root*)' [-Wconversion-null] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_preset.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AW_preset.cxx: In function 'void* AW_manage_GC(AW_window*, AW_device*, int, int, AW_GCM_AREA, void (*)(AW_window*, AW_CL, AW_CL), AW_CL, AW_CL, bool, const char*, ...)': AW_preset.cxx:613:18: warning: variable 'flag_no_color_selector' set but not used [-Wunused-but-set-variable] AW_preset.cxx:614:18: warning: variable 'flag_append_in_same_line' set but not used [-Wunused-but-set-variable] AW_preset.cxx: In function 'bool aw_insert_gcs(AW_root*, AW_window_simple*, aw_gc_manager*, bool)': AW_preset.cxx:786:17: warning: variable 'first' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_print.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_question.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_size.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_status.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AW_status.cxx: In function 'int aw_status_read_int(int, int)': AW_status.cxx:281:19: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] AW_status.cxx: In function 'void aw_help_edit_help(AW_window*)': AW_status.cxx:1746:25: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] AW_status.cxx: In function 'void aw_status_timer_event(AW_root*, AW_CL, AW_CL)': AW_status.cxx:419:28: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_window.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AW_window.cxx: In member function 'void AW_window::insert_separator()': AW_window.cxx:3002:12: warning: variable 'separator' set but not used [-Wunused-but-set-variable] AW_window.cxx: In member function 'void AW_window::insert_separator_help()': AW_window.cxx:3011:12: warning: variable 'separator' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_xfig.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_xfigfont.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_xfont.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_xkey.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WINDOW -c AW_window_Xm_interface.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -shared -o libAW.so AW_position.o AW_Xm.o AW_at.o AW_button.o AW_click.o AW_debug.o AW_device.o AW_font_group.o AW_global_awars.o AW_nawar.o AW_preset.o AW_print.o AW_question.o AW_size.o AW_status.o AW_window.o AW_xfig.o AW_xfigfont.o AW_xfont.o AW_xkey.o AW_window_Xm_interface.o touch libAW.a make[5]: Leaving directory `/build/buildd/arb-5.3/WINDOW' -------------------------------------------------------------------------------- Make everything in AWT make[5]: Entering directory `/build/buildd/arb-5.3/AWT' g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_input_mask.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AWT_input_mask.cxx: In function 'void create_new_mask_cb(AW_window*)': AWT_input_mask.cxx:2242:18: warning: variable 'closeWindow' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_hotkeys.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_www.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_tables.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AWT_tables.cxx: In function 'void ad_table_field_reorder_cb(AW_window*, awt_table*)': AWT_tables.cxx:25:14: warning: variable 'warning' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_irstree.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_asciiprint.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_map_key.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_tree_cmp.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_seq_colors.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_pro_a_nucs.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_csp.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_canvas.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_dtree.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_tree.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_tree_cb.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_nei.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_filter.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_sel_boxes.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_canio.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AWT_canio.cxx: In function 'void AWT_print_tree_to_file_xfig(AW_window*, AW_CL)': AWT_canio.cxx:268:53: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_nds.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_query_and_functions.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_file_selection.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_preset.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_seq_dna.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_seq_protein.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_seq_simple_pro.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_codon_table.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AWT_codon_table.cxx: In function 'bool AWT_is_codon(char, const char*, const AWT_allowedCode&, AWT_allowedCode&, const char**)': AWT_codon_table.cxx:518:18: warning: variable 'correct_disallowed_translation' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_iupac.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_config_manager.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AWT_config_manager.cxx: In function 'void AWT_start_config_manager(AW_window*, AW_CL)': AWT_config_manager.cxx:119:24: warning: variable 'reopen' set but not used [-Wunused-but-set-variable] g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_advice.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_db_browser.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_attributes.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_changekey.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_item_sel_list.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_macro.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -fPIC -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWT -c AWT_translate.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -shared -o libAWT.so AWT_input_mask.o AWT_hotkeys.o AWT_www.o AWT_tables.o AWT_irstree.o AWT_asciiprint.o AWT_map_key.o AWT_tree_cmp.o AWT_seq_colors.o AWT_pro_a_nucs.o AWT_csp.o AWT_canvas.o AWT_dtree.o AWT_tree.o AWT_tree_cb.o AWT_nei.o AWT_filter.o AWT_sel_boxes.o AWT_canio.o AWT_nds.o AWT_query_and_functions.o AWT_file_selection.o AWT_preset.o AWT_seq_dna.o AWT_seq_protein.o AWT_seq_simple_pro.o AWT_codon_table.o AWT_iupac.o AWT_config_manager.o AWT_advice.o AWT_db_browser.o AWT_attributes.o AWT_changekey.o AWT_item_sel_list.o AWT_macro.o AWT_translate.o touch libAWT.a make[5]: Leaving directory `/build/buildd/arb-5.3/AWT' /usr/bin/make -C bin all make[5]: Entering directory `/build/buildd/arb-5.3/bin' find . -type l -exec rm {} \; ln -s -f `find ../SH ../PERL_SCRIPTS -perm -100 ! -type d ! -name 'config*' -print` . make[5]: Leaving directory `/build/buildd/arb-5.3/bin' -------------------------------------------------------------------------------- Make everything in GDEHELP make[5]: Entering directory `/build/buildd/arb-5.3/GDEHELP' ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/align.menu > MENUS/align.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/desoete.menu > MENUS/desoete.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/dnamlrates.menu > MENUS/dnamlrates.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/export.menu > MENUS/export.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/fastdnaml.menu > MENUS/fastdnaml.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/import.menu > MENUS/import.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/inc_fastdnaml.menu > MENUS/inc_fastdnaml.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/phylip_dist.menu > MENUS/phylip_dist.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/phylip_dist_org.menu > MENUS/phylip_dist_org.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/phylip_help.menu > MENUS/phylip_help.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/phylip_ml.menu > MENUS/phylip_ml.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/phylip_pars.menu > MENUS/phylip_pars.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/pretty_print.menu > MENUS/pretty_print.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/puzzle.menu > MENUS/puzzle.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/raxml.menu > MENUS/raxml.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/start_arb.menu > MENUS/start_arb.genmenu ( cat genmenu.header; sed -e "s/^[ ]*//" ) < MENUS/warning.menu > MENUS/warning.genmenu chmod a+w ARB_GDEmenus chmod: cannot access `ARB_GDEmenus': No such file or directory make[5]: [ARB_GDEmenus] Error 1 (ignored) cpp -IMENUS ARB_GDEmenus.source >ARB_GDEmenus chmod a-w ARB_GDEmenus grep -i '^itemhelp:' < ARB_GDEmenus | sed -e 's/^itemhelp://' | sort | uniq > helpfiles.lst make[6]: Entering directory `/build/buildd/arb-5.3/GDEHELP' ---------------------------------------------------------------- Collecting documentation for external programs used in GDE menus lynx -dump -nolist -display_charset=iso-8859-1 ../GDE/PHYLIP/doc/proml.html | sed -e 's/©/(C)/' > HELP_DOC_GEN/proml.doc test -s HELP_DOC_GEN/proml.doc || (echo HELP_DOC_GEN/proml.doc not generated or empty && rm HELP_DOC_GEN/proml.doc && false) lynx -dump -nolist -display_charset=iso-8859-1 ../GDE/PHYLIP/doc/dnapars.html | sed -e 's/©/(C)/' > HELP_DOC_GEN/dnapars.doc test -s HELP_DOC_GEN/dnapars.doc || (echo HELP_DOC_GEN/dnapars.doc not generated or empty && rm HELP_DOC_GEN/dnapars.doc && false) lynx -dump -nolist -display_charset=iso-8859-1 ../GDE/PHYLIP/doc/protpars.html | sed -e 's/©/(C)/' > HELP_DOC_GEN/protpars.doc test -s HELP_DOC_GEN/protpars.doc || (echo HELP_DOC_GEN/protpars.doc not generated or empty && rm HELP_DOC_GEN/protpars.doc && false) lynx -dump -nolist -display_charset=iso-8859-1 ../GDE/PHYML/usersguide_phyliplike.html | sed -e 's/©/(C)/' > HELP_DOC_GEN/phyml.doc test -s HELP_DOC_GEN/phyml.doc || (echo HELP_DOC_GEN/phyml.doc not generated or empty && rm HELP_DOC_GEN/phyml.doc && false) make[6]: Leaving directory `/build/buildd/arb-5.3/GDEHELP' make[5]: Leaving directory `/build/buildd/arb-5.3/GDEHELP' -------------------------------------------------------------------------------- Make everything in AISC_MKPTPS make[5]: Entering directory `/build/buildd/arb-5.3/AISC_MKPTPS' make[5]: Nothing to be done for `dummy.a'. make[5]: Leaving directory `/build/buildd/arb-5.3/AISC_MKPTPS' -------------------------------------------------------------------------------- Make everything in AISC make[5]: Entering directory `/build/buildd/arb-5.3/AISC' make[5]: Nothing to be done for `dummy.a'. make[5]: Leaving directory `/build/buildd/arb-5.3/AISC' -------------------------------------------------------------------------------- Make everything in PROBE_COM make[5]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' -------------------------------------------------------------------------------- Building prototyper /usr/bin/make AISC_MKPTPS/AISC_MKPTPS.dummy make[5]: Entering directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in AISC_MKPTPS make[6]: Entering directory `/build/buildd/arb-5.3/AISC_MKPTPS' make[6]: Nothing to be done for `AISC_MKPTPS.a'. make[6]: Leaving directory `/build/buildd/arb-5.3/AISC_MKPTPS' make[5]: Leaving directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in ARB_GDE make[5]: Entering directory `/build/buildd/arb-5.3/ARB_GDE' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARB_GDE -c GDE_ParseMenu.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARB_GDE -c GDE.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARB_GDE -c GDE_event.