Running as unit: rb-build-i386_13-51166.service ==================================================================================== Thu Nov 21 13:13:19 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_i386_13) on jenkins, called using "infom07-i386 infom08-i386" as arguments. Thu Nov 21 13:13:19 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-XYZVZfkw" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Nov 21 13:13:19 UTC 2024 - checking /var/lib/jenkins/offline_nodes if infom07-i386.debian.net is marked as down. Thu Nov 21 13:13:19 UTC 2024 - checking via ssh if infom07-i386.debian.net is up. removed '/tmp/read-only-fs-test-KBmX4m' Thu Nov 21 13:13:20 UTC 2024 - checking /var/lib/jenkins/offline_nodes if infom08-i386.debian.net is marked as down. Thu Nov 21 13:13:20 UTC 2024 - checking via ssh if infom08-i386.debian.net is up. removed '/tmp/read-only-fs-test-eu59oH' ok, let's check if tigr-glimmer is building anywhere yet… ok, tigr-glimmer is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of tigr-glimmer in unstable on i386 on jenkins now. 1st build will be done on infom07-i386.debian.net. 2nd build will be done on infom08-i386.debian.net. ============================================================================= Thu Nov 21 13:13:32 UTC 2024 I: starting to build tigr-glimmer/unstable/i386 on jenkins on '2024-11-21 13:13' Thu Nov 21 13:13:32 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_13/51166/console.log 1732194812 i386 unstable tigr-glimmer Thu Nov 21 13:13:32 UTC 2024 I: Downloading source for unstable/tigr-glimmer=3.02b-6 --2024-11-21 13:13:33-- http://deb.debian.org/debian/pool/main/t/tigr-glimmer/tigr-glimmer_3.02b-6.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2104 (2.1K) [text/prs.lines.tag] Saving to: ‘tigr-glimmer_3.02b-6.dsc’ 0K .. 100% 263M=0s 2024-11-21 13:13:33 (263 MB/s) - ‘tigr-glimmer_3.02b-6.dsc’ saved [2104/2104] --2024-11-21 13:13:33-- http://deb.debian.org/debian/pool/main/t/tigr-glimmer/tigr-glimmer_3.02b-6.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2104 (2.1K) [text/prs.lines.tag] Saving to: ‘tigr-glimmer_3.02b-6.dsc’ 0K .. 100% 263M=0s 2024-11-21 13:13:33 (263 MB/s) - ‘tigr-glimmer_3.02b-6.dsc’ saved [2104/2104] Thu Nov 21 13:13:33 UTC 2024 I: tigr-glimmer_3.02b-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: tigr-glimmer Binary: tigr-glimmer Architecture: any Version: 3.02b-6 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Andreas Tille , Étienne Mollier Homepage: http://ccb.jhu.edu/software/glimmer/index.shtml Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/tigr-glimmer Vcs-Git: https://salsa.debian.org/med-team/tigr-glimmer.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: tigr-glimmer deb science optional arch=any Checksums-Sha1: 665ed5c676c6d495e4354893e67ee605ec3e00da 5637975 tigr-glimmer_3.02b.orig.tar.gz 409b805f26572654d9aa3a6acacbaa047ffbd0f3 20516 tigr-glimmer_3.02b-6.debian.tar.xz Checksums-Sha256: ecf28e03d0a675aed7360ca34ca7f19993f5c3ea889273e657ced9fa7d1e2bf6 5637975 tigr-glimmer_3.02b.orig.tar.gz 94d8f00b7052a4792cd9612f9ef91eb229194f3dbaf057794c98112805b5537f 20516 tigr-glimmer_3.02b-6.debian.tar.xz Files: 344d012ae12596de905866fe9eb7f16c 5637975 tigr-glimmer_3.02b.orig.tar.gz b743ca043f6fd888e7892afd584d113b 20516 tigr-glimmer_3.02b-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmFrHLAUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdoe1g/8DNy6wTJQhG6eKP+/bWm/eXg9hrEm 5cAJrxl8P6WzA6qnCS1402E46hW2r/bRGG11y8R10Rf/kgRWprsd1utdIQdG7wez ru3W1Q7h6sPP3jbr5wd0/DotCOGc3tGsO1HNZmiiklKm2o3Jvzqypb5YX5cbib5C shHbC1mEqOugcthKlcbJchueAt5ZwPVoOkm9FuzJayaYAiQf52LSlmoJTJVETZOZ Ftn31Fi1WMtI6WhtHbCG4cNj581d4RyaKkuD6V6vg0gEOJOn0rAIwc8TscsgCd0K pZ702LNWf50e1a1ZeSjOB1IcHmh4tPMetvnfcjp6GWbAVejhSnRkPo6tzlFs7mqt aKiCvajVsmQPfiIKe9SV+f7KAYU6X34n6tGlHRot9N4jfNSO0Wpp0HeU7+q22N1m nHmP4cOaJFDNzF4KEEWxVPWDn19HEmv/jjLCq0UVfYlMx+uFuV6NxR6XEHyFtRTD 4VFU9dM9c9JMw+i46z+8DWwkSxpEfQS17nUziN6MxbTQwqPcD9JT8nL89oGyUBqw H25vwIXp7dYvVh0eW4Mi/dyNDI7ssvkWYSuNBxzovAYk25v0x9VO2HA9eS9secBR 3nsDIDVkCAF0ezKnsvchcRToPN6I4YetSaV+4crRL2dptCvV6YEtdABbxyK5PhnL 0cQRN3hIlW2punY= =Ep2R -----END PGP SIGNATURE----- Thu Nov 21 13:13:33 UTC 2024 I: Checking whether the package is not for us Thu Nov 21 13:13:33 UTC 2024 I: Starting 1st build on remote node infom07-i386.debian.net. Thu Nov 21 13:13:33 UTC 2024 I: Preparing to do remote build '1' on infom07-i386.debian.net. Thu Nov 21 13:13:33 UTC 2024 - checking /var/lib/jenkins/offline_nodes if infom07-i386.debian.net is marked as down. Thu Nov 21 13:13:33 UTC 2024 - checking via ssh if infom07-i386.debian.net is up. removed '/tmp/read-only-fs-test-dpmHr7' ==================================================================================== Thu Nov 21 13:13:34 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on infom07-i386, called using "1 tigr-glimmer unstable /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh 3.02b-6" as arguments. Thu Nov 21 13:13:34 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-DxaDqaLT" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Nov 21 13:13:34 UTC 2024 I: Downloading source for unstable/tigr-glimmer=3.02b-6 Reading package lists... NOTICE: 'tigr-glimmer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tigr-glimmer.git Please use: git clone https://salsa.debian.org/med-team/tigr-glimmer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 5661 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (dsc) [2104 B] Get:2 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (tar) [5638 kB] Get:3 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (diff) [20.5 kB] Fetched 5661 kB in 0s (36.5 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'tigr-glimmer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tigr-glimmer.git Please use: git clone https://salsa.debian.org/med-team/tigr-glimmer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 5661 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (dsc) [2104 B] Get:2 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (tar) [5638 kB] Get:3 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (diff) [20.5 kB] Fetched 5661 kB in 0s (36.5 MB/s) Download complete and in download only mode ============================================================================= Building tigr-glimmer in unstable on i386 on infom07-i386 now. Date: Thu Nov 21 13:13:35 UTC 2024 Date UTC: Thu Nov 21 13:13:35 UTC 2024 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Thu Nov 21 01:13:35 -12 2024 I: pbuilder-time-stamp: 1732194815 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [tigr-glimmer_3.02b-6.dsc] I: copying [./tigr-glimmer_3.02b.orig.tar.gz] I: copying [./tigr-glimmer_3.02b-6.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Oct 16 18:40:48 2021 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./tigr-glimmer_3.02b-6.dsc: no acceptable signature found dpkg-source: info: extracting tigr-glimmer in tigr-glimmer-3.02b dpkg-source: info: unpacking tigr-glimmer_3.02b.orig.tar.gz dpkg-source: info: unpacking tigr-glimmer_3.02b-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_gcc4.3.patch dpkg-source: info: applying mayhem.patch dpkg-source: info: applying make-errs.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/31094/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='b20ff1b0216c4407b43b2e9708c8c598' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='31094' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/pbuilderrc_CB8c --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b1 --logfile b1/build.log tigr-glimmer_3.02b-6.dsc' SUDO_GID='111' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom07-i386 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/31094/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19952 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 20.1 MB of archives. After unpacking 75.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB] Get: 4 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3+b1 [43.2 kB] Get: 5 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.22.5-2 [201 kB] Get: 6 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB] Get: 7 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-5 [1196 kB] Get: 8 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.2-11 [95.6 kB] Get: 9 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 10 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 11 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-4 [293 kB] Get: 12 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main i386 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main i386 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 23 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 24 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-5+b1 [9583 kB] Get: 25 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB] Get: 26 http://deb.debian.org/debian unstable/main i386 gettext i386 0.22.5-2 [1631 kB] Get: 27 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main i386 debhelper all 13.20 [915 kB] Fetched 20.1 MB in 0s (74.