Thu May 16 17:16:32 UTC 2024 I: starting to build stringtie/unstable/i386 on jenkins on '2024-05-16 17:16' Thu May 16 17:16:32 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_12/11387/console.log Thu May 16 17:16:32 UTC 2024 I: Downloading source for unstable/stringtie=2.2.1+ds-3 --2024-05-16 17:16:33-- http://deb.debian.org/debian/pool/main/s/stringtie/stringtie_2.2.1%2bds-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2391 (2.3K) [text/prs.lines.tag] Saving to: ‘stringtie_2.2.1+ds-3.dsc’ 0K .. 100% 298M=0s 2024-05-16 17:16:33 (298 MB/s) - ‘stringtie_2.2.1+ds-3.dsc’ saved [2391/2391] Thu May 16 17:16:33 UTC 2024 I: stringtie_2.2.1+ds-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: stringtie Binary: stringtie Architecture: any Version: 2.2.1+ds-3 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://ccb.jhu.edu/software/stringtie/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/stringtie Vcs-Git: https://salsa.debian.org/med-team/stringtie.git Testsuite: autopkgtest Testsuite-Triggers: samtools Build-Depends: debhelper-compat (= 13), libbam-dev, libhts-dev, libbz2-dev, help2man Package-List: stringtie deb science optional arch=any Checksums-Sha1: 375ba0555c56a95157755fd14d51d7cce1a868be 1755636 stringtie_2.2.1+ds.orig-debian-tests-data.tar.xz 2ec8514bb1887739f8785f93f6983b7616a2737c 294940 stringtie_2.2.1+ds.orig.tar.xz f2a0fa75d1856625f4ec144a78e5a6aa7ef6be5c 11812 stringtie_2.2.1+ds-3.debian.tar.xz Checksums-Sha256: e5f331c0d7c655465d3b6fefb10fddc441bd73a33f086cc8ee5943b393eb6164 1755636 stringtie_2.2.1+ds.orig-debian-tests-data.tar.xz f95f3f60ce107291b1e0e94ed8af88c06d7a982f7f9c479b891ac0084d5ea38a 294940 stringtie_2.2.1+ds.orig.tar.xz 1ccc2b26e24d5908b4fcada0672c67537609d2e1bf34eb10b70a065bda10cf05 11812 stringtie_2.2.1+ds-3.debian.tar.xz Files: dcd76725ba9859dc4c7bd31147859756 1755636 stringtie_2.2.1+ds.orig-debian-tests-data.tar.xz 71ee8816dad177c45ecfd01e8c3067d4 294940 stringtie_2.2.1+ds.orig.tar.xz 8c292615d9ffd10a25ab7a01c031aa26 11812 stringtie_2.2.1+ds-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmW0GAERHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGHAw/9FfyjQkEc5n/C4xo6NKVzXAMRLQ4wrBTP pfdR8CYNeCF2zyea3gpW2Vpuq5OJRDNZcGK6YQ3vaYr80K/ExKskJ95oBtdaB2zn BHB7il93uC5Zkzf4VgJZpWaCll+fG+tRYNesQBIEnbvG3Azz1+/cW5r7LOYPHTFL eg0plqU9yplI2S3vje3g8Zaf1aVz7t/CPZGGEUZU17KoaUsNkv/9rw6X4KVk1S19 RE2axdPbTHHZnigW39lKS+7YM4ZlwARGg8H3v6P9K+q7Ly4nqzrJSAT8xlDqpjg6 Rsk4GoNUcGqBcjsmOlAyrDNhOArzOfOJes5XqEm8MD90GW/lkr237T5vRhKj1LhB aOfp1SG9Opvh17nxwrapWURTIbld4CYrYINM2cGc0+l6XXtfPYbKr5J+O4G8RtXV PQ1IeIUXNtGI2uqj9zQOJ6AF9wpH5HUjNoSk5Is6c7L1/wVDjQdz3I9HUiuhNsp2 VWliwQco8iyG/rPM8R9SU7W5ZqheOFFwf1M87r+PyZ5ZGcw8HfVuS8sWehjb4EJg tOeBg7dfZCIerfvqvyDZyW9I6v3y/tBwqxRzKncOIWdzTy0p+ttl915akS3bvnFe vvH03lizN15RXdAVowwgewI36GMqzgg2d5g0pOnloVeP7x89tz+bX9IGGoqU8YAo cKs4S6xvfVs= =8mDJ -----END PGP SIGNATURE----- Thu May 16 17:16:33 UTC 2024 I: Checking whether the package is not for us Thu May 16 17:16:33 UTC 2024 I: Starting 1st build on remote node ionos12-i386.debian.net. Thu May 16 17:16:33 UTC 2024 I: Preparing to do remote build '1' on ionos12-i386.debian.net. Thu May 16 17:18:29 UTC 2024 I: Deleting $TMPDIR on ionos12-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu May 16 05:16:35 -12 2024 I: pbuilder-time-stamp: 1715879795 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 [stringtie_2.2.1+ds-3.dsc] I: copying [./stringtie_2.2.1+ds.orig-debian-tests-data.tar.xz] I: copying [./stringtie_2.2.1+ds.orig.tar.xz] I: copying [./stringtie_2.2.1+ds-3.