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include GDE_event.cxx: In function 'void GDE_export(NA_Alignment*, char*, long int)': GDE_event.cxx:305:39: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] GDE_event.cxx:305:89: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] GDE_event.cxx:369:43: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] GDE_event.cxx:369:92: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] GDE_event.cxx:428:36: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] GDE_event.cxx:428:88: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] GDE_event.cxx: In function 'void GDE_startaction_cb(AW_window*, GmenuItem*, AW_CL)': GDE_event.cxx:557:23: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARB_GDE -c GDE_arbdb_io.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARB_GDE -c GDE_HGLfile.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include GDE_HGLfile.cxx: In function 'void StripSpecial(char*)': GDE_HGLfile.cxx:69:9: warning: variable 'i' set but not used [-Wunused-but-set-variable] GDE_HGLfile.cxx: In function 'void ReadGDE(char*, NA_Alignment*, int)': GDE_HGLfile.cxx:199:26: warning: variable 'count' set but not used [-Wunused-but-set-variable] GDE_HGLfile.cxx:200:35: warning: variable 'c' set but not used [-Wunused-but-set-variable] GDE_HGLfile.cxx:203:18: warning: variable 'genclen' set but not used [-Wunused-but-set-variable] GDE_HGLfile.cxx:195:6: warning: parameter 'type' set but not used [-Wunused-but-set-parameter] In file included from /usr/include/string.h:642:0, from GDE_HGLfile.cxx:5: In function 'char* strncpy(char*, const char*, size_t)', inlined from 'void ReadGDE(char*, NA_Alignment*, int)' at GDE_HGLfile.cxx:497:64: /usr/include/x86_64-linux-gnu/bits/string3.h:121:71: warning: call to char* __builtin___strncpy_chk(char*, const char*, long unsigned int, long unsigned int) will always overflow destination buffer [enabled by default] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARB_GDE -c GDE_Genbank.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include GDE_Genbank.cxx: In function 'void ReadGen(char*, NA_Alignment*, int)': GDE_Genbank.cxx:94:13: warning: variable 'count' set but not used [-Wunused-but-set-variable] GDE_Genbank.cxx:89:6: warning: parameter 'type' set but not used [-Wunused-but-set-parameter] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ARB_GDE -c GDE_FileIO.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include GDE_FileIO.cxx: In function 'void ReadNA_Flat(char*, char*, int)': GDE_FileIO.cxx:125:9: warning: variable 'i' set but not used [-Wunused-but-set-variable] GDE_FileIO.cxx:125:16: warning: variable 'c' set but not used [-Wunused-but-set-variable] GDE_FileIO.cxx:128:10: warning: variable 'curname' set but not used [-Wunused-but-set-variable] GDE_FileIO.cxx:122:13: warning: parameter 'type' set but not used [-Wunused-but-set-parameter] GDE_FileIO.cxx: In function 'void AppendNA(NA_Base*, int, NA_Sequence*)': GDE_FileIO.cxx:422:14: warning: variable 'temp' set but not used [-Wunused-but-set-variable] GDE_FileIO.cxx: In function 'void ReadCMask(const char*)': GDE_FileIO.cxx:710:24: warning: variable 'orig_ctype' set but not used [-Wunused-but-set-variable] GDE_FileIO.cxx: In function 'int WriteStatus(NA_Alignment*, char*, int)': GDE_FileIO.cxx:860:5: warning: parameter 'method' set but not used [-Wunused-but-set-parameter] GDE_FileIO.cxx: In function 'void ReadStatus(char*)': GDE_FileIO.cxx:927:6: warning: parameter 'filename' set but not used [-Wunused-but-set-parameter] GDE_FileIO.cxx: In function 'void NormalizeOffset(NA_Alignment*)': GDE_FileIO.cxx:962:9: warning: variable 'i' set but not used [-Wunused-but-set-variable] GDE_FileIO.cxx: In function 'void ReadCMask(const char*)': GDE_FileIO.cxx:837:48: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] ld -rpath=/usr/lib/arb/lib -r -o ARB_GDE.a GDE_ParseMenu.o GDE.o GDE_event.o GDE_arbdb_io.o GDE_HGLfile.o GDE_Genbank.o GDE_FileIO.o make[5]: Leaving directory `/build/buildd/arb-5.3/ARB_GDE' -------------------------------------------------------------------------------- Make everything in NAMES_COM make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' -------------------------------------------------------------------------------- Make everything in PROBE_COM make[5]: Entering directory `/build/buildd/arb-5.3/PROBE_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/PROBE_COM' -------------------------------------------------------------------------------- Make everything in AWTC make[5]: Entering directory `/build/buildd/arb-5.3/AWTC' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWTC -c AWTC_constructSequence.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AWTC_constructSequence.cxx: In function 'char* AWTC_constructSequence(int, const char**, int, char**)': AWTC_constructSequence.cxx:507:11: warning: unused variable 'resultSeq' [-Wunused-variable] AWTC_constructSequence.cxx:509:9: warning: unused variable 'off' [-Wunused-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWTC -c AWTC_next_neighbours.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWTC -c AWTC_seq_search.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWTC -c AWTC_submission.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o AWTC.a AWTC_constructSequence.o AWTC_next_neighbours.o AWTC_seq_search.o AWTC_submission.o make[5]: Leaving directory `/build/buildd/arb-5.3/AWTC' -------------------------------------------------------------------------------- Make everything in AWTI make[5]: Entering directory `/build/buildd/arb-5.3/AWTI' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWTI -c AWTI_import.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_AWTI -c AWTI_export.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o AWTI.a AWTI_import.o AWTI_export.o make[5]: Leaving directory `/build/buildd/arb-5.3/AWTI' -------------------------------------------------------------------------------- Make everything in GENOM make[5]: Entering directory `/build/buildd/arb-5.3/GENOM' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c GEN_interface.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c GEN_map.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include GEN_map.cxx: In function 'void gen_extract_gene_2_pseudoSpecies(GBDATA*, GBDATA*, EG2PS_data*)': GEN_map.cxx:882:39: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] GEN_map.cxx:882:93: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c GEN_graphic.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include GEN_graphic.cxx:158:12: warning: unused parameter 'selected_range' [-Wunused-parameter] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c GEN_gene.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c GEN_nds.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include GEN_nds.cxx:307:2: warning: #warning make this function more general like AWT_popup_select_species_field_window [-Wcpp] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c GEN_color_groups.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c GEN_translations.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c EXP_interface.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM -c EXP_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o GENOM.a GEN_interface.o GEN_map.o GEN_graphic.o GEN_gene.o GEN_nds.o GEN_color_groups.o GEN_translations.o EXP_interface.o EXP_main.o make[5]: Leaving directory `/build/buildd/arb-5.3/GENOM' -------------------------------------------------------------------------------- Make everything in GENOM_IMPORT make[5]: Entering directory `/build/buildd/arb-5.3/GENOM_IMPORT' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c GenomeImport.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c Importer.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c DBwriter.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include DBwriter.cxx: In member function 'void DBwriter::writeSequence(const SequenceBuffer&)': DBwriter.cxx:226:23: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] DBwriter.cxx:226:76: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c SequenceBuffer.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include SequenceBuffer.cxx: In member function 'void BaseCounter::checkOverallCounter() const': SequenceBuffer.cxx:55:67: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'size_t {aka long unsigned int}' [-Wformat] SequenceBuffer.cxx:55:67: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'size_t {aka long unsigned int}' [-Wformat] SequenceBuffer.cxx: In member function 'void BaseCounter::expectEqual(const BaseCounter&) const': SequenceBuffer.cxx:116:114: warning: format '%u' expects argument of type 'unsigned int', but argument 2 has type 'size_t {aka long unsigned int}' [-Wformat] SequenceBuffer.cxx:116:114: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'size_t {aka long unsigned int}' [-Wformat] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c MetaInfo.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c Feature.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c Location.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_GENOM_IMPORT -c tools.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include -------------------- Checking GENOM_IMPORT.a Target 'GENOM_IMPORT.a' not found -> rebuilding GENOM_IMPORT.a (Wed Dec 31 23:59:59 1969) ld -rpath=/usr/lib/arb/lib -r -o GENOM_IMPORT.a GenomeImport.o Importer.o DBwriter.o SequenceBuffer.o MetaInfo.o Feature.o Location.o tools.o make[5]: Leaving directory `/build/buildd/arb-5.3/GENOM_IMPORT' -------------------------------------------------------------------------------- Make everything in MERGE make[5]: Entering directory `/build/buildd/arb-5.3/MERGE' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_checkfield.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_trees.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_alignment.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_species.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_extendeds.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_names.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_gene_species.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_configs.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MERGE -c MG_preserves.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o MERGE.a MG_checkfield.o MG_main.o MG_trees.o MG_alignment.o MG_species.o MG_extendeds.o MG_names.o MG_gene_species.o MG_configs.o MG_preserves.o make[5]: Leaving directory `/build/buildd/arb-5.3/MERGE' -------------------------------------------------------------------------------- Make everything in MULTI_PROBE make[5]: Entering directory `/build/buildd/arb-5.3/MULTI_PROBE' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_Window.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_noclass.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_sonde.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_sondentopf.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include MP_sondentopf.cxx: In member function 'Sonde* ST_Container::cache_Sonde(char*, int, double)': MP_sondentopf.cxx:67:13: warning: variable 'hashreturnval' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_mo_liste.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include MP_mo_liste.cxx: In member function 'long int MO_Liste::put_entry(const char*)': MP_mo_liste.cxx:184:13: warning: variable 'hashreturnval' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_probe.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include MP_probe.cxx: In member function 'void ProbeValuation::init_valuation()': MP_probe.cxx:178:22: warning: variable 'stc' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_GenerationDuplicates.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_Generation.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_probe_combi_statistic.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_probe_tabs.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_MULTI_PROBE -c MP_permute.