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19952 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_i386.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_i386.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_i386.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_i386.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../08-libpipeline1_1.5.8-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_i386.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:i386. Preparing to unpack .../21-libelf1t64_0.192-4_i386.deb ... Unpacking libelf1t64:i386 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_i386.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:i386. Preparing to unpack .../23-libicu72_72.1-5+b1_i386.deb ... Unpacking libicu72:i386 (72.1-5+b1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_i386.deb ... Unpacking libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_i386.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Setting up libpipeline1:i386 (1.5.8-1) ... Setting up libicu72:i386 (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:i386 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:i386 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:i386 (0.0.8-1+b2) ... Setting up libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.20) ... Processing triggers for libc-bin (2.40-3) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/tigr-glimmer-3.02b/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../tigr-glimmer_3.02b-6_source.changes dpkg-buildpackage: info: source package tigr-glimmer dpkg-buildpackage: info: source version 3.02b-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_clean cd src; make clean make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f echo "* Make Target is " clean; * Make Target is clean set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " clean " #####"; make clean; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f delcher.o fasta.o gene.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMcommon.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f delcher.d fasta.d gene.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f icm.o build-icm.o build-fixed.o score-fixed.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMicm.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f build-icm build-fixed score-fixed rm -f icm.d build-icm.d build-fixed.d score-fixed.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f anomaly.o glimmer3.o long-orfs.o test.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f anomaly glimmer3 long-orfs test rm -f anomaly.d glimmer3.d long-orfs.d test.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f entropy-profile.o entropy-score.o extract.o multi-extract.o start-codon-distrib.o uncovered.o window-acgt.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f entropy-profile entropy-score extract multi-extract start-codon-distrib uncovered window-acgt rm -f entropy-profile.d entropy-score.d extract.d multi-extract.d start-codon-distrib.d uncovered.d window-acgt.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' rm -f bin/* lib/* obj/* make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_auto_build --sourcedirectory=src -- CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2" CXXFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" cd src && make -j6 "INSTALL=install --strip-program=true" "CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2" "CXXFLAGS=-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "LDFLAGS=-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' TGT=objs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ delcher.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e delcher.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/delcher.o delcher.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" delcher.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ fasta.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e fasta.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/fasta.o fasta.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" fasta.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ gene.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e gene.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/gene.o gene.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" gene.o ; \ fi ; gene.cc: In member function 'bool PWM_t::Read(FILE*)': gene.cc:319:11: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 319 | fscanf (fp, "%d", & width); | ~~~~~~~^~~~~~~~~~~~~~~~~~~ gene.cc:332:14: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 332 | fscanf (fp, "%s", tag); // skip tag in first column | ~~~~~~~^~~~~~~~~~~~~~~ gene.cc:335:17: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 335 | fscanf (fp, "%lf", & x); | ~~~~~~~^~~~~~~~~~~~~~~~ gene.cc: In function 'int Read_String(FILE*, char*&, long int&, char*, int)': gene.cc:848:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 848 | fgets (Line, MAX_LINE, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ ################### libGLMcommon.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a delcher.o fasta.o gene.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a a - delcher.o a - fasta.o a - gene.o make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/icm.o icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" icm.o ; \ fi ; icm.cc: In member function 'void Fixed_Length_ICM_t::read(const char*)': icm.cc:1491:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1491 | fread (line, sizeof (char), ID_STRING_LEN, fp); // skip the text header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ icm.cc:1519:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1519 | fread (permutation, sizeof (int), length, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ build-icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-icm.o build-icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-icm.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ build-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-fixed.o build-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-fixed.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ score-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e score-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/score-fixed.o score-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" score-fixed.o ; \ fi ; ################### libGLMicm.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a icm.o build-icm.o build-fixed.o score-fixed.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a a - icm.o a - build-icm.o a - build-fixed.o a - score-fixed.o ++++++++++++++++++++ build-icm ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-icm.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ build-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ score-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "score-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ anomaly.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e anomaly.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/anomaly.o anomaly.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" anomaly.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ glimmer3.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e glimmer3.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/glimmer3.o glimmer3.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" glimmer3.o ; \ fi ; glimmer3.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': glimmer3.cc:2607:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 2607 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ long-orfs.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e long-orfs.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/long-orfs.o long-orfs.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" long-orfs.o ; \ fi ; long-orfs.