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Jan 26 20:37:21 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./stringtie_2.2.1+ds-3.dsc: no acceptable signature found dpkg-source: info: extracting stringtie in stringtie-2.2.1+ds dpkg-source: info: unpacking stringtie_2.2.1+ds.orig.tar.xz dpkg-source: info: unpacking stringtie_2.2.1+ds.orig-debian-tests-data.tar.xz dpkg-source: info: unpacking stringtie_2.2.1+ds-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Makefile.patch dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/29504/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=11 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='efd113c39bf444e09a14682dd2038e71' 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='29504' 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.7QChocpy/pbuilderrc_bVb5 --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.7QChocpy/b1 --logfile b1/build.log stringtie_2.2.1+ds-3.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos12-i386 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 15 07:43 /bin -> usr/bin I: user script /srv/workspace/pbuilder/29504/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), libbam-dev, libhts-dev, libbz2-dev, help2man dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19686 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. pbuilder-satisfydepends-dummy depends on libbam-dev; however: Package libbam-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man 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} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libbam-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} liblocale-gettext-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libpsl5t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix wget 0 packages upgraded, 57 newly installed, 0 to remove and 0 not upgraded. Need to get 26.0 MB of archives. After unpacking 91.4 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main i386 liblocale-gettext-perl i386 1.07-7 [15.1 kB] Get: 2 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.22 [22.4 kB] Get: 3 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3 [314 kB] Get: 4 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3 [114 kB] Get: 5 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3 [42.9 kB] Get: 6 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.21-14+b1 [162 kB] Get: 7 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 8 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-4 [1194 kB] Get: 9 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.1-1 [98.5 kB] Get: 10 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.7-2 [39.7 kB] Get: 11 http://deb.debian.org/debian unstable/main i386 man-db i386 2.12.1-1 [1421 kB] Get: 12 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-4 [293 kB] Get: 13 http://deb.debian.org/debian unstable/main i386 autoconf all 2.71-3 [332 kB] Get: 14 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian unstable/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian unstable/main i386 autopoint all 0.21-14 [496 kB] Get: 17 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 18 http://deb.debian.org/debian unstable/main i386 libtool all 2.4.7-7 [517 kB] Get: 19 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian unstable/main i386 libsub-override-perl all 0.10-1 [10.6 kB] Get: 22 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.191-1+b1 [194 kB] Get: 25 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB] Get: 26 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-4+b1 [9549 kB] Get: 27 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.9.14+dfsg-1.3+b3 [727 kB] Get: 28 http://deb.debian.org/debian unstable/main i386 gettext i386 0.21-14+b1 [1311 kB] Get: 29 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian unstable/main i386 debhelper all 13.15.3 [901 kB] Get: 32 http://deb.debian.org/debian unstable/main i386 help2man i386 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian unstable/main i386 zlib1g-dev i386 1:1.3.dfsg+really1.3.1-1 [915 kB] Get: 34 http://deb.debian.org/debian unstable/main i386 libbam-dev i386 0.1.19+dfsg-6 [130 kB] Get: 35 http://deb.debian.org/debian unstable/main i386 libbrotli1 i386 1.1.0-2+b3 [314 kB] Get: 36 http://deb.debian.org/debian unstable/main i386 libbz2-dev i386 1.0.8-5.1 [31.4 kB] Get: 37 http://deb.debian.org/debian unstable/main i386 libcom-err2 i386 1.47.1~rc2-1 [22.8 kB] Get: 38 http://deb.debian.org/debian unstable/main i386 libkrb5support0 i386 1.20.1-6+b1 [36.1 kB] Get: 39 http://deb.debian.org/debian unstable/main i386 libk5crypto3 i386 1.20.1-6+b1 [83.2 kB] Get: 40 http://deb.debian.