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o MULTI_PROBE.a MP_main.o MP_Window.o MP_noclass.o MP_sonde.o MP_sondentopf.o MP_mo_liste.o MP_probe.o MP_GenerationDuplicates.o MP_Generation.o MP_probe_combi_statistic.o MP_probe_tabs.o MP_permute.o make[5]: Leaving directory `/build/buildd/arb-5.3/MULTI_PROBE' -------------------------------------------------------------------------------- Make everything in NTREE make[5]: Entering directory `/build/buildd/arb-5.3/NTREE' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c AP_consensus.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AP_consensus.cxx: In function 'const char* CON_export(char*, char*, int**, char*, int*, char*, int, long int, long int, int, int, int, double, double, int, int)': AP_consensus.cxx:409:23: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:409:72: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:411:25: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:411:75: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:465:28: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:465:80: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx: In function 'void CON_calc_max_freq_cb(AW_window*)': AP_consensus.cxx:962:27: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:962:76: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:963:27: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:963:76: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:966:27: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_consensus.cxx:966:77: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c AP_conservProfile2Gnuplot.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AP_conservProfile2Gnuplot.cxx: In function 'void AP_conservProfile2Gnuplot_callback(AW_window*)': AP_conservProfile2Gnuplot.cxx:58:42: warning: ignoring return value of 'const char* GB_xcmd(const char*, GB_BOOL, GB_BOOL)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c AP_cprofile.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AP_cprofile.cxx: In function 'void CPRO_workupstatistic(unsigned char)': AP_cprofile.cxx:234:17: warning: variable 'colmax' set but not used [-Wunused-but-set-variable] AP_cprofile.cxx: In function 'void CPRO_memrequirement_cb(AW_root*)': AP_cprofile.cxx:663:10: warning: variable 'versus' set but not used [-Wunused-but-set-variable] AP_cprofile.cxx: In function 'void CPRO_condense_cb(AW_window*, AW_CL)': AP_cprofile.cxx:1420:14: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_cprofile.cxx:1420:62: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_cprofile.cxx:1423:23: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] AP_cprofile.cxx:1423:72: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c AP_csp_2_gnuplot.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include AP_csp_2_gnuplot.cxx: In function 'char* get_overlay_files(AW_root*, const char*, const char*&)': AP_csp_2_gnuplot.cxx:92:50: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] AP_csp_2_gnuplot.cxx:92:63: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] AP_csp_2_gnuplot.cxx:100:55: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] AP_csp_2_gnuplot.cxx:100:68: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] AP_csp_2_gnuplot.cxx: In function 'void AP_csp_2_gnuplot_cb(AW_window*, AW_CL, AW_CL)': AP_csp_2_gnuplot.cxx:388:62: warning: ignoring return value of 'const char* GB_xcmd(const char*, GB_BOOL, GB_BOOL)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c AP_pos_var_pars.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_cb.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include NT_cb.cxx: In function 'void NT_system_cb2(AW_window*, AW_CL, AW_CL)': NT_cb.cxx:128:35: warning: ignoring return value of 'const char* GB_xcmd(const char*, GB_BOOL, GB_BOOL)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_concatenate.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include NT_concatenate.cxx: In function 'const char* displayAlignmentInfo(GBDATA*, GB_ERROR, char*, char*)': NT_concatenate.cxx:310:37: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] NT_concatenate.cxx:310:93: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] NT_concatenate.cxx: In function 'void concatenateAlignments(AW_window*)': NT_concatenate.cxx:415:39: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] NT_concatenate.cxx:415:95: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] NT_concatenate.cxx: In function 'GBDATA* concatenateFieldsCreateNewSpecies(AW_window*, GBDATA*, speciesConcatenateList)': NT_concatenate.cxx:664:39: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] NT_concatenate.cxx:664:114: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_dbrepair.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_edconf.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_extern.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_import.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include NT_import.cxx: In function 'void NT_import_sequences(AW_window*, AW_CL, AW_CL)': NT_import.cxx:52:30: warning: variable 'gb_merge_is_genom_db' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_ins_col.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_join.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include NT_main.cxx: In function 'int main(int, char**)': NT_main.cxx:399:50: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_sort.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_trackAliChanges.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_validManual.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_validNameParser.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include NT_validNameParser.cxx: In function 'validNames::Desco validNames::determineType(const string&)': NT_validNameParser.cxx:89:14: warning: variable 'isSee' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c NT_validNames.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c ad_ali.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c ad_ext.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c ad_spec.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_spec.cxx: In function 'void ad_field_convert_commit_cb(AW_window*, AW_CL)': ad_spec.cxx:729:29: warning: unused variable 'selector' [-Wunused-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c ad_transpro.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_transpro.cxx: In function 'const char* arb_r2a(GBDATA*, bool, bool, int, bool, const char*, const char*)': ad_transpro.cxx:159:48: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] ad_transpro.cxx:159:100: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_NTREE -c ad_trees.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ad_trees.cxx: In function 'char* readXmlTree(char*)': ad_trees.cxx:418:44: warning: ignoring return value of 'const char* GB_xcmd(const char*, GB_BOOL, GB_BOOL)', declared with attribute warn_unused_result [-Wunused-result] ad_trees.cxx:422:44: warning: ignoring return value of 'const char* GB_xcmd(const char*, GB_BOOL, GB_BOOL)', declared with attribute warn_unused_result [-Wunused-result] -------------------- Checking NTREE.a Target 'NTREE.a' not found -> rebuilding NTREE.a (Wed Dec 31 23:59:59 1969) ld -rpath=/usr/lib/arb/lib -r -o NTREE.a AP_consensus.o AP_conservProfile2Gnuplot.o AP_cprofile.o AP_csp_2_gnuplot.o AP_pos_var_pars.o NT_cb.o NT_concatenate.o NT_dbrepair.o NT_edconf.o NT_extern.o NT_import.o NT_ins_col.o NT_join.o NT_main.o NT_sort.o NT_trackAliChanges.o NT_validManual.o NT_validNameParser.o NT_validNames.o ad_ali.o ad_ext.o ad_spec.o ad_transpro.o ad_trees.o make[5]: Leaving directory `/build/buildd/arb-5.3/NTREE' -------------------------------------------------------------------------------- Make everything in PRIMER_DESIGN make[5]: Entering directory `/build/buildd/arb-5.3/PRIMER_DESIGN' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c PRD_Pair.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c PRD_Item.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c PRD_Node.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include PRD_Node.cxx: In member function 'void Node::print()': PRD_Node.cxx:64:28: warning: array subscript is above array bounds [-Warray-bounds] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c PRD_Range.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c PRD_SequenceIterator.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c PRD_SearchFIFO.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c PRD_Design.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PRIMER_DESIGN -c primer_design.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o PRIMER_DESIGN.a PRD_Pair.o PRD_Item.o PRD_Node.o PRD_Range.o PRD_SequenceIterator.o PRD_SearchFIFO.o PRD_Design.o primer_design.o make[5]: Leaving directory `/build/buildd/arb-5.3/PRIMER_DESIGN' -------------------------------------------------------------------------------- Make everything in PROBE_DESIGN make[5]: Entering directory `/build/buildd/arb-5.3/PROBE_DESIGN' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_DESIGN -c -o probe_design.o probe_design.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include probe_design.cxx: In function 'const char* pd_get_the_gene_names(bytestring&, bytestring&)': probe_design.cxx:293:21: warning: variable 'sequence' set but not used [-Wunused-but-set-variable] probe_design.cxx: In function 'void pd_query_pt_server(AW_window*)': probe_design.cxx:1769:35: warning: ignoring return value of 'const char* GB_xcmd(const char*, GB_BOOL, GB_BOOL)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_DESIGN -c -o SaiProbeVisualization.o SaiProbeVisualization.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_DESIGN -c -o probe_match_parser.o probe_match_parser.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o PROBE_DESIGN.a probe_design.o SaiProbeVisualization.o probe_match_parser.o make[5]: Leaving directory `/build/buildd/arb-5.3/PROBE_DESIGN' -------------------------------------------------------------------------------- Make everything in SEQ_QUALITY make[5]: Entering directory `/build/buildd/arb-5.3/SEQ_QUALITY' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SEQ_QUALITY -c SQ_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SEQ_QUALITY -c SQ_functions.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include SQ_functions.cxx: In function 'const char* SQ_reset_quality_calcstate(GBDATA*)': SQ_functions.cxx:82:21: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:82:34: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:92:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:92:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx: In function 'int SQ_get_value(GBDATA*, const char*)': SQ_functions.cxx:131:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'int SQ_get_value_no_tree(GBDATA*, const char*)': SQ_functions.cxx:171:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'const char* SQ_evaluate(GBDATA*, const SQ_weights&, bool)': SQ_functions.cxx:239:21: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:239:34: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:216:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'const char* SQ_pass1(SQ_GroupData*, GBDATA*, GBT_TREE*, AP_filter*)': SQ_functions.cxx:450:17: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:450:30: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:461:25: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:461:38: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:469:25: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:469:38: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:439:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'const char* SQ_pass1_no_tree(SQ_GroupData*, GBDATA*, AP_filter*)': SQ_functions.cxx:554:21: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:554:34: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:564:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:564:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:572:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:572:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:534:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'const