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': long-orfs.cc:1317:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1317 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ test.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e test.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/test.o test.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" test.o ; \ fi ; ++++++++++++++++++++ anomaly ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "anomaly.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ glimmer3 ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "glimmer3.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ long-orfs ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "long-orfs.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ test ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "test.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ entropy-profile.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-profile.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-profile.o entropy-profile.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-profile.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ entropy-score.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-score.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-score.o entropy-score.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-score.o ; \ fi ; entropy-score.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': entropy-score.cc:327:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 327 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/extract.o extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ multi-extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e multi-extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/multi-extract.o multi-extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" multi-extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ start-codon-distrib.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e start-codon-distrib.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/start-codon-distrib.o start-codon-distrib.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" start-codon-distrib.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ uncovered.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e uncovered.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/uncovered.o uncovered.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" uncovered.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ window-acgt.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e window-acgt.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/window-acgt.o window-acgt.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" window-acgt.o ; \ fi ; ++++++++++++++++++++ entropy-profile ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-profile.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ entropy-score ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-score.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ multi-extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "multi-extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ start-codon-distrib ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "start-codon-distrib.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ uncovered ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "uncovered.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ window-acgt ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "window-acgt.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=libs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=progs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/tigr-glimmer/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'tigr-glimmer' in '../tigr-glimmer_3.02b-6_i386.deb'. dpkg-deb: building package 'tigr-glimmer-dbgsym' in '../tigr-glimmer-dbgsym_3.02b-6_i386.deb'. dpkg-genbuildinfo --build=binary -O../tigr-glimmer_3.02b-6_i386.buildinfo dpkg-genchanges --build=binary -O../tigr-glimmer_3.02b-6_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/31094 and its subdirectories I: Current time: Thu Nov 21 01:14:29 -12 2024 I: pbuilder-time-stamp: 1732194869 Thu Nov 21 13:14:29 UTC 2024 I: Signing ./b1/tigr-glimmer_3.02b-6_i386.buildinfo as tigr-glimmer_3.02b-6_i386.buildinfo.asc Thu Nov 21 13:14:30 UTC 2024 I: Signed ./b1/tigr-glimmer_3.02b-6_i386.buildinfo as ./b1/tigr-glimmer_3.02b-6_i386.buildinfo.asc Thu Nov 21 13:14:30 UTC 2024 - build #1 for tigr-glimmer/unstable/i386 on infom07-i386 done. Starting cleanup. All cleanup done. Thu Nov 21 13:14:30 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-DxaDqaLT, removing. /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 13:14 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 13:13 b2 -rw------- 1 jenkins jenkins 3237 Nov 21 13:13 rbuildlog.byebiFd -rw-r--r-- 1 jenkins jenkins 2104 Oct 16 2021 tigr-glimmer_3.02b-6.dsc /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b1: total 1836 -rw-r--r-- 1 jenkins jenkins 83331 Nov 21 13:14 build.log -rw-r--r-- 1 jenkins jenkins 1442956 Nov 21 13:14 tigr-glimmer-dbgsym_3.02b-6_i386.deb -rw-r--r-- 1 jenkins jenkins 20516 Nov 21 13:14 tigr-glimmer_3.02b-6.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2104 Nov 21 13:14 tigr-glimmer_3.02b-6.dsc -rw-r--r-- 1 jenkins jenkins 4936 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.buildinfo -rw-r--r-- 1 jenkins jenkins 5818 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1609 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.changes -rw-r--r-- 1 jenkins jenkins 293996 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.deb -rw-r--r-- 1 jenkins jenkins 1472 Nov 21 13:14 tigr-glimmer_3.02b-6_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b2: total 0 Thu Nov 21 13:14:30 UTC 2024 I: Deleting $TMPDIR on infom07-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Nov 21 01:13:35 -12 2024 I: pbuilder-time-stamp: 1732194815 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [tigr-glimmer_3.02b-6.dsc] I: copying [./tigr-glimmer_3.02b.orig.tar.gz] I: copying [./tigr-glimmer_3.02b-6.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Oct 16 18:40:48 2021 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./tigr-glimmer_3.02b-6.dsc: no acceptable signature found dpkg-source: info: extracting tigr-glimmer in tigr-glimmer-3.02b dpkg-source: info: unpacking tigr-glimmer_3.02b.orig.tar.gz dpkg-source: info: unpacking tigr-glimmer_3.02b-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_gcc4.3.patch dpkg-source: info: applying mayhem.patch dpkg-source: info: applying make-errs.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/31094/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='b20ff1b0216c4407b43b2e9708c8c598' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='31094' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/pbuilderrc_CB8c --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b1 --logfile b1/build.log tigr-glimmer_3.02b-6.dsc' SUDO_GID='111' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom07-i386 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/31094/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19952 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 20.1 MB of archives. After unpacking 75.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB] Get: 4 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3+b1 [43.2 kB] Get: 5 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.22.5-2 [201 kB] Get: 6 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB] Get: 7 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-5 [1196 kB] Get: 8 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.2-11 [95.6 kB] Get: 9 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 10 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 11 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-4 [293 kB] Get: 12 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main i386 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main i386 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 23 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 24 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-5+b1 [9583 kB] Get: 25 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB] Get: 26 http://deb.debian.org/debian unstable/main i386 gettext i386 0.22.5-2 [1631 kB] Get: 27 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main i386 debhelper all 13.20 [915 kB] Fetched 20.1 MB in 0s (74.