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-3 [9432 B] Get: 41 http://deb.debian.org/debian unstable/main i386 libkrb5-3 i386 1.20.1-6+b1 [360 kB] Get: 42 http://deb.debian.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.20.1-6+b1 [145 kB] Get: 43 http://deb.debian.org/debian unstable/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-6 [20.5 kB] Get: 44 http://deb.debian.org/debian unstable/main i386 libsasl2-2 i386 2.1.28+dfsg1-6 [60.6 kB] Get: 45 http://deb.debian.org/debian unstable/main i386 libldap-2.5-0 i386 2.5.17+dfsg-1 [198 kB] Get: 46 http://deb.debian.org/debian unstable/main i386 libnghttp2-14 i386 1.61.0-1+b1 [84.0 kB] Get: 47 http://deb.debian.org/debian unstable/main i386 libpsl5t64 i386 0.21.2-1.1 [57.4 kB] Get: 48 http://deb.debian.org/debian unstable/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b4 [62.0 kB] Get: 49 http://deb.debian.org/debian unstable/main i386 libssh2-1t64 i386 1.11.0-4.1+b2 [225 kB] Get: 50 http://deb.debian.org/debian unstable/main i386 libcurl3t64-gnutls i386 8.7.1-5 [468 kB] Get: 51 http://deb.debian.org/debian unstable/main i386 libcurl4-gnutls-dev i386 8.7.1-5 [589 kB] Get: 52 http://deb.debian.org/debian unstable/main i386 libdeflate0 i386 1.20-1 [46.9 kB] Get: 53 http://deb.debian.org/debian unstable/main i386 libdeflate-dev i386 1.20-1 [56.0 kB] Get: 54 http://deb.debian.org/debian unstable/main i386 libhtscodecs2 i386 1.6.0-1+b1 [68.5 kB] Get: 55 http://deb.debian.org/debian unstable/main i386 libhts3t64 i386 1.19+ds-1.1+b1 [491 kB] Get: 56 http://deb.debian.org/debian unstable/main i386 liblzma-dev i386 5.6.1+really5.4.5-1 [304 kB] Get: 57 http://deb.debian.org/debian unstable/main i386 libhts-dev i386 1.19+ds-1.1+b1 [1660 kB] Fetched 26.0 MB in 1s (50.5 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19686 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-7_i386.deb ... Unpacking liblocale-gettext-perl (1.07-7) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-3_i386.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:i386. Preparing to unpack .../03-libmagic1t64_1%3a5.45-3_i386.deb ... Unpacking libmagic1t64:i386 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3_i386.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-14+b1_i386.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-4_i386.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.40.1-1_i386.deb ... Unpacking bsdextrautils (2.40.1-1) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../09-libpipeline1_1.5.7-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.12.1-1_i386.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/stringtie-2.2.1+ds/ && 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 > ../stringtie_2.2.1+ds-3_source.changes dpkg-buildpackage: info: source package stringtie dpkg-buildpackage: info: source version 2.2.1+ds-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/stringtie-2.2.1+ds' dh_auto_clean make -j11 clean make[2]: Entering directory '/build/reproducible-path/stringtie-2.2.1+ds' rm -f stringtie stringtie.o* ./gclib/GBase.o ./gclib/GArgs.o ./gclib/GStr.o ./gclib/GSam.o ./gclib/gdna.o ./gclib/codons.o ./gclib/GFastaIndex.o ./gclib/GFaSeqGet.o ./gclib/gff.o ./gclib/GThreads.o rlink.o tablemaker.o tmerge.o rm -f core.