char* SQ_pass2(const SQ_GroupData*, GBDATA*, GBT_TREE*, AP_filter*)': SQ_functions.cxx:649:17: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:649:30: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:659:25: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:659:38: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:664:25: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:664:38: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:733:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:733:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:737:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:737:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:638:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'const char* SQ_pass2_no_tree(const SQ_GroupData*, GBDATA*, AP_filter*)': SQ_functions.cxx:889:21: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:889:34: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:898:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:898:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:903:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:903:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:972:33: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:972:46: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:976:33: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:976:46: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:871:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'const char* SQ_count_nr_of_species(GBDATA*)': SQ_functions.cxx:1120:21: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:1120:34: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:1130:29: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:1130:42: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] SQ_functions.cxx:1102:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] SQ_functions.cxx: In function 'const char* SQ_mark_species(GBDATA*, int, bool)': SQ_functions.cxx:1239:13: warning: variable 'gb_species_data' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SEQ_QUALITY -c SQ_GroupData.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o SEQ_QUALITY.a SQ_main.o SQ_functions.o SQ_GroupData.o make[5]: Leaving directory `/build/buildd/arb-5.3/SEQ_QUALITY' -------------------------------------------------------------------------------- Make everything in SERVERCNTRL make[5]: Entering directory `/build/buildd/arb-5.3/SERVERCNTRL' gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SERVERCNTRL -c servercntrl.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include servercntrl.c: In function 'arb_look_and_start_server': servercntrl.c:202:35: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] servercntrl.c: In function 'arb_start_server': servercntrl.c:145:68: warning: ignoring return value of 'system', declared with attribute warn_unused_result [-Wunused-result] ld -rpath=/usr/lib/arb/lib -r -o SERVERCNTRL.a servercntrl.o make[5]: Leaving directory `/build/buildd/arb-5.3/SERVERCNTRL' -------------------------------------------------------------------------------- Make everything in SL/AW_NAME make[5]: Entering directory `/build/buildd/arb-5.3/SL/AW_NAME' make[5]: `AW_NAME.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/AW_NAME' -------------------------------------------------------------------------------- Make everything in SL/DB_SCANNER make[5]: Entering directory `/build/buildd/arb-5.3/SL/DB_SCANNER' make[5]: `DB_SCANNER.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/DB_SCANNER' -------------------------------------------------------------------------------- Make everything in SL/FILE_BUFFER make[5]: Entering directory `/build/buildd/arb-5.3/SL/FILE_BUFFER' make[5]: `FILE_BUFFER.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/FILE_BUFFER' -------------------------------------------------------------------------------- Make everything in SL/HELIX make[5]: Entering directory `/build/buildd/arb-5.3/SL/HELIX' make[5]: `HELIX.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/HELIX' -------------------------------------------------------------------------------- Make everything in SL/REGEXPR make[5]: Entering directory `/build/buildd/arb-5.3/SL/REGEXPR' make[5]: `REGEXPR.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/REGEXPR' -------------------------------------------------------------------------------- Make everything in SL/TREE_READ make[5]: Entering directory `/build/buildd/arb-5.3/SL/TREE_READ' make[5]: `TREE_READ.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/TREE_READ' -------------------------------------------------------------------------------- Make everything in SL/TREE_WRITE make[5]: Entering directory `/build/buildd/arb-5.3/SL/TREE_WRITE' make[5]: `TREE_WRITE.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/TREE_WRITE' -------------------------------------------------------------------------------- Make everything in STAT make[5]: Entering directory `/build/buildd/arb-5.3/STAT' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_STAT -c ST_quality.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ST_quality.cxx: In function 'void st_ml_add_quality_string_to_species(GBDATA*, const char*, const char*, int, int, GB_HASH*, st_report_enum, const char*)': ST_quality.cxx:168:33: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] ST_quality.cxx:168:94: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_STAT -c ST_ml.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ST_ml.cxx: In member function 'ST_ML_Color* ST_ML::get_color_string(char*, AP_tree*, int, int)': ST_ml.cxx:820:9: warning: variable 'source_sequence_len' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_STAT -c ST_window.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o STAT.a ST_quality.o ST_ml.o ST_window.o make[5]: Leaving directory `/build/buildd/arb-5.3/STAT' -------------------------------------------------------------------------------- Make everything in XML make[5]: Entering directory `/build/buildd/arb-5.3/XML' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_XML -c xml.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include xml.cxx:40:15: warning: unused parameter 'quotedText' [-Wunused-parameter] ld -rpath=/usr/lib/arb/lib -r -o XML.a xml.o make[5]: Leaving directory `/build/buildd/arb-5.3/XML' -------------------------------------------------------------------------------- Make everything in NAMES_COM make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' -------------------- Updating shared libraries /usr/bin/make libs make[5]: Entering directory `/build/buildd/arb-5.3' cp LIBLINK/libARBDB.so lib/libARBDB.so cp LIBLINK/libARBDBPP.so lib/libARBDBPP.so cp LIBLINK/libARBDO.so lib/libARBDO.so cp LIBLINK/libAW.so lib/libAW.so cp LIBLINK/libAWT.so lib/libAWT.so make[5]: Leaving directory `/build/buildd/arb-5.3' -------------------- Checking bin/arb_ntree Target 'bin/arb_ntree' not found -> rebuilding bin/arb_ntree (Wed Dec 31 23:59:59 1969) Link bin/arb_ntree g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o bin/arb_ntree -L/build/buildd/arb-5.3/LIBLINK PROBE_COM/client.a ARB_GDE/ARB_GDE.a AWTC/AWTC.a AWTI/AWTI.a GENOM/GENOM.a GENOM_IMPORT/GENOM_IMPORT.a MERGE/MERGE.a MULTI_PROBE/MULTI_PROBE.a NTREE/NTREE.a PRIMER_DESIGN/PRIMER_DESIGN.a PROBE_DESIGN/PROBE_DESIGN.a SEQ_QUALITY/SEQ_QUALITY.a SERVERCNTRL/SERVERCNTRL.a SL/AW_NAME/AW_NAME.a SL/DB_SCANNER/DB_SCANNER.a SL/FILE_BUFFER/FILE_BUFFER.a SL/HELIX/HELIX.a SL/REGEXPR/REGEXPR.a SL/TREE_READ/TREE_READ.a SL/TREE_WRITE/TREE_WRITE.a STAT/STAT.a XML/XML.a -lARBDB -lm -lAW -lAWT -L/usr/lib64 -lXm -lXpm -lXt -lXext -lX11 -------------------------------------------------------------------------------- Make everything in NAMES_COM make[5]: Entering directory `/build/buildd/arb-5.3/NAMES_COM' make[5]: `server.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/NAMES_COM' -------------------------------------------------------------------------------- Make everything in PARSIMONY make[5]: Entering directory `/build/buildd/arb-5.3/PARSIMONY' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c PARS_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c PARS_dtree.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c PARS_debug.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c PARS_klprops.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c AP_buffer.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c AP_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c AP_tree_nlen.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PARSIMONY -c AP_tree_edge.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o PARSIMONY.a PARS_main.o PARS_dtree.o PARS_debug.o PARS_klprops.o AP_buffer.o AP_main.o AP_tree_nlen.o AP_tree_edge.o make[5]: Leaving directory `/build/buildd/arb-5.3/PARSIMONY' -------------------- Checking bin/arb_pars Target 'bin/arb_pars' not found -> rebuilding bin/arb_pars (Wed Dec 31 23:59:59 1969) Link bin/arb_pars g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o bin/arb_pars -L/build/buildd/arb-5.3/LIBLINK NAMES_COM/client.a SERVERCNTRL/SERVERCNTRL.a PARSIMONY/PARSIMONY.a SL/HELIX/HELIX.a SL/AW_NAME/AW_NAME.a XML/XML.a -lARBDB -lm -lAW -lAWT -L/usr/lib64 -lXm -lXpm -lXt -lXext -lX11 -------------------------------------------------------------------------------- Make everything in EDIT make[5]: Entering directory `/build/buildd/arb-5.3/EDIT' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT -c edit.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT -c edit_naligner.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include edit_naligner.cxx: In function 'void aed_start_naligning(AW_window*)': edit_naligner.cxx:102:19: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT -c edit_tools.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT -c ed_conf.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o EDIT.a edit.o edit_naligner.o edit_tools.o ed_conf.o make[5]: Leaving directory `/build/buildd/arb-5.3/EDIT' -------------------------------------------------------------------------------- Make everything in SL/AW_HELIX make[5]: Entering directory `/build/buildd/arb-5.3/SL/AW_HELIX' make[5]: `AW_HELIX.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/AW_HELIX' -------------------- Checking bin/arb_edit Target 'bin/arb_edit' not found -> rebuilding bin/arb_edit (Wed Dec 31 23:59:59 1969) Link bin/arb_edit g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o bin/arb_edit -L/build/buildd/arb-5.3/LIBLINK NAMES_COM/client.a SERVERCNTRL/SERVERCNTRL.a EDIT/EDIT.a ARB_GDE/ARB_GDE.a STAT/STAT.a XML/XML.a SL/HELIX/HELIX.a SL/AW_HELIX/AW_HELIX.a SL/AW_NAME/AW_NAME.a -lARBDBPP -lARBDB -lm -lAW -lAWT -L/usr/lib64 -lXm -lXpm -lXt -lXext -lX11 -------------------------------------------------------------------------------- Make everything in WETC make[5]: Entering directory `/build/buildd/arb-5.3/WETC' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_WETC -c -o WETC_main.o WETC_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o WETC.a WETC_main.o make[5]: Leaving directory `/build/buildd/arb-5.3/WETC' -------------------- Checking bin/arb_wetc Target 'bin/arb_wetc' not found -> rebuilding bin/arb_wetc (Wed Dec 31 23:59:59 1969) Link bin/arb_wetc g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o bin/arb_wetc -L/build/buildd/arb-5.3/LIBLINK WETC/WETC.a SL/HELIX/HELIX.a XML/XML.a -lARBDB -lm -lAW -lAWT -L/usr/lib64 -lXm -lXpm -lXt -lXext -lX11 -------------------------------------------------------------------------------- Make everything in HELP_SOURCE make[5]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' /usr/bin/make date.xsl.tmp make[6]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' cat date.xsl.header >date.xsl.tmp bash -c "(export LC_ALL=C;date '+%d. %b %Y')" >>date.xsl.tmp cat date.xsl.footer >>date.xsl.tmp make[6]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' ../SOURCE_TOOLS/mv_if_diff date.xsl.tmp date.xsl date.xsl created. --------------------------------------------------- ------------ Generating some help files: (cd genhelp;/usr/bin/make all) make[6]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE/genhelp' Updating copyright.hlp from /build/buildd/arb-5.3/arb_LICENSE.txt Updating changes.hlp from /build/buildd/arb-5.3/arb_CHANGES.txt Updating agde_raxml.hlp from /build/buildd/arb-5.3/GDEHELP/HELP_WRITTEN/raxml.help Updating GDE overview agde.hlp make[6]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE/genhelp' mkdir -p Xml mkdir -p Xml/prompt mkdir -p ../lib/help_html mkdir -p ../lib/help_html/prompt mkdir -p ../lib/help mkdir -p ../lib/help/prompt g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_HELP_SOURCE -c arb_help2xml.