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19952 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_i386.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_i386.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_i386.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_i386.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../08-libpipeline1_1.5.8-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_i386.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/tigr-glimmer-3.02b/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../tigr-glimmer_3.02b-6_source.changes dpkg-buildpackage: info: source package tigr-glimmer dpkg-buildpackage: info: source version 3.02b-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_clean cd src; make clean make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f echo "* Make Target is " clean; * Make Target is clean set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " clean " #####"; make clean; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f delcher.o fasta.o gene.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMcommon.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f delcher.d fasta.d gene.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f icm.o build-icm.o build-fixed.o score-fixed.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMicm.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f build-icm build-fixed score-fixed rm -f icm.d build-icm.d build-fixed.d score-fixed.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f anomaly.o glimmer3.o long-orfs.o test.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f anomaly glimmer3 long-orfs test rm -f anomaly.d glimmer3.d long-orfs.d test.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f entropy-profile.o entropy-score.o extract.o multi-extract.o start-codon-distrib.o uncovered.o window-acgt.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f entropy-profile entropy-score extract multi-extract start-codon-distrib uncovered window-acgt rm -f entropy-profile.d entropy-score.d extract.d multi-extract.d start-codon-distrib.d uncovered.d window-acgt.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' rm -f bin/* lib/* obj/* make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_auto_build --sourcedirectory=src -- CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2" CXXFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" cd src && make -j6 "INSTALL=install --strip-program=true" "CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2" "CXXFLAGS=-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "LDFLAGS=-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' TGT=objs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ delcher.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e delcher.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/delcher.o delcher.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" delcher.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ fasta.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e fasta.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/fasta.o fasta.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" fasta.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ gene.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e gene.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/gene.o gene.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" gene.o ; \ fi ; gene.cc: In member function 'bool PWM_t::Read(FILE*)': gene.cc:319:11: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 319 | fscanf (fp, "%d", & width); | ~~~~~~~^~~~~~~~~~~~~~~~~~~ gene.cc:332:14: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 332 | fscanf (fp, "%s", tag); // skip tag in first column | ~~~~~~~^~~~~~~~~~~~~~~ gene.cc:335:17: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 335 | fscanf (fp, "%lf", & x); | ~~~~~~~^~~~~~~~~~~~~~~~ gene.cc: In function 'int Read_String(FILE*, char*&, long int&, char*, int)': gene.cc:848:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 848 | fgets (Line, MAX_LINE, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ ################### libGLMcommon.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a delcher.o fasta.o gene.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a a - delcher.o a - fasta.o a - gene.o make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/icm.o icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" icm.o ; \ fi ; icm.cc: In member function 'void Fixed_Length_ICM_t::read(const char*)': icm.cc:1491:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1491 | fread (line, sizeof (char), ID_STRING_LEN, fp); // skip the text header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ icm.cc:1519:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1519 | fread (permutation, sizeof (int), length, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ build-icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-icm.o build-icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-icm.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ build-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-fixed.o build-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-fixed.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ score-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e score-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/score-fixed.o score-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" score-fixed.o ; \ fi ; ################### libGLMicm.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a icm.o build-icm.o build-fixed.o score-fixed.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a a - icm.o a - build-icm.o a - build-fixed.o a - score-fixed.o ++++++++++++++++++++ build-icm ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-icm.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ build-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ score-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "score-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ anomaly.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e anomaly.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/anomaly.o anomaly.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" anomaly.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ glimmer3.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e glimmer3.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/glimmer3.o glimmer3.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" glimmer3.o ; \ fi ; glimmer3.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': glimmer3.cc:2607:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 2607 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ long-orfs.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e long-orfs.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/long-orfs.o long-orfs.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" long-orfs.o ; \ fi ; long-orfs.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': long-orfs.cc:1317:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1317 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ test.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e test.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/test.o test.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" test.o ; \ fi ; ++++++++++++++++++++ anomaly ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "anomaly.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ glimmer3 ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "glimmer3.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ long-orfs ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "long-orfs.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ test ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "test.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ entropy-profile.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-profile.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-profile.o entropy-profile.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-profile.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ entropy-score.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-score.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-score.o entropy-score.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-score.o ; \ fi ; entropy-score.