* make[2]: Leaving directory '/build/reproducible-path/stringtie-2.2.1+ds' rm -fr test_data rm -f SuperReads_RNA/global-1/SuperReadsR/all_tests make[1]: Leaving directory '/build/reproducible-path/stringtie-2.2.1+ds' dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/stringtie.substvars debian/files rm -fr -- debian/stringtie/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/stringtie-2.2.1+ds' dh_auto_build -- 'LINKER=$(CXX)' make -j11 "INSTALL=install --strip-program=true" LINKER=\$\(CXX\) make[2]: Entering directory '/build/reproducible-path/stringtie-2.2.1+ds' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/GBase.cpp -o gclib/GBase.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/GArgs.cpp -o gclib/GArgs.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/GStr.cpp -o gclib/GStr.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/GSam.cpp -o gclib/GSam.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/gdna.cpp -o gclib/gdna.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/codons.cpp -o gclib/codons.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/GFastaIndex.cpp -o gclib/GFastaIndex.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/GFaSeqGet.cpp -o gclib/GFaSeqGet.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/gff.cpp -o gclib/gff.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c gclib/GThreads.cpp -o gclib/GThreads.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c rlink.cpp -o rlink.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c tablemaker.cpp -o tablemaker.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c tmerge.cpp -o tmerge.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/stringtie-2.2.1+ds=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -I/usr/include/bamtools/api/ -DDEBUG -D_DEBUG -DGDEBUG -Wall -Wextra -I. -I./gclib -I/usr/include/samtools -I/usr/include/htslib -fsigned-char -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -std=c++11 -fno-strict-aliasing -fno-exceptions -fno-rtti -Wno-implicit-fallthrough -Wno-class-memaccess -pthread -c stringtie.cpp -o stringtie.o In file included from gclib/GSam.cpp:1: gclib/GSam.h:32:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 32 | struct { | ^ In file included from gclib/gff.cpp:1: gclib/gff.h:242:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 242 | struct { | ^ gclib/gff.h:245:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 245 | struct { | ^ gclib/gff.h:343:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 343 | struct { | ^ gclib/gff.h:706:14: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 706 | struct { | ^ gclib/gff.h:1165:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 1165 | struct { | ^ gclib/gff.cpp: In constructor 'GffLine::GffLine(GffReader*, const char*)': gclib/gff.cpp:426:19: warning: unknown escape sequence: '\%' 426 | GMessage("Warning: unexpected tab character in last column, line truncated:\n\%s\n",l); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from gclib/GStr.h:5, from gclib/GStr.cpp:2: gclib/GStr.cpp: In static member function 'static GStr::Data* GStr::new_data(uint, uint)': gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ gclib/GStr.cpp: In static member function 'static GStr::Data* GStr::new_data(const char*, uint)': gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:39:9: note: in expansion of macro 'GMALLOC' 39 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp:38:15: note: 'data' was declared here 38 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'void GStr::make_unique()' at gclib/GStr.cpp:91:30: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'void GStr::make_unique()': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::cut(int, int)' at gclib/GStr.cpp:890:26: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In function 'GStr& GStr::cut(int, int)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In file included from rlink.h:5, from rlink.cpp:1: ./gclib/gff.h:242:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 242 | struct { | ^ ./gclib/gff.h:245:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 245 | struct { | ^ ./gclib/gff.h:343:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 343 | struct { | ^ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'void GStr::make_unique()' at gclib/GStr.cpp:91:30, inlined from 'char* GStr::detach()' at gclib/GStr.cpp:130:13: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'char* GStr::detach()': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ ./gclib/gff.h:706:14: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 706 | struct { | ^ In static member function 'static GStr::Data* GStr::new_data(const char*, uint)', inlined from 'GStr::GStr(const char*, uint)' at gclib/GStr.cpp:157:19: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:39:9: note: in expansion of macro 'GMALLOC' 39 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In constructor 'GStr::GStr(const char*, uint)': gclib/GStr.cpp:38:15: note: 'data' was declared here 38 | Data* data; | ^~~~ ./gclib/gff.h:1165:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 1165 | struct { | ^ In file included from rlink.h:6: ./gclib/GSam.h:32:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 32 | struct { | ^ In file included from rlink.h:5, from tablemaker.cpp:2: ./gclib/gff.h:242:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 242 | struct { | ^ ./gclib/gff.h:245:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 245 | struct { | ^ ./gclib/gff.h:343:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 343 | struct { | ^ In file included from rlink.h:5, from tmerge.h:5, from tmerge.cpp:1: ./gclib/gff.h:242:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 242 | struct { | ^ ./gclib/gff.h:245:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 245 | struct { | ^ ./gclib/gff.h:706:14: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 706 | struct { | ^ ./gclib/gff.h:343:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 343 | struct { | ^ ./gclib/gff.h:1165:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 1165 | struct { | ^ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::trim(char)' at gclib/GStr.cpp:463:23: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::trim(char)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ ./gclib/gff.h:706:14: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 706 | struct { | ^ ./gclib/gff.h:1165:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 1165 | struct { | ^ In file included from rlink.h:5, from stringtie.cpp:2: ./gclib/gff.h:242:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 242 | struct { | ^ ./gclib/gff.h:245:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 245 | struct { | ^ ./gclib/gff.h:343:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 343 | struct { | ^ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::trim(const char*)' at gclib/GStr.cpp:482:23: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::trim(const char*)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ ./gclib/gff.h:706:14: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 706 | struct { | ^ In file included from rlink.h:6: ./gclib/GSam.h:32:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 32 | struct { | ^ ./gclib/gff.h:1165:12: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 1165 | struct { | ^ In file included from rlink.h:6: ./gclib/GSam.h:32:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 32 | struct { | ^ In file included from rlink.h:6: ./gclib/GSam.h:32:16: warning: ISO C++ prohibits anonymous structs [-Wpedantic] 32 | struct { | ^ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::trimL(char)' at gclib/GStr.cpp:572:23: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::trimL(char)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::trimL(const char*)' at gclib/GStr.cpp:590:23: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::trimL(const char*)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::padR(uint, char)' at gclib/GStr.cpp:605:23: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::padR(uint, char)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::padL(uint, char)' at