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/bin/arb_help2xml arb_help2xml.o ../XML/XML.a -L/build/buildd/arb-5.3/LIBLINK -lARBDB cp -p oldhelp/consensus.ps.gz ../lib/help/consensus.ps.gz cp -p oldhelp/pos_variability.ps.gz ../lib/help/pos_variability.ps.gz cp -p oldhelp/arb.pdf.gz ../lib/help/arb.pdf.gz cp -p oldhelp/rna3d_manual.pdf.gz ../lib/help/rna3d_manual.pdf.gz if [ -d ../lib/help_html ] ; then find ../lib/help_html -name "*.html" -size -1 -exec rm {} \; ; fi --------------------------------------------------- [old hlp 2 xml] time /usr/bin/make xml make[6]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' touch xml.stamp oldhelp/arb_import.hlp:58: Warning: Dead link to 'agde_readseq.hlp' oldhelp/arb_import.hlp:58: Warning: Dead link to 'agde_readseq.hlp' oldhelp/gde.hlp:6: Warning: Dead link to 'ale.hlp' oldhelp/treeadm.hlp:6: Warning: Dead link to 'tr_export.hlp' ./generate_index.pl help_index.xml Xml > Xml/help_index.xml make[6]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' 3.80user 2.24system 0:07.62elapsed 79%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+3192outputs (0major+651622minor)pagefaults 0swaps --------------------------------------------------- [xml 2 hlp] time /usr/bin/make help make[6]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' make[6]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' 2.31user 1.37system 0:04.43elapsed 83%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+2736outputs (0major+361983minor)pagefaults 0swaps /usr/bin/make ../lib/help/FORM.hlp make[6]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' cp -p oldhelp/FORM.hlp ../lib/help/FORM.hlp make[6]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' --------------------------------------------------- [xml 2 html] time /usr/bin/make html make[6]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' cp -p Logo_25wht.gif ../lib/help_html/Logo_25wht.gif make[6]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' 2.18user 1.53system 0:04.56elapsed 81%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+4400outputs (0major+401277minor)pagefaults 0swaps make[5]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' -------------------------------------------------------------------------------- Make everything in READSEQ make[5]: Entering directory `/build/buildd/arb-5.3/READSEQ' Do not compile readseq. Instead use the Debian package. make[5]: Leaving directory `/build/buildd/arb-5.3/READSEQ' -------------------------------------------------------------------------------- Make everything in EDIT4 make[5]: Entering directory `/build/buildd/arb-5.3/EDIT4' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_protein_2nd_structure.o ED4_protein_2nd_structure.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_ProteinViewer.o ED4_ProteinViewer.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_ProteinViewer.cxx: In function 'void PV_WriteTranslatedSequenceToDB(ED4_AA_sequence_terminal*, char*)': ED4_ProteinViewer.cxx:498:44: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] ED4_ProteinViewer.cxx:498:102: warning: 'GBDATA* GBT_add_data(GBDATA*, const char*, const char*, GB_TYPES)' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_t_prot.h:108) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_search.o ED4_search.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_search.cxx: In function 'void load_search_paras_from_file(AW_window*, AW_CL)': ED4_search.cxx:1616:38: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_cursor.o ED4_cursor.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_dump.o ED4_dump.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_nds.o ED4_nds.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_secedit.o ED4_secedit.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_RNA3D.o ED4_RNA3D.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_main.o ED4_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_mini_classes.o ED4_mini_classes.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_mini_classes.cxx: In function 'void ED4_consensus_display_changed(AW_root*, AW_CL, AW_CL)': ED4_mini_classes.cxx:447:60: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_edit_string.o ED4_edit_string.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_base.o ED4_base.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_manager.o ED4_manager.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_manager.cxx: In member function 'virtual ED4_returncode ED4_manager::handle_move(ED4_move_info*)': ED4_manager.cxx:512:26: warning: variable 'level' set but not used [-Wunused-but-set-variable] ED4_manager.cxx: In member function 'virtual ED4_returncode ED4_main_manager::resize_requested_by_parent()': ED4_manager.cxx:952:20: warning: variable 'result' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_terminal.o ED4_terminal.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_terminal.cxx:164:2: warning: #warning temporary workaround - gb_type GB_INT and GB_FLOAT in the switch directive must not be displayed but ignored [-Wcpp] ED4_terminal.cxx:1422:2: warning: #warning test drawing of ED4_columnStat_terminal [-Wcpp] ED4_terminal.cxx: In member function 'virtual ED4_returncode ED4_terminal::draw_drag_box(AW_pos, AW_pos, GB_CSTR, int)': ED4_terminal.cxx:408:21: warning: variable 'width' set but not used [-Wunused-but-set-variable] ED4_terminal.cxx:408:28: warning: variable 'height' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_root.o ED4_root.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o EDB_root_bact.o EDB_root_bact.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_window.o ED4_window.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_members.o ED4_members.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_no_class.o ED4_no_class.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_no_class.cxx: In function 'ED4_returncode call_edit(void**, void**, ED4_base*)': ED4_no_class.cxx:177:17: warning: variable 'gb_type' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_list.o ED4_list.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_text_terminals.o ED4_text_terminals.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_tools.o ED4_tools.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_block.o ED4_block.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_block.cxx: In function 'void ED4_with_whole_block(ED4_blockoperation, int)': ED4_block.cxx:179:28: warning: variable 'err_term' set but not used [-Wunused-but-set-variable] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_visualizeSAI.o ED4_visualizeSAI.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o edit_naligner.o edit_naligner.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include edit_naligner.cxx: In function 'void aed_start_naligning(AW_window*)': edit_naligner.cxx:102:19: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o graph_aligner_gui.o graph_aligner_gui.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_EDIT4 -c -o ED4_dots.o ED4_dots.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ED4_dots.cxx: In function 'void dot_missing_bases(AW_window*)': ED4_dots.cxx:181:25: warning: 'sai_len' may be used uninitialized in this function [-Wuninitialized] ld -rpath=/usr/lib/arb/lib -r -o EDIT4.a ED4_protein_2nd_structure.o ED4_ProteinViewer.o ED4_search.o ED4_cursor.o ED4_dump.o ED4_nds.o ED4_secedit.o ED4_RNA3D.o ED4_main.o ED4_mini_classes.o ED4_edit_string.o ED4_base.o ED4_manager.o ED4_terminal.o ED4_root.o EDB_root_bact.o ED4_window.o ED4_members.o ED4_no_class.o ED4_list.o ED4_text_terminals.o ED4_tools.o ED4_block.o ED4_visualizeSAI.o edit_naligner.o graph_aligner_gui.o ED4_dots.o make[5]: Leaving directory `/build/buildd/arb-5.3/EDIT4' -------------------------------------------------------------------------------- Make everything in SECEDIT make[5]: Entering directory `/build/buildd/arb-5.3/SECEDIT' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_toggle.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_bonddef.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_db.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include SEC_db.cxx:328:2: warning: #warning @@@reread alilen [-Wcpp] SEC_db.cxx:329:2: warning: #warning test changing ali length! [-Wcpp] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_helix.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_graphic.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_structure.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_read.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_io.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_paint.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include SEC_paint.cxx:368:2: warning: #warning move to SEC_db_interface [-Wcpp] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_layout.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_split.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_abspos.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_SECEDIT -c SEC_main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include SEC_main.cxx:88:2: warning: #warning make the refresh invisible [-Wcpp] SEC_main.cxx:702:13: warning: unused parameter 'gb_main' [-Wunused-parameter] ld -rpath=/usr/lib/arb/lib -r -o SECEDIT.a SEC_toggle.o SEC_bonddef.o SEC_db.o SEC_helix.o SEC_graphic.o SEC_structure.o SEC_read.o SEC_io.o SEC_paint.o SEC_layout.o SEC_split.o SEC_abspos.o SEC_main.o make[5]: Leaving directory `/build/buildd/arb-5.3/SECEDIT' -------------------------------------------------------------------------------- Make everything in ISLAND_HOPPING make[5]: Entering directory `/build/buildd/arb-5.3/ISLAND_HOPPING' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ISLAND_HOPPING -c island_hopping.cpp -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ISLAND_HOPPING -DARB -c i-hopper.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ISLAND_HOPPING -DARB -c align.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include align.c: In function 'newIsland': align.c:343:49: warning: 'jjj' may be used uninitialized in this function [-Wuninitialized] align.c:343:30: warning: 'iii' may be used uninitialized in this function [-Wuninitialized] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ISLAND_HOPPING -DARB -c memory.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ISLAND_HOPPING -DARB -c trnsprob.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include trnsprob.c: In function 'updateTrnsprob': trnsprob.c:232:73: warning: 'f' may be used uninitialized in this function [-Wuninitialized] trnsprob.c:232:61: warning: 'e' may be used uninitialized in this function [-Wuninitialized] trnsprob.c:232:49: warning: 'd' may be used uninitialized in this function [-Wuninitialized] trnsprob.c:232:37: warning: 'c' may be used uninitialized in this function [-Wuninitialized] trnsprob.c:232:25: warning: 'b' may be used uninitialized in this function [-Wuninitialized] trnsprob.c:234:14: warning: 'a' may be used uninitialized in this function [-Wuninitialized] ld -rpath=/usr/lib/arb/lib -r -o ISLAND_HOPPING.a island_hopping.o i-hopper.o align.o memory.o trnsprob.o make[5]: Leaving directory `/build/buildd/arb-5.3/ISLAND_HOPPING' -------------------------------------------------------------------------------- Make everything in SL/FAST_ALIGNER make[5]: Entering directory `/build/buildd/arb-5.3/SL/FAST_ALIGNER' make[5]: `FAST_ALIGNER.a' is up to date. make[5]: Leaving directory `/build/buildd/arb-5.3/SL/FAST_ALIGNER' -------------------------------------------------------------------------------- Make everything in RNA3D make[5]: Entering directory `/build/buildd/arb-5.3/RNA3D' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_Main.o RNA3D_Main.