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': entropy-score.cc:327:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 327 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/extract.o extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ multi-extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e multi-extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/multi-extract.o multi-extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" multi-extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ start-codon-distrib.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e start-codon-distrib.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/start-codon-distrib.o start-codon-distrib.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" start-codon-distrib.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ uncovered.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e uncovered.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/uncovered.o uncovered.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" uncovered.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ window-acgt.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e window-acgt.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/window-acgt.o window-acgt.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" window-acgt.o ; \ fi ; ++++++++++++++++++++ entropy-profile ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-profile.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ entropy-score ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-score.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ multi-extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "multi-extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ start-codon-distrib ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "start-codon-distrib.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ uncovered ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "uncovered.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ window-acgt ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "window-acgt.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=libs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=progs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/tigr-glimmer/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'tigr-glimmer' in '../tigr-glimmer_3.02b-6_i386.deb'. dpkg-deb: building package 'tigr-glimmer-dbgsym' in '../tigr-glimmer-dbgsym_3.02b-6_i386.deb'. dpkg-genbuildinfo --build=binary -O../tigr-glimmer_3.02b-6_i386.buildinfo dpkg-genchanges --build=binary -O../tigr-glimmer_3.02b-6_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/31094 and its subdirectories I: Current time: Thu Nov 21 01:14:29 -12 2024 I: pbuilder-time-stamp: 1732194869 Thu Nov 21 13:14:31 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom08-i386.debian.net. Thu Nov 21 13:14:31 UTC 2024 I: Preparing to do remote build '2' on infom08-i386.debian.net. Thu Nov 21 13:14:31 UTC 2024 - checking /var/lib/jenkins/offline_nodes if infom08-i386.debian.net is marked as down. Thu Nov 21 13:14:31 UTC 2024 - checking via ssh if infom08-i386.debian.net is up. removed '/tmp/read-only-fs-test-rz6OiW' ==================================================================================== Wed Dec 24 19:37:33 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on infom08-i386, called using "2 tigr-glimmer unstable /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh 3.02b-6" as arguments. Wed Dec 24 19:37:33 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-iaYMAqnI" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Dec 24 19:37:33 UTC 2025 I: Downloading source for unstable/tigr-glimmer=3.02b-6 Reading package lists... NOTICE: 'tigr-glimmer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tigr-glimmer.git Please use: git clone https://salsa.debian.org/med-team/tigr-glimmer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 5661 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (dsc) [2104 B] Get:2 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (tar) [5638 kB] Get:3 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (diff) [20.5 kB] Fetched 5661 kB in 1s (9519 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'tigr-glimmer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tigr-glimmer.git Please use: git clone https://salsa.debian.org/med-team/tigr-glimmer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 5661 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (dsc) [2104 B] Get:2 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (tar) [5638 kB] Get:3 http://deb.debian.org/debian unstable/main tigr-glimmer 3.02b-6 (diff) [20.5 kB] Fetched 5661 kB in 1s (9519 kB/s) Download complete and in download only mode ============================================================================= Re-Building tigr-glimmer in unstable on i386 on infom08-i386 now. Date: Wed Dec 24 19:37:34 UTC 2025 Date UTC: Wed Dec 24 19:37:34 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/pbuilderrc_YvYD + case ${ARCH} in + let NUM_CPU-=3 + case $ARCH in + locale=de_CH + language=de + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' tigr-glimmer = debian-installer -o tigr-glimmer = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' tigr-glimmer = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/pbuilderrc_YvYD --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b2 --logfile b2/build.log tigr-glimmer_3.02b-6.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build I: Current time: Thu Dec 25 09:37:34 +14 2025 I: pbuilder-time-stamp: 1766605054 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [tigr-glimmer_3.02b-6.dsc] I: copying [./tigr-glimmer_3.02b.orig.tar.gz] I: copying [./tigr-glimmer_3.02b-6.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Oct 16 18:40:48 2021 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./tigr-glimmer_3.02b-6.dsc: no acceptable signature found dpkg-source: info: extracting tigr-glimmer in tigr-glimmer-3.02b dpkg-source: info: unpacking tigr-glimmer_3.02b.orig.tar.gz dpkg-source: info: unpacking tigr-glimmer_3.02b-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_gcc4.3.patch dpkg-source: info: applying mayhem.patch dpkg-source: info: applying make-errs.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D01_modify_environment starting debug: Running on infom08-i386. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Dec 24 19:37 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=i386 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=5 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' LANG=C LANGUAGE=de_CH:de LC_ALL=C LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so MACHTYPE=i686-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=29158 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/pbuilderrc_YvYD --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b2 --logfile b2/build.log tigr-glimmer_3.02b-6.dsc' SUDO_GID=111 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' I: uname -a Linux i-capture-the-hostname 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19952 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 20.1 MB of archives. After unpacking 75.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB] Get: 4 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3+b1 [43.2 kB] Get: 5 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.22.5-2 [201 kB] Get: 6 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB] Get: 7 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-5 [1196 kB] Get: 8 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.2-11 [95.6 kB] Get: 9 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB] Get: 10 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB] Get: 11 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-4 [293 kB] Get: 12 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main i386 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main i386 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB] Get: 23 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 24 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-5+b1 [9583 kB] Get: 25 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b1 [734 kB] Get: 26 http://deb.debian.org/debian unstable/main i386 gettext i386 0.22.5-2 [1631 kB] Get: 27 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main i386 debhelper all 13.20 [915 kB] Fetched 20.1 MB in 0s (71.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19952 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_i386.