gclib/GStr.cpp:615:23: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::padL(uint, char)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::padC(uint, char)' at gclib/GStr.cpp:626:23: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::padC(uint, char)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ stringtie.cpp: In function 'int main(int, char**)': stringtie.cpp:468:18: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'unsigned int'} [-Wsign-compare] 468 | if (tstackSize std::bind2nd(const _Operation&, const _Tp&) [with _Operation = minus; _Tp = double]' is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 205 | bind2nd( minus(), avg)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_function.h:1438, from /usr/include/c++/13/functional:49, from ./gclib/khashl.hh:25, from ./gclib/GHashMap.hh:8, from ./gclib/GFastaIndex.h:11, from ./gclib/GFaSeqGet.h:3, from ./gclib/gff.h:9: /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ tablemaker.cpp:212:29: warning: 'std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = minus; _Tp = double]' is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 212 | bind2nd( minus(), mavg)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::tr(const char*, const char*)' at gclib/GStr.cpp:786:25: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::tr(const char*, const char*)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::paste(const GStr&, int, int)' at gclib/GStr.cpp:917:30: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::paste(const GStr&, int, int)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::paste(const char*, int, int)' at gclib/GStr.cpp:950:30: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::paste(const char*, int, int)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::insert(const GStr&, int)' at gclib/GStr.cpp:975:30: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::insert(const GStr&, int)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'GStr& GStr::insert(const char*, int)' at gclib/GStr.cpp:1000:30: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'GStr& GStr::insert(const char*, int)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In static member function 'static GStr::Data* GStr::new_data(uint, uint)', inlined from 'size_t GStr::read(FILE*, const char*, size_t)' at gclib/GStr.cpp:1380:22: gclib/GBase.h:176:28: warning: 'data' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/GStr.cpp:21:9: note: in expansion of macro 'GMALLOC' 21 | GMALLOC(data, sizeof(Data)+len+addcap); | ^~~~~~~ gclib/GStr.cpp: In member function 'size_t GStr::read(FILE*, const char*, size_t)': gclib/GStr.cpp:20:15: note: 'data' was declared here 20 | Data* data; | ^~~~ In file included from gclib/gff.h:6: gclib/gff.cpp: In constructor 'BEDLine::BEDLine(GffReader*, const char*)': gclib/GBase.h:176:28: warning: 'blen' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/gff.cpp:243:11: note: in expansion of macro 'GMALLOC' 243 | GMALLOC(blen, numexons * sizeof(char*)); | ^~~~~~~ gclib/gff.cpp:241:18: note: 'blen' was declared here 241 | char** blen; | ^~~~ gclib/GBase.h:176:28: warning: 'bstart' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ gclib/gff.cpp:244:11: note: in expansion of macro 'GMALLOC' 244 | GMALLOC(bstart, numexons * sizeof(char*)); | ^~~~~~~ gclib/gff.cpp:242:18: note: 'bstart' was declared here 242 | char** bstart; | ^~~~~~ In file included from /usr/include/c++/13/algorithm:60, from ./gclib/GVec.hh:10, from ./gclib/GList.hh:8, from ./gclib/GFastaIndex.h:12: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = unsigned int; _Up = unsigned int; bool _IsMove = true]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = true; _II = unsigned int*; _OI = unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:506:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = true; _II = unsigned int*; _OI = unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:533:42, inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = true; _II = unsigned int*; _OI = unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:540:31, inlined from '_OI std::move(_II, _II, _OI) [with _II = unsigned int*; _OI = unsigned int*]' at /usr/include/c++/13/bits/stl_algobase.h:665:38, inlined from 'void GVec::setCapacity(int) [with OBJ = unsigned int]' at ./gclib/GVec.hh:109:18, inlined from 'void GVec::Grow() [with OBJ = unsigned int]' at ./gclib/GVec.hh:323:13, inlined from 'int GVec::Add(OBJ*) [with OBJ = unsigned int]' at ./gclib/GVec.hh:370:29, inlined from 'int GVec::Add(OBJ&) [with OBJ = unsigned int]' at ./gclib/GVec.hh:59:36, inlined from 'RC_Feature::RC_Feature(int, int, char, uint, uint)' at tablemaker.h:53:22, inlined from 'void RC_TData::addFeature(int, int, GPVec&, uint&, GList&, GPVec&, int&)' at tablemaker.cpp:309:73: /usr/include/c++/13/bits/stl_algobase.h:437:30: warning: 'void* __builtin_memcpy(void*, const void*, unsigned int)' forming offset 4 is out of the bounds [0, 4] [-Warray-bounds=] 437 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./gclib/GStr.h:5, from rlink.h:4: In constructor 'GBitVec::GBitVec(uint, bool)', inlined from 'GBitVec::GBitVec(uint, bool)' at ./gclib/GBitVec.h:118:12, inlined from 'void process_transfrags(int, int, int, GPVec&, GPVec&, CTreePat*, GIntHash&, GVec&, GList&, GVec&)' at rlink.cpp:5826:29: ./gclib/GBase.h:176:28: warning: '*(void**)((char*)&trpat + offsetof(GBitVec, GBitVec::fBits))' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ ./gclib/GBitVec.h:126:5: note: in expansion of macro 'GMALLOC' 126 | GMALLOC(fBits, Capacity * sizeof(BitWord)); | ^~~~~~~ rlink.cpp: In function 'void process_transfrags(int, int, int, GPVec&, GPVec&, CTreePat*, GIntHash&, GVec&, GList&, GVec&)': rlink.cpp:5826:41: note: '*(void**)((char*)&trpat + offsetof(GBitVec, GBitVec::fBits))' was declared here 5826 | GBitVec trpat(gno+edgeno); | ^~~~~ In copy constructor 'GBitVec::GBitVec(const GBitVec&)', inlined from 'GBitVec::GBitVec(const GBitVec&)' at ./gclib/GBitVec.h:150:3, inlined from 'void process_refguides(int, int, GIntHash&, int&, GPVec&, GPVec&, int, GVec&, BundleData*)' at rlink.cpp:11677:44: ./gclib/GBase.h:176:28: warning: '*(void**)((char*)&trpattern + offsetof(GBitVec, GBitVec::fBits))' may be used uninitialized [-Wmaybe-uninitialized] 176 | #define GMALLOC(ptr,size) if (!GMalloc((pointer*)(&ptr),size)) \ | ^~ ./gclib/GBitVec.h:158:5: note: in expansion of macro 'GMALLOC' 158 | GMALLOC(fBits, Capacity * sizeof(BitWord)); | ^~~~~~~ rlink.cpp: In function 'void process_refguides(int, int, GIntHash&, int&, GPVec&, GPVec&, int, GVec&, BundleData*)': rlink.cpp:11677:41: note: '*(void**)((char*)&trpattern + offsetof(GBitVec, GBitVec::fBits))' was declared here 11677 | GBitVec trpattern(transfrag[t]->pattern); | ^~~~~~~~~ In function 'bool GMalloc(void**, long unsigned int)', inlined from 'GBitVec::GBitVec(const GBitVec&)' at ./gclib/GBitVec.h:158:5, inlined from 'GBitVec::GBitVec(const GBitVec&)' at ./gclib/GBitVec.h:150:3, inlined from 'GBitVec traverse_dfs(int, int, CGraphnode*, CGraphnode*, GBitVec, int, GVec&, GPVec**, GPVec**, int&, GIntHash**, int&)' at rlink.cpp:2461:28: ./gclib/GBase.h:254:12: warning: '*(void**)((char*)&childparents + offsetof(GBitVec, GBitVec::fBits))' may be used uninitialized [-Wmaybe-uninitialized] 254 | return *ptr!