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include RNA3D_Main.cxx: In function 'void RNA3D_StartApplication(AW_root*)': RNA3D_Main.cxx:73:32: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] RNA3D_Main.cxx:73:45: warning: 'const char* GB_get_error()' is deprecated (declared at /build/buildd/arb-5.3/INCLUDE/ad_prot.h:43) [-Wdeprecated-declarations] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_Interface.o RNA3D_Interface.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include RNA3D_Interface.cxx: In function 'void KeyPressEventHandler(Widget, XtPointer, XEvent*, char*)': RNA3D_Interface.cxx:94:16: warning: variable 'evt' set but not used [-Wunused-but-set-variable] RNA3D_Interface.cxx:99:12: warning: variable 'count' set but not used [-Wunused-but-set-variable] RNA3D_Interface.cxx: In function 'AW_window* CreateDisplayHelices_window(AW_root*)': RNA3D_Interface.cxx:482:54: warning: 'helixRange' may be used uninitialized in this function [-Wuninitialized] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_Graphics.o RNA3D_Graphics.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_OpenGLEngine.o RNA3D_OpenGLEngine.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include RNA3D_OpenGLEngine.cxx: In function 'void ComputeRotationXY(int, int)': RNA3D_OpenGLEngine.cxx:212:13: warning: variable 'dx' set but not used [-Wunused-but-set-variable] RNA3D_OpenGLEngine.cxx:212:17: warning: variable 'dy' set but not used [-Wunused-but-set-variable] RNA3D_OpenGLEngine.cxx: In function 'void initExtensions()': RNA3D_OpenGLEngine.cxx:125:44: warning: ignoring return value of 'int scanf(const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_OpenGLGraphics.o RNA3D_OpenGLGraphics.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_Textures.o RNA3D_Textures.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_StructureData.o RNA3D_StructureData.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include RNA3D_StructureData.cxx: In member function 'void Structure3D::MapSearchStringsToEcoliTemplate(AW_root*)': RNA3D_StructureData.cxx:1558:92: warning: 'vLastPt.Vector3::x' may be used uninitialized in this function [-Wuninitialized] RNA3D_StructureData.cxx:1558:92: warning: 'vLastPt.Vector3::z' may be used uninitialized in this function [-Wuninitialized] RNA3D_StructureData.cxx:1558:92: warning: 'vLastPt.Vector3::y' may be used uninitialized in this function [-Wuninitialized] RNA3D_StructureData.cxx: In member function 'void Structure3D::GetSecondaryStructureInfo()': RNA3D_StructureData.cxx:327:25: warning: array subscript is above array bounds [-Warray-bounds] RNA3D_StructureData.cxx:351:9: warning: 'helixNr' may be used uninitialized in this function [-Wuninitialized] RNA3D_StructureData.cxx:361:61: warning: 'lastHelixNr' may be used uninitialized in this function [-Wuninitialized] RNA3D_StructureData.cxx:361:61: warning: 'pos' may be used uninitialized in this function [-Wuninitialized] RNA3D_StructureData.cxx: In member function 'void Structure3D::ReadCoOrdinateFile()': RNA3D_StructureData.cxx:266:23: warning: 'pos' may be used uninitialized in this function [-Wuninitialized] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_RNA3D -c -o RNA3D_Renderer.o RNA3D_Renderer.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o RNA3D.a RNA3D_Main.o RNA3D_Interface.o RNA3D_Graphics.o RNA3D_OpenGLEngine.o RNA3D_OpenGLGraphics.o RNA3D_Textures.o RNA3D_StructureData.o RNA3D_Renderer.o make[5]: Leaving directory `/build/buildd/arb-5.3/RNA3D' -------------------------------------------------------------------------------- Make everything in GL make[5]: Entering directory `/build/buildd/arb-5.3/GL' make[6]: Entering directory `/build/buildd/arb-5.3/GL/glpng' make[6]: `libglpng_arb.a' is up to date. make[6]: Leaving directory `/build/buildd/arb-5.3/GL/glpng' make[6]: Entering directory `/build/buildd/arb-5.3/GL/glAW' make[6]: `libglAW.a' is up to date. make[6]: Leaving directory `/build/buildd/arb-5.3/GL/glAW' make[5]: Leaving directory `/build/buildd/arb-5.3/GL' -------------------- Checking bin/arb_edit4 Target 'bin/arb_edit4' not found -> rebuilding bin/arb_edit4 (Wed Dec 31 23:59:59 1969) Link bin/arb_edit4 g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o bin/arb_edit4 -L/build/buildd/arb-5.3/LIBLINK NAMES_COM/client.a AWTC/AWTC.a EDIT4/EDIT4.a SECEDIT/SECEDIT.a SERVERCNTRL/SERVERCNTRL.a STAT/STAT.a ARB_GDE/ARB_GDE.a ISLAND_HOPPING/ISLAND_HOPPING.a SL/FAST_ALIGNER/FAST_ALIGNER.a SL/HELIX/HELIX.a SL/AW_HELIX/AW_HELIX.a SL/AW_NAME/AW_NAME.a SL/FILE_BUFFER/FILE_BUFFER.a XML/XML.a RNA3D/RNA3D.a -lARBDB -lm -lAW -lAWT -L/usr/lib64 -lXm -lXpm -lXt -lXext -lX11 -lGL -L/build/buildd/arb-5.3/GL/glAW -lglAW -lpthread -lGLEW -lGLw -lglut -L/build/buildd/arb-5.3/GL/glpng -lglpng_arb -lpng RNA3D/RNA3D.a: In function `ReshapeOpenGLWindow(int, int)': (.text+0x34b4): undefined reference to `gluPerspective' RNA3D/RNA3D.a: In function `RenderOpenGLScene(_WidgetRec*)': (.text+0x4271): undefined reference to `gluLookAt' RNA3D/RNA3D.a: In function `OpenGLGraphics::WinToScreenCoordinates(int, int, double*)': (.text+0x48d0): undefined reference to `gluUnProject' collect2: ld returned 1 exit status make[4]: *** [bin/arb_edit4] Error 1 make[4]: Leaving directory `/build/buildd/arb-5.3' make[3]: *** [arb] Error 2 make[3]: Leaving directory `/build/buildd/arb-5.3' make[2]: *** [all] Error 2 make[2]: Leaving directory `/build/buildd/arb-5.3' make[2]: Entering directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Make everything in TREEGEN make[3]: Entering directory `/build/buildd/arb-5.3/TREEGEN' gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c base.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c defines.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c frand.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c readcfg.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c rns.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include rns.c: In function 'calcMutationMatrix': rns.c:367:66: warning: unused parameter 'muteRate' [-Wunused-parameter] gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c sim.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c simcfg.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_TREEGEN -c spreadin.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o TREEGEN.a base.o defines.o frand.o readcfg.o rns.o sim.o simcfg.o spreadin.o make[3]: Leaving directory `/build/buildd/arb-5.3/TREEGEN' -------------------- Checking bin/arb_treegen Target 'bin/arb_treegen' not found -> rebuilding bin/arb_treegen (Wed Dec 31 23:59:59 1969) Link bin/arb_treegen g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o bin/arb_treegen -L/build/buildd/arb-5.3/LIBLINK TREEGEN/TREEGEN.a -------------------------------------------------------------------------------- Make everything in PROBE_SET make[3]: Entering directory `/build/buildd/arb-5.3/PROBE_SET' mkdir -p bin g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_node.o ps_node.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_filebuffer.o ps_filebuffer.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_database.o ps_database.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_tools.o ps_tools.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_show_result.o ps_show_result.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_show_result ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_show_result.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_arb2asciipaths.o ps_arb2asciipaths.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_arb2asciipaths ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_arb2asciipaths.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_my2asciipaths.o ps_my2asciipaths.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_my2asciipaths ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_my2asciipaths.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_my2ascii.o ps_my2ascii.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_my2ascii ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_my2ascii.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_get_probes.o ps_get_probes.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_get_probes ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_get_probes.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_eval_candidates.o ps_eval_candidates.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_eval ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_eval_candidates.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_find_probes.o ps_find_probes.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_find ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_find_probes.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_detect_weak_differences.o ps_detect_weak_differences.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_detect ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_detect_weak_differences.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_merge_my_dbs.o ps_merge_my_dbs.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_merge ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_merge_my_dbs.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o ps_convert_db.o ps_convert_db.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/ps_convert ps_node.o ps_filebuffer.o ps_database.o ps_tools.o ps_convert_db.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_PROBE_SET -c -o fb_test.o fb_test.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o /build/buildd/arb-5.3/PROBE_SET/bin/fb_test ps_node.o ps_filebuffer.o ps_database.o ps_tools.o fb_test.o -L/build/buildd/arb-5.3/LIBLINK -lARBDB -lm make[3]: Leaving directory `/build/buildd/arb-5.3/PROBE_SET' -------------------------------------------------------------------------------- Make everything in ALIV3 make[3]: Entering directory `/build/buildd/arb-5.3/ALIV3' g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include a3.cxx:32:20: warning: 'DArray* ReadMatches(str)' defined but not used [-Wunused-function] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_seq.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include a3_seq.cxx: In function 'char* CompressSequence(str, UINT)': a3_seq.cxx:85:26: warning: case label value is less than minimum value for type [enabled by default] a3_seq.cxx:86:26: warning: case label value is less than minimum value for type [enabled by default] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_ptree1.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_ptree2.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_helix.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include a3_helix.cxx: In function 'int FindHelices(str, int, int, A3Matrix&)': a3_helix.cxx:67:80: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] a3_helix.cxx:68:81: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] a3_helix.cxx:103:92: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] a3_helix.cxx:104:93: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] a3_helix.cxx: At global scope: a3_helix.cxx:302:13: warning: unused parameter 'minlen' [-Wunused-parameter] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_darray.