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_i386.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_i386.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_i386.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../08-libpipeline1_1.5.8-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_i386.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:i386. Preparing to unpack .../21-libelf1t64_0.192-4_i386.deb ... Unpacking libelf1t64:i386 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_i386.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:i386. Preparing to unpack .../23-libicu72_72.1-5+b1_i386.deb ... Unpacking libicu72:i386 (72.1-5+b1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_i386.deb ... Unpacking libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_i386.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Setting up libpipeline1:i386 (1.5.8-1) ... Setting up libicu72:i386 (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:i386 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:i386 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:i386 (0.0.8-1+b2) ... Setting up libxml2:i386 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.20) ... Processing triggers for libc-bin (2.40-3) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/29158/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/29158/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/tigr-glimmer-3.02b/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../tigr-glimmer_3.02b-6_source.changes dpkg-buildpackage: info: source package tigr-glimmer dpkg-buildpackage: info: source version 3.02b-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_clean cd src; make clean make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f echo "* Make Target is " clean; * Make Target is clean set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " clean " #####"; make clean; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f delcher.o fasta.o gene.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMcommon.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f delcher.d fasta.d gene.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f icm.o build-icm.o build-fixed.o score-fixed.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMicm.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f build-icm build-fixed score-fixed rm -f icm.d build-icm.d build-fixed.d score-fixed.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f anomaly.o glimmer3.o long-orfs.o test.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f anomaly glimmer3 long-orfs test rm -f anomaly.d glimmer3.d long-orfs.d test.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f entropy-profile.o entropy-score.o extract.o multi-extract.o start-codon-distrib.o uncovered.o window-acgt.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f entropy-profile entropy-score extract multi-extract start-codon-distrib uncovered window-acgt rm -f entropy-profile.d entropy-score.d extract.d multi-extract.d start-codon-distrib.d uncovered.d window-acgt.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' rm -f bin/* lib/* obj/* make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_auto_build --sourcedirectory=src -- CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2" CXXFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" cd src && make -j5 "INSTALL=install --strip-program=true" "CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2" "CXXFLAGS=-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "LDFLAGS=-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' TGT=objs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ delcher.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e delcher.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/delcher.o delcher.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" delcher.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ fasta.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e fasta.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/fasta.o fasta.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" fasta.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ gene.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e gene.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/gene.o gene.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" gene.o ; \ fi ; gene.cc: In member function 'bool PWM_t::Read(FILE*)': gene.cc:319:11: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 319 | fscanf (fp, "%d", & width); | ~~~~~~~^~~~~~~~~~~~~~~~~~~ gene.cc:332:14: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 332 | fscanf (fp, "%s", tag); // skip tag in first column | ~~~~~~~^~~~~~~~~~~~~~~ gene.cc:335:17: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 335 | fscanf (fp, "%lf", & x); | ~~~~~~~^~~~~~~~~~~~~~~~ gene.cc: In function 'int Read_String(FILE*, char*&, long int&, char*, int)': gene.cc:848:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 848 | fgets (Line, MAX_LINE, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ ################### libGLMcommon.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a delcher.o fasta.o gene.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a a - delcher.o a - fasta.o a - gene.o make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/icm.o icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" icm.o ; \ fi ; icm.cc: In member function 'void Fixed_Length_ICM_t::read(const char*)': icm.cc:1491:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1491 | fread (line, sizeof (char), ID_STRING_LEN, fp); // skip the text header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ icm.cc:1519:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1519 | fread (permutation, sizeof (int), length, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ build-icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-icm.o build-icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-icm.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ build-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-fixed.o build-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-fixed.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ score-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e score-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/score-fixed.o score-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" score-fixed.o ; \ fi ; ################### libGLMicm.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a icm.o build-icm.o build-fixed.o score-fixed.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a a - icm.o a - build-icm.o a - build-fixed.o a - score-fixed.o ++++++++++++++++++++ build-icm ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-icm.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ build-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ score-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "score-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ anomaly.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e anomaly.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/anomaly.o anomaly.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" anomaly.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ glimmer3.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e glimmer3.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/glimmer3.o glimmer3.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" glimmer3.o ; \ fi ; glimmer3.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': glimmer3.cc:2607:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 2607 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ long-orfs.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e long-orfs.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/long-orfs.o long-orfs.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" long-orfs.o ; \ fi ; long-orfs.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': long-orfs.cc:1317:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1317 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ test.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e test.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/test.o test.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" test.o ; \ fi ; ++++++++++++++++++++ anomaly ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "anomaly.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ glimmer3 ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "glimmer3.