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include a3_darray.cxx: In member function 'int DArray::Del(int)': a3_darray.cxx:155:53: warning: deleting 'vp {aka void*}' is undefined [enabled by default] a3_darray.cxx: In member function 'void DArray::Sort(cmpfunc)': a3_darray.cxx:204:13: warning: unused variable 'count' [-Wunused-variable] a3_darray.cxx: In member function 'void DArray::Clear()': a3_darray.cxx:254:61: warning: deleting 'vp {aka void*}' is undefined [enabled by default] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_ali.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include a3_ali.cxx:68:10: warning: unused parameter 'hel' [-Wunused-parameter] a3_ali.cxx:68:10: warning: unused parameter 'kon' [-Wunused-parameter] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_matrix.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include a3_matrix.cxx: In member function 'int A3Matrix::Set(int, int, vp)': a3_matrix.cxx:78:47: warning: deleting 'vp {aka void*}' is undefined [enabled by default] a3_matrix.cxx: In member function 'void A3Matrix::Clear()': a3_matrix.cxx:121:51: warning: deleting 'vp {aka void*}' is undefined [enabled by default] g++ -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_arbdb.cxx -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include gcc -O4 -pipe -fmessage-length=0 -funit-at-a-time -fPIC -DARB_OPENGL -W -Wall -DNDEBUG -DARB_64 -DLINUX -DFAKE_VTAB_PTR=char -DIN_ARB_ALIV3 -c a3_basen.c -I. -I/build/buildd/arb-5.3/INCLUDE -I/usr/include ld -rpath=/usr/lib/arb/lib -r -o ALIV3.a a3.o a3_seq.o a3_ptree1.o a3_ptree2.o a3_helix.o a3_darray.o a3_ali.o a3_matrix.o a3_arbdb.o a3_basen.o make[3]: Leaving directory `/build/buildd/arb-5.3/ALIV3' -------------------------------------------------------------------------------- Make everything in SL/HELIX make[3]: Entering directory `/build/buildd/arb-5.3/SL/HELIX' make[3]: `HELIX.a' is up to date. make[3]: Leaving directory `/build/buildd/arb-5.3/SL/HELIX' -------------------------------------------------------------------------------- Make everything in ARBDB make[3]: Entering directory `/build/buildd/arb-5.3/ARBDB' make[3]: `libARBDB.a' is up to date. make[3]: Leaving directory `/build/buildd/arb-5.3/ARBDB' -------------------------------------------------------------------------------- Make everything in ARBDBS make[3]: Entering directory `/build/buildd/arb-5.3/ARBDBS' make[3]: `libARBDB.a' is up to date. make[3]: Leaving directory `/build/buildd/arb-5.3/ARBDBS' -------------------------------------------------------------------------------- Make everything in ARBDB2 make[3]: Entering directory `/build/buildd/arb-5.3/ARBDB2' make[3]: `libARBDB.a' is up to date. make[3]: Leaving directory `/build/buildd/arb-5.3/ARBDB2' -------------------------------------------------------------------------------- Make everything in ARBDBPP make[3]: Entering directory `/build/buildd/arb-5.3/ARBDBPP' make[3]: `libARBDBPP.a' is up to date. make[3]: Leaving directory `/build/buildd/arb-5.3/ARBDBPP' -------------------------------------------------------------------------------- Make everything in WINDOW make[3]: Entering directory `/build/buildd/arb-5.3/WINDOW' make[3]: `libAW.a' is up to date. make[3]: Leaving directory `/build/buildd/arb-5.3/WINDOW' -------------------------------------------------------------------------------- Make everything in AWT make[3]: Entering directory `/build/buildd/arb-5.3/AWT' make[3]: `libAWT.a' is up to date. make[3]: Leaving directory `/build/buildd/arb-5.3/AWT' -------------------- Updating shared libraries /usr/bin/make libs make[3]: Entering directory `/build/buildd/arb-5.3' make[3]: Nothing to be done for `libs'. make[3]: Leaving directory `/build/buildd/arb-5.3' -------------------------------------------------------------------------------- Link bin/aliv3 g++ -O2 -Wl,-rpath=/usr/lib/arb/lib -o bin/aliv3 -L/build/buildd/arb-5.3/LIBLINK ALIV3/ALIV3.a SL/HELIX/HELIX.a -lARBDB -lm -------------------------------------------------------------------------------- Make everything in XML_IMPORT make[3]: Entering directory `/build/buildd/arb-5.3/XML_IMPORT' Makefile:19: XML_IMPORT compile broken atm true make[3]: Leaving directory `/build/buildd/arb-5.3/XML_IMPORT' make[2]: Leaving directory `/build/buildd/arb-5.3' export LD_LIBRARY_PATH=/build/buildd/arb-5.3/lib:${LD_LIBRARY_PATH}; \ cd HELP_SOURCE; /usr/bin/make ARBHOME=/build/buildd/arb-5.3 html make[2]: Entering directory `/build/buildd/arb-5.3/HELP_SOURCE' make[2]: Nothing to be done for `html'. make[2]: Leaving directory `/build/buildd/arb-5.3/HELP_SOURCE' make[1]: Leaving directory `/build/buildd/arb-5.3' dh_auto_test /usr/bin/fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a dh_auto_install -a debian/rules override_dh_install make[1]: Entering directory `/build/buildd/arb-5.3' dh_install # remove files from arb package which are in arb-nas if [ -s debian/arb-nas.install ] ; then \ for arbfile in `sed 's?^bin/\([^[:space:]]\+\)[[:space:]]\+\(.\+\)?debian/arb/\2/\1?' debian/arb-nas.install | grep debian/` ; do \ rm -f ${arbfile} ; \ done ; \ fi # the check is needed to make sure it will not fail when doing binary-arch only builds if [ -e debian/arb-common/usr/lib/arb/SH/arb_create_debian_conffile ] ; then \ # Move SH/README to docs \ cp -a SH/README debian/arb-common/usr/share/doc/arb/README_SH ; \ # Fix permission of scripts \ chmod a+x debian/arb-common/usr/lib/arb/SH/arb_create_debian_conffile ; \ chmod a+x debian/arb-common/usr/lib/arb/lib/macro.head ; \ fi # Man page is not really needed and throws just a lintian warning # mkdir `pwd`/debian/arb/usr/share/man/man3 # perldoc PERL2ARB/ARB.pm > `pwd`/debian/arb/usr/share/man/man3/ARB.3pm make[1]: Leaving directory `/build/buildd/arb-5.3' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_installcatalogs -a dh_installcron -a dh_installdebconf -a dh_installemacsen -a dh_installifupdown -a dh_installinfo -a dh_installinit -a dh_installmenu -a dh_installmime -a dh_installmodules -a dh_installlogcheck -a dh_installlogrotate -a dh_installpam -a dh_installppp -a dh_installudev -a dh_installwm -a dh_installxfonts -a dh_installgsettings -a dh_bugfiles -a dh_ucf -a dh_lintian -a dh_gconf -a dh_icons -a dh_perl -a dh_usrlocal -a dh_link -a dh_compress -a dh_fixperms -a debian/rules override_dh_strip make[1]: Entering directory `/build/buildd/arb-5.3' # Fix rpath issue (once libarb is installed) if [ -e debian/libarb/usr/lib/arb/lib/ARB.so ] ; then \ chrpath --delete debian/libarb/usr/lib/arb/lib/ARB.so ; \ fi dh_strip dh_strip debug symbol extraction: disabling for PPA build dh_strip debug symbol extraction: not doing anything since NO_PKG_MANGLE is given make[1]: Leaving directory `/build/buildd/arb-5.3' dh_makeshlibs -a debian/rules override_dh_shlibdeps make[1]: Entering directory `/build/buildd/arb-5.3' dh_shlibdeps -a -l debian/libarb/usr/lib dpkg-shlibdeps: warning: couldn't find library libARBDB.so needed by debian/arb/usr/lib/arb/bin/aliv3 (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libARBDB.so needed by debian/arb/usr/lib/arb/bin/arb_ntree (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAW.so needed by debian/arb/usr/lib/arb/bin/arb_ntree (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAWT.so needed by debian/arb/usr/lib/arb/bin/arb_ntree (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libARBDB.so needed by debian/arb/usr/lib/arb/bin/arb_wetc (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAW.so needed by debian/arb/usr/lib/arb/bin/arb_wetc (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAWT.so needed by debian/arb/usr/lib/arb/bin/arb_wetc (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libARBDBPP.so needed by debian/arb/usr/lib/arb/bin/arb_edit (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libARBDB.so needed by debian/arb/usr/lib/arb/bin/arb_edit (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAW.so needed by debian/arb/usr/lib/arb/bin/arb_edit (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAWT.so needed by debian/arb/usr/lib/arb/bin/arb_edit (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libARBDB.so needed by debian/arb/usr/lib/arb/bin/arb_pars (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAW.so needed by debian/arb/usr/lib/arb/bin/arb_pars (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: couldn't find library libAWT.so needed by debian/arb/usr/lib/arb/bin/arb_pars (ELF format: 'elf64-x86-64'; RPATH: '/usr/lib/arb/lib'). dpkg-shlibdeps: warning: dependency on libXm.so.4 could be avoided if "debian/arb/usr/lib/arb/bin/arb_ntree debian/arb/usr/lib/arb/bin/arb_wetc debian/arb/usr/lib/arb/bin/arb_edit debian/arb/usr/lib/arb/bin/arb_pars" were not uselessly linked against it (they use none of its symbols). make[1]: Leaving directory `/build/buildd/arb-5.3' dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 116 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package `arb' in `../arb_5.3-3ubuntu3_amd64.deb'. INFO: pkgstriptranslations version 116 INFO: Disabling pkgstriptranslations for PPA build INFO: Disabling pkgmaintainermangler for PPA build INFO: Disabling pkgstripfiles for PPA build dpkg-deb: building package `libarb' in `../libarb_5.3-3ubuntu3_amd64.deb'. dpkg-genchanges -B -mUbuntu Build Daemon >../arb_5.3-3ubuntu3_amd64.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build arb-5.3 dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20120606-2358 chroot-autobuild/build/buildd/arb_5.3-3ubuntu3_amd64.deb: new debian package, version 2.0. size 790220 bytes: control archive= 1928 bytes. 39 bytes, 2 lines conffiles 1248 bytes, 23 lines control 1089 bytes, 18 lines md5sums 743 bytes, 31 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh 118 bytes, 10 lines * prerm #!/bin/sh Package: arb Version: 5.3-3ubuntu3 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 1811 Depends: arb-common (= 5.3-3ubuntu3), fastdnaml (>= 1.2.2-4), libarb (= 5.3-3ubuntu3), openssh-client, phylip (>= 3.6b), readseq (>= 1-1), transfig, tree-puzzle (>= 5.0-3), libc6 (>= 2.15), libgcc1 (>= 1:4.1.1), libmotif4, libstdc++6 (>= 4.6), libxt6 Recommends: bioperl, xfig Suggests: arb-database, gnuplot, gv, phyml Section: non-free/science Priority: extra Homepage: http://www.arb-home.de/ Description: Integrated package for sequence database handling and analysis The ARB software is a graphically oriented package comprising various tools for sequence database handling and data analysis. A central database of processed (aligned) sequences and any type of additional data linked to the respective sequence entries is structured according to phylogeny or other user defined criteria. . The ARB project (latin, "arbor"=tree) is a joint initiative of the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/ and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation http://wwwbode.informatik.tu-muenchen.de/ of the Technical University of Munich. chroot-autobuild/build/buildd/libarb_5.3-3ubuntu3_amd64.deb: new debian package, version 2.0. size 853766 bytes: control archive= 1064 bytes. 1098 bytes, 25 lines control 516 bytes, 8 lines md5sums Package: libarb Source: arb Version: 5.3-3ubuntu3 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 1930 Depends: libc6 (>= 2.15), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.6) Recommends: arb Section: non-free/science Priority: extra Homepage: http://www.arb-home.de/ Description: Integrated package for sequence database handling and analysis The ARB software is a graphically oriented package comprising various tools for sequence database handling and data analysis. A central database of processed (aligned) sequences and any type of additional data linked to the respective sequence entries is structured according to phylogeny or other user defined criteria. . The ARB project (latin, "arbor"=tree) is a joint initiative of the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/ and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation http://wwwbode.informatik.tu-muenchen.de/ of the Technical University of Munich. . This package contains the dynamic libraries which are used by arb. chroot-autobuild/build/buildd/arb_5.3-3ubuntu3_amd64.deb: drwxr-xr-x root/root 0 2012-06-06 23:58 ./ drwxr-xr-x root/root 0 2012-06-06 23:58 ./etc/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./etc/arb/ -rw-r--r-- root/root 553 2012-01-05 18:53 ./etc/arb/arb.conf -rw-r--r-- root/root 4729 2012-01-05 18:53 ./etc/arb/arb_tcp.dat drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/bin/ -rwxr-xr-x root/root 796 2012-01-05 18:53 ./usr/bin/arb-kill -rwxr-xr-x root/root 2042 2012-01-05 18:53 ./usr/bin/arb-add-pt-server -rwxr-xr-x root/root 1516 2012-01-05 18:53 ./usr/bin/arb drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/lib/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/lib/arb/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/ -rwxr-xr-x root/root 27632 2012-06-06 23:58 ./usr/lib/arb/bin/arb_treegen -rwxr-xr-x root/root 172656 2012-06-06 23:58 ./usr/lib/arb/bin/arb_pars -rwxr-xr-x root/root 76624 2012-06-06 23:58 ./usr/lib/arb/bin/arb_help2xml -rwxr-xr-x root/root 275168 2012-06-06 23:58 ./usr/lib/arb/bin/arb_edit -rwxr-xr-x root/root 1114632 2012-06-06 23:58 ./usr/lib/arb/bin/arb_ntree -rwxr-xr-x root/root 56040 2012-06-06 23:58 ./usr/lib/arb/bin/aliv3 -rwxr-xr-x root/root 31352 2012-06-06 23:58 ./usr/lib/arb/bin/arb_wetc drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/menu/ -rw-r--r-- root/root 135 2012-01-05 18:53 ./usr/share/menu/arb drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/doc/arb/ -rw-r--r-- root/root 10842 2012-01-05 18:53 ./usr/share/doc/arb/copyright -rw-r--r-- root/root 6004 2012-03-02 11:33 ./usr/share/doc/arb/changelog.Debian.gz -rw-r--r-- root/root 2989 2012-01-05 18:53 ./usr/share/doc/arb/README.Debian drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/arb/ -rw-r--r-- root/root 534 2012-01-05 18:53 ./usr/share/arb/arb.xpm drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/man/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/man/man1/ -rw-r--r-- root/root 530 2012-06-06 23:58 ./usr/share/man/man1/arb-add-pt-server.1.gz -rw-r--r-- root/root 660 2012-06-06 23:58 ./usr/share/man/man1/arb.1.gz -rw-r--r-- root/root 544 2012-06-06 23:58 ./usr/share/man/man1/arb-kill.1.gz lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/retree -> ../../phylip/bin/retree lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/puzzle -> ../../../bin/tree-puzzle lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/format_dssp.pl -> ../PERL_SCRIPTS/ARBTOOLS/IFTHELP/format_dssp.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/fastdnaml -> ../../../bin/fastDNAml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_trace -> ../SH/arb_trace lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_readseq -> ../../../bin/readseq lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/seqboot -> ../../phylip/bin/seqboot lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/listMarkedSpecies.pl -> ../PERL_SCRIPTS/SPECIES/listMarkedSpecies.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnaml -> ../../phylip/bin/dnaml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/raxml2arb.pl -> ../PERL_SCRIPTS/ARBTOOLS/raxml2arb.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/protdist -> ../../phylip/bin/protdist lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/factor -> ../../phylip/bin/factor lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/treedist -> ../../phylip/bin/treedist lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/restdist -> ../../phylip/bin/restdist lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_raxml -> ../SH/arb_raxml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnacomp -> ../../phylip/bin/dnacomp lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnamove -> ../../phylip/bin/dnamove lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/embl_gen_long_features.pl -> ../PERL_SCRIPTS/ARBTOOLS/IFTHELP/embl_gen_long_features.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_who -> ../SH/arb_who lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/drawgram -> ../../phylip/bin/drawgram lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dolpenny -> ../../phylip/bin/dolpenny lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_echo -> ../SH/arb_echo lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_installubuntu4arb.sh -> ../SH/arb_installubuntu4arb.sh lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/pars -> ../../phylip/bin/pars lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dolmove -> ../../phylip/bin/dolmove lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/SAI_demo.pl -> ../PERL_SCRIPTS/SAI/SAI_demo.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/clustalw -> ../../../bin/clustalw lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/contml -> ../../phylip/bin/contml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_protpars -> ../SH/arb_protpars lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/kitsch -> ../../phylip/bin/kitsch lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/contrast -> ../../phylip/bin/contrast lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_textprint -> ../SH/arb_textprint lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/genbank_gen_long_features.pl -> ../PERL_SCRIPTS/ARBTOOLS/IFTHELP/genbank_gen_long_features.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnapenny -> ../../phylip/bin/dnapenny lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_phyml -> ../SH/arb_phyml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_ludwig -> ../SH/arb_ludwig lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_proml -> ../SH/arb_proml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/protml -> ../../../bin/protml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/drawtree -> ../../phylip/bin/drawtree lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/restml -> ../../phylip/bin/restml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_fastdnaml -> ../SH/arb_fastdnaml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/listDiff.pl -> ../PERL_SCRIPTS/GENERAL/listDiff.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/mix -> ../../phylip/bin/mix lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dollop -> ../../phylip/bin/dollop lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_remote -> ../SH/arb_remote lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/promlk -> ../../phylip/bin/promlk lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/beautifyNewick.pl -> ../PERL_SCRIPTS/BIOPERL/beautifyNewick.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/move -> ../../phylip/bin/move lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/proml -> ../../phylip/bin/proml lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_clean -> ../SH/arb_clean lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dszmconnect.pl -> ../SH/dszmconnect.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb -> ../SH/arb lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/fitch -> ../../phylip/bin/fitch lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnainvar -> ../../phylip/bin/dnainvar lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnamlk -> ../../phylip/bin/dnamlk lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/consense -> ../../phylip/bin/consense lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_sleep -> ../SH/arb_sleep lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/neighbor -> ../../phylip/bin/neighbor lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_panic -> ../SH/arb_panic lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_repair -> ../SH/arb_repair lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_dnapars -> ../SH/arb_dnapars lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/import_proteomdata.pl -> ../PERL_SCRIPTS/GENOME/import_proteomdata.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_textedit -> ../SH/arb_textedit lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnadist -> ../../phylip/bin/dnadist lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_wait -> ../SH/arb_wait lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/penny -> ../../phylip/bin/penny lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/dnapars -> ../../phylip/bin/dnapars lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/protpars -> ../../phylip/bin/protpars lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/clique -> ../../phylip/bin/clique lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_ign -> ../SH/arb_ign lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/example_batch_probe_match.sh -> ../SH/example_batch_probe_match.sh lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/gendist -> ../../phylip/bin/gendist lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/markSpecies.pl -> ../PERL_SCRIPTS/SPECIES/markSpecies.pl lrwxrwxrwx root/root 0 2012-06-06 23:58 ./usr/lib/arb/bin/arb_bootstrap -> ../SH/arb_bootstrap chroot-autobuild/build/buildd/libarb_5.3-3ubuntu3_amd64.deb: drwxr-xr-x root/root 0 2012-06-06 23:58 ./ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/lib/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/lib/arb/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/lib/arb/lib/ -rw-r--r-- root/root 484520 2012-06-06 23:58 ./usr/lib/arb/lib/libARBDB.so -rw-r--r-- root/root 329056 2012-06-06 23:58 ./usr/lib/arb/lib/libAW.so -rw-r--r-- root/root 64552 2012-06-06 23:58 ./usr/lib/arb/lib/libARBDBPP.so -rw-r--r-- root/root 550752 2012-06-06 23:58 ./usr/lib/arb/lib/libAWT.so -rw-r--r-- root/root 484520 2012-06-06 23:58 ./usr/lib/arb/lib/libARBDO.so drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/doc/libarb/ -rw-r--r-- root/root 10842 2012-01-05 18:53 ./usr/share/doc/libarb/copyright -rw-r--r-- root/root 6004 2012-03-02 11:33 ./usr/share/doc/libarb/changelog.Debian.gz drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/lintian/ drwxr-xr-x root/root 0 2012-06-06 23:58 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 135 2012-01-05 18:53 ./usr/share/lintian/overrides/libarb arb_5.3-3ubuntu3_amd64.changes: Format: 1.8 Date: Fri, 02 Mar 2012 11:32:45 +0000 Source: arb Binary: arb libarb arb-common arb-doc Architecture: amd64 Version: 5.3-3ubuntu3 Distribution: precise Urgency: low Maintainer: Ubuntu Build Daemon Changed-By: Tim Booth Description: arb - Integrated package for sequence database handling and analysis arb-common - Integrated package for sequence database handling and analysis arb-doc - Integrated package for sequence database handling and analysis libarb - Integrated package for sequence database handling and analysis Changes: arb (5.3-3ubuntu3) lucid; urgency=low . * Prune build deps (jdk) and rebuild for PPA * Revert bioperl dependency to old name Checksums-Sha1: 9177d519537046dd938fe7ce98cda8d72ff967bc 790220 arb_5.3-3ubuntu3_amd64.deb d0a9d70aff8f13ebb20173733280b8c292456cce 853766 libarb_5.3-3ubuntu3_amd64.deb Checksums-Sha256: fe96f5b875b6804c6f761a7aaf17e4e4b318fdcbeb87a43cd5f50223366c2db4 790220 arb_5.3-3ubuntu3_amd64.deb f25ee67bb1cbdf7b40ab99dedc82b718cf9a86e537fc12a4bb3c711d4452f127 853766 libarb_5.3-3ubuntu3_amd64.deb Files: 3733e1d85a96a2bc20bc8539fc27c68d 790220 non-free/science extra arb_5.3-3ubuntu3_amd64.deb c77868c82f161ddd7dba0c1a0084c9b9 853766 non-free/science extra libarb_5.3-3ubuntu3_amd64.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20120606-2358 Build needed 00:03:49, 84168k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['/usr/share/launchpad-buildd/slavebin/scan-for-processes', '6c7a5dd42c6da821a2330256af7358befeb1acfa'] Scanning for processes to kill in build /home/buildd/build-6c7a5dd42c6da821a2330256af7358befeb1acfa/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', '6c7a5dd42c6da821a2330256af7358befeb1acfa'] Unmounting chroot for build 6c7a5dd42c6da821a2330256af7358befeb1acfa... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', '6c7a5dd42c6da821a2330256af7358befeb1acfa'] Removing build 6c7a5dd42c6da821a2330256af7358befeb1acfa