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ long-orfs ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "long-orfs.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ test ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "test.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ entropy-profile.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-profile.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-profile.o entropy-profile.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-profile.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ entropy-score.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-score.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-score.o entropy-score.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-score.o ; \ fi ; entropy-score.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': entropy-score.cc:327:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 327 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/extract.o extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ multi-extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e multi-extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/multi-extract.o multi-extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" multi-extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ start-codon-distrib.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e start-codon-distrib.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/start-codon-distrib.o start-codon-distrib.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" start-codon-distrib.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ uncovered.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e uncovered.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/uncovered.o uncovered.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" uncovered.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ window-acgt.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e window-acgt.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/window-acgt.o window-acgt.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" window-acgt.o ; \ fi ; ++++++++++++++++++++ entropy-profile ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-profile.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ entropy-score ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-score.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ multi-extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "multi-extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ start-codon-distrib ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "start-codon-distrib.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ uncovered ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "uncovered.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ window-acgt ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "window-acgt.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=libs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=progs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/tigr-glimmer/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'tigr-glimmer-dbgsym' in '../tigr-glimmer-dbgsym_3.02b-6_i386.deb'. dpkg-deb: building package 'tigr-glimmer' in '../tigr-glimmer_3.02b-6_i386.deb'. dpkg-genbuildinfo --build=binary -O../tigr-glimmer_3.02b-6_i386.buildinfo dpkg-genchanges --build=binary -O../tigr-glimmer_3.02b-6_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/29158/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/29158/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/29158 and its subdirectories I: Current time: Thu Dec 25 09:38:30 +14 2025 I: pbuilder-time-stamp: 1766605110 + false + set +x Wed Dec 24 19:38:30 UTC 2025 I: Signing ./b2/tigr-glimmer_3.02b-6_i386.buildinfo as tigr-glimmer_3.02b-6_i386.buildinfo.asc Wed Dec 24 19:38:30 UTC 2025 I: Signed ./b2/tigr-glimmer_3.02b-6_i386.buildinfo as ./b2/tigr-glimmer_3.02b-6_i386.buildinfo.asc Wed Dec 24 19:38:30 UTC 2025 - build #2 for tigr-glimmer/unstable/i386 on infom08-i386 done. Starting cleanup. All cleanup done. Wed Dec 24 19:38:30 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-iaYMAqnI, removing. /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh: total 104 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 13:14 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 13:15 b2 -rw------- 1 jenkins jenkins 86854 Nov 21 13:14 rbuildlog.byebiFd -rw-r--r-- 1 jenkins jenkins 2104 Oct 16 2021 tigr-glimmer_3.02b-6.dsc /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b1: total 1848 -rw-r--r-- 1 jenkins jenkins 83331 Nov 21 13:14 build.log -rw-r--r-- 1 jenkins jenkins 1442956 Nov 21 13:14 tigr-glimmer-dbgsym_3.02b-6_i386.deb -rw-r--r-- 1 jenkins jenkins 20516 Nov 21 13:14 tigr-glimmer_3.02b-6.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2104 Nov 21 13:14 tigr-glimmer_3.02b-6.dsc -rw-r--r-- 1 jenkins jenkins 4936 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.buildinfo -rw-r--r-- 1 jenkins jenkins 5818 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1609 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.changes -rw-r--r-- 1 jenkins jenkins 293996 Nov 21 13:14 tigr-glimmer_3.02b-6_i386.deb -rw-r--r-- 1 jenkins jenkins 1472 Nov 21 13:14 tigr-glimmer_3.02b-6_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b2: total 1836 -rw-r--r-- 1 jenkins jenkins 85261 Nov 21 13:15 build.log -rw-r--r-- 1 jenkins jenkins 1442956 Nov 21 13:15 tigr-glimmer-dbgsym_3.02b-6_i386.deb -rw-r--r-- 1 jenkins jenkins 20516 Nov 21 13:15 tigr-glimmer_3.02b-6.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2104 Nov 21 13:15 tigr-glimmer_3.02b-6.dsc -rw-r--r-- 1 jenkins jenkins 4945 Nov 21 13:15 tigr-glimmer_3.02b-6_i386.buildinfo -rw-r--r-- 1 jenkins jenkins 5827 Nov 21 13:15 tigr-glimmer_3.02b-6_i386.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1609 Nov 21 13:15 tigr-glimmer_3.02b-6_i386.changes -rw-r--r-- 1 jenkins jenkins 293996 Nov 21 13:15 tigr-glimmer_3.02b-6_i386.deb -rw-r--r-- 1 jenkins jenkins 1472 Nov 21 13:15 tigr-glimmer_3.02b-6_source.changes Thu Nov 21 13:15:31 UTC 2024 I: Deleting $TMPDIR on infom08-i386.debian.net. Thu Nov 21 13:15:32 UTC 2024 I: tigr-glimmer_3.02b-6_i386.changes: Format: 1.8 Date: Sat, 16 Oct 2021 20:37:42 +0200 Source: tigr-glimmer Binary: tigr-glimmer tigr-glimmer-dbgsym Architecture: i386 Version: 3.02b-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: tigr-glimmer - Gene detection in archea and bacteria Closes: 984367 Changes: tigr-glimmer (3.02b-6) unstable; urgency=medium . * d/rules: prevent CXXDEFS from setting __cplusplus (Closes: #984367) * d/control: add myself to uploaders * d/watch: fall back to http protocol to repair scan * Standards-Version: 4.6.0 (routine-update) * debhelper-compat 13 (routine-update) Checksums-Sha1: c62bb931c2f6fc17990927184905c7d086e94be8 1442956 tigr-glimmer-dbgsym_3.02b-6_i386.deb b5aaf9a3391b52a79d926d8149986f73c7c8255d 4936 tigr-glimmer_3.02b-6_i386.buildinfo 93ad9f7b11291c5df13b0c2337b3bdd5ed23d845 293996 tigr-glimmer_3.02b-6_i386.deb Checksums-Sha256: 4114e4f7b5c063f3c08787963a23a550be8edf13bd6e565b75c301680b69e0fc 1442956 tigr-glimmer-dbgsym_3.02b-6_i386.deb 6494aeafe293fad02ac2bf1b5305506943fba19bc7e21e7d30384ead7dd60c70 4936 tigr-glimmer_3.02b-6_i386.buildinfo 38b2b9f4d7f5bb3602b4df37c12576968979dd8f4aa8fc8f388a484aa472b6eb 293996 tigr-glimmer_3.02b-6_i386.deb Files: 3cd0dfd56eef63e5a3df735c01d41cfb 1442956 debug optional tigr-glimmer-dbgsym_3.02b-6_i386.deb 048a87ec7994e255c50523189530b34c 4936 science optional tigr-glimmer_3.02b-6_i386.buildinfo f872e49dee2341475ce923e6254c3a80 293996 science optional tigr-glimmer_3.02b-6_i386.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/tigr-glimmer_3.02b-6.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/tigr-glimmer_3.02b-6.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/tigr-glimmer_3.02b-6.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/tigr-glimmer_3.02b-6.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/i386/tigr-glimmer_3.02b-6_i386.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/tigr-glimmer_3.02b-6.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2024-11-21 13:14:30.831018120 +0000 +++ b2/build.log 2024-11-21 13:15:31.708280181 +0000 @@ -1,6 +1,7 @@ +W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build -I: Current time: Thu Nov 21 01:13:35 -12 2024 -I: pbuilder-time-stamp: 1732194815 +I: Current time: Thu Dec 25 09:37:34 +14 2025 +I: pbuilder-time-stamp: 1766605054 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -31,53 +32,84 @@ dpkg-source: info: applying make-errs.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/31094/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D01_modify_environment starting +debug: Running on infom08-i386. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Dec 24 19:37 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='i386' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='i386' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=i386 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=5 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=i686 + HOST_ARCH=i386 IFS=' ' - INVOCATION_ID='b20ff1b0216c4407b43b2e9708c8c598' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - LD_LIBRARY_PATH='/usr/lib/libeatmydata' - LD_PRELOAD='libeatmydata.so' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='31094' - PS1='# ' - PS2='> ' + LANG=C + LANGUAGE=de_CH:de + LC_ALL=C + LD_LIBRARY_PATH=/usr/lib/libeatmydata + LD_PRELOAD=libeatmydata.so + MACHTYPE=i686-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=29158 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/pbuilderrc_CB8c --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b1 --logfile b1/build.log tigr-glimmer_3.02b-6.dsc' - SUDO_GID='111' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/pbuilderrc_YvYD --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b2 --logfile b2/build.log tigr-glimmer_3.02b-6.dsc' + SUDO_GID=111 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom07-i386 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/31094/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -142,7 +174,7 @@ Get: 27 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main i386 debhelper all 13.20 [915 kB] -Fetched 20.1 MB in 0s (74.8 MB/s) +Fetched 20.1 MB in 0s (71.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19952 files and directories currently installed.) @@ -273,7 +305,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/tigr-glimmer-3.02b/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../tigr-glimmer_3.02b-6_source.changes +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/tigr-glimmer-3.02b/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../tigr-glimmer_3.02b-6_source.changes dpkg-buildpackage: info: source package tigr-glimmer dpkg-buildpackage: info: source version 3.02b-6 dpkg-buildpackage: info: source distribution unstable @@ -404,7 +440,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_auto_build --sourcedirectory=src -- CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2" CXXFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro -Wl,-z,now" - cd src && make -j6 "INSTALL=install --strip-program=true" "CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2" "CXXFLAGS=-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "LDFLAGS=-Wl,-z,relro -Wl,-z,now" + cd src && make -j5 "INSTALL=install --strip-program=true" "CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2" "CXXFLAGS=-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -Wformat -Werror=format-security" "LDFLAGS=-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' TGT=objs echo "* Make Target is " all; @@ -1120,8 +1156,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'tigr-glimmer' in '../tigr-glimmer_3.02b-6_i386.deb'. dpkg-deb: building package 'tigr-glimmer-dbgsym' in '../tigr-glimmer-dbgsym_3.02b-6_i386.deb'. +dpkg-deb: building package 'tigr-glimmer' in '../tigr-glimmer_3.02b-6_i386.deb'. dpkg-genbuildinfo --build=binary -O../tigr-glimmer_3.02b-6_i386.buildinfo dpkg-genchanges --build=binary -O../tigr-glimmer_3.02b-6_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1129,12 +1165,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/29158/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/31094 and its subdirectories -I: Current time: Thu Nov 21 01:14:29 -12 2024 -I: pbuilder-time-stamp: 1732194869 +I: removing directory /srv/workspace/pbuilder/29158 and its subdirectories +I: Current time: Thu Dec 25 09:38:30 +14 2025 +I: pbuilder-time-stamp: 1766605110 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/tigr-glimmer_3.02b-6.diff: 69.0% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/tigr-glimmer_3.02b-6.diff.gz b2/build.log: 89.1% -- replaced with stdout Compressing the 1st log... b1/build.log: 89.7% -- replaced with stdout Thu Nov 21 13:15:33 UTC 2024 I: diffoscope 283 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_tigr-glimmer_unstable_i386_1732194933 + touch /var/log/reproducible-builds/diffoscope_stamp_tigr-glimmer_unstable_i386_1732194933 + RESULT=0 + systemd-run '--description=diffoscope on tigr-glimmer/3.02b-6 in unstable/i386' --slice=rb-build-diffoscope.slice -u rb-diffoscope-i386_13-51166 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh --run-session -c jenkins-reproducible-unstable-diffoscope-ff9e2983-1781-48b1-b18b-e00ae8a8fc1a -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/dbd-tmp-IufopmM ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/tigr-glimmer_3.02b-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/tigr-glimmer_3.02b-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/tigr-glimmer_3.02b-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b1/tigr-glimmer_3.02b-6_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b2/tigr-glimmer_3.02b-6_i386.changes' + false + set +x Running as unit: rb-diffoscope-i386_13-51166.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/tigr-glimmer_3.02b-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/tigr-glimmer_3.02b-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/tigr-glimmer_3.02b-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b1/tigr-glimmer_3.02b-6_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.RE1mRQZh/b2/tigr-glimmer_3.02b-6_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.494s) 0.494s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.043s) 0.043s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1.024s CPU time consumed: 991ms _ _ _ _ | |_(_) __ _ _ __ __ _| (_)_ __ ___ _ __ ___ ___ _ __ | __| |/ _` | '__|____ / _` | | | '_ ` _ \| '_ ` _ \ / _ \ '__| | |_| | (_| | | |_____| (_| | | | | | | | | | | | | | __/ | \__|_|\__, |_| \__, |_|_|_| |_| |_|_| |_| |_|\___|_| |___/ |___/ Thu Nov 21 13:15:35 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Thu Nov 21 13:15:35 UTC 2024 I: tigr-glimmer from unstable built successfully and reproducibly on i386. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-11-21 13:15:35] INFO: Starting at 2024-11-21 13:15:35.674665 [2024-11-21 13:15:35] INFO: Generating the pages of 1 package(s) [2024-11-21 13:15:36] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/i386/tigr-glimmer didn't produce a buildlog, even though it has been built. [2024-11-21 13:15:36] INFO: Finished at 2024-11-21 13:15:36.246580, took: 0:00:00.571923 Thu Nov 21 13:15:36 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/i386/tigr-glimmer.html Thu Nov 21 13:15:36 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Nov 21 13:15:36 UTC 2024 I: Submitting 8.0K b1/tigr-glimmer_3.02b-6_i386.buildinfo.asc https://buildinfo.debian.net/b5aaf9a3391b52a79d926d8149986f73c7c8255d/tigr-glimmer_3.02b-6_i386 Thu Nov 21 13:15:37 UTC 2024 I: Submitting 8.0K b2/tigr-glimmer_3.02b-6_i386.buildinfo.asc https://buildinfo.debian.net/d6d4e894e089a58c8afda0d1655cb9d896805194/tigr-glimmer_3.02b-6_i386 Thu Nov 21 13:15:37 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Nov 21 13:15:37 UTC 2024 I: Done submitting .buildinfo files. Thu Nov 21 13:15:37 UTC 2024 I: Removing signed tigr-glimmer_3.02b-6_i386.buildinfo.asc files: removed './b1/tigr-glimmer_3.02b-6_i386.buildinfo.asc' removed './b2/tigr-glimmer_3.02b-6_i386.buildinfo.asc' 1732194937 i386 unstable tigr-glimmer Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/tigr-glimmer_3.02b-6.rbuild.log: 87.0% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/tigr-glimmer_3.02b-6.rbuild.log.gz [2024-11-21 13:15:38] INFO: Starting at 2024-11-21 13:15:38.208700 [2024-11-21 13:15:38] INFO: Generating the pages of 1 package(s) [2024-11-21 13:15:38] INFO: Finished at 2024-11-21 13:15:38.704898, took: 0:00:00.496210 All cleanup done. Thu Nov 21 13:15:38 UTC 2024 - total duration: 0h 2m 16s. Thu Nov 21 13:15:38 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-XYZVZfkw, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 2min 19.221s CPU time consumed: 7.847s