=NULL; | ^~~~ rlink.cpp: In function 'GBitVec traverse_dfs(int, int, CGraphnode*, CGraphnode*, GBitVec, int, GVec&, GPVec**, GPVec**, int&, GIntHash**, int&)': rlink.cpp:2461:25: note: 'childparents' declared here 2461 | GBitVec childparents=parents; | ^~~~~~~~~~~~ g++ -Wl,-z,relro -Wl,-z,now -o stringtie gclib/GBase.o gclib/GArgs.o gclib/GStr.o gclib/GSam.o gclib/gdna.o gclib/codons.o gclib/GFastaIndex.o gclib/GFaSeqGet.o gclib/gff.o gclib/GThreads.o rlink.o tablemaker.o tmerge.o stringtie.o -pthread -lhts -lbz2 -lz -lm WARNING: built DEBUG version [much slower], use "make clean release" for a faster, optimized version of the program. make[2]: Leaving directory '/build/reproducible-path/stringtie-2.2.1+ds' make[1]: Leaving directory '/build/reproducible-path/stringtie-2.2.1+ds' rm -f debian/stringtie.debhelper.log debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/stringtie-2.2.1+ds' echo "Disabling tests, as they require network access." Disabling tests, as they require network access. make[1]: Leaving directory '/build/reproducible-path/stringtie-2.2.1+ds' create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/stringtie.substvars rm -fr -- debian/.debhelper/generated/stringtie/ debian/stringtie/ debian/tmp/ dh_auto_install --destdir=debian/stringtie/ install -m0755 -d /build/reproducible-path/stringtie-2.2.1\+ds/debian/stringtie debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/stringtie-2.2.1+ds' dh_install prepDE.py3 usr/bin install -m0755 -d debian/stringtie/usr/bin cp --reflink=auto -a ./prepDE.py3 ./stringtie debian/stringtie/usr/bin/ mv debian/stringtie/usr/bin/prepDE.py3 debian/stringtie/usr/bin/prepDE.py make[1]: Leaving directory '/build/reproducible-path/stringtie-2.2.1+ds' dh_installdocs install -m0755 -d debian/stringtie/usr/share/doc/stringtie install -p -m0644 debian/copyright debian/stringtie/usr/share/doc/stringtie/copyright dh_installchangelogs install -m0755 -d debian/stringtie/usr/share/doc/stringtie install -p -m0644 debian/.debhelper/generated/stringtie/dh_installchangelogs.dch.trimmed debian/stringtie/usr/share/doc/stringtie/changelog.Debian dh_installman install -m0755 -d debian/stringtie/usr/share/man/man1/ install -p -m0644 ./debian/stringtie.1 debian/stringtie/usr/share/man/man1/stringtie.1 man-recode --to-code UTF-8 --suffix .dh-new debian/stringtie/usr/share/man/man1/stringtie.1 mv debian/stringtie/usr/share/man/man1/stringtie.1.dh-new debian/stringtie/usr/share/man/man1/stringtie.1 chmod 0644 -- debian/stringtie/usr/share/man/man1/stringtie.1 dh_lintian install -m0755 -d debian/stringtie/usr/share/lintian/overrides install -p -m0644 debian/lintian-overrides debian/stringtie/usr/share/lintian/overrides/stringtie dh_perl dh_link dh_strip_nondeterminism dh_compress cd debian/stringtie chmod a-x usr/share/doc/stringtie/changelog.Debian usr/share/man/man1/stringtie.1 gzip -9nf usr/share/doc/stringtie/changelog.Debian usr/share/man/man1/stringtie.1 cd '/build/reproducible-path/stringtie-2.2.1+ds' dh_fixperms find debian/stringtie ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/stringtie/usr/share/doc -type f -a -true -a ! -regex 'debian/stringtie/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/stringtie/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/stringtie/usr/share/man debian/stringtie/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/stringtie -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/stringtie/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_dwz -a dwz -- debian/stringtie/usr/bin/stringtie dh_strip -a install -m0755 -d debian/.debhelper/stringtie/dbgsym-root/usr/lib/debug/.build-id/20 objcopy --only-keep-debug --compress-debug-sections debian/stringtie/usr/bin/stringtie debian/.debhelper/stringtie/dbgsym-root/usr/lib/debug/.build-id/20/61864eed9b186ebb5cfa8b3e8e8f63d24ac3be.debug chmod 0644 -- debian/.debhelper/stringtie/dbgsym-root/usr/lib/debug/.build-id/20/61864eed9b186ebb5cfa8b3e8e8f63d24ac3be.debug strip --remove-section=.comment --remove-section=.note debian/stringtie/usr/bin/stringtie objcopy --add-gnu-debuglink debian/.debhelper/stringtie/dbgsym-root/usr/lib/debug/.build-id/20/61864eed9b186ebb5cfa8b3e8e8f63d24ac3be.debug debian/stringtie/usr/bin/stringtie install -m0755 -d debian/.debhelper/stringtie/dbgsym-root/usr/share/doc ln -s stringtie debian/.debhelper/stringtie/dbgsym-root/usr/share/doc/stringtie-dbgsym install -m0755 -d debian/.debhelper/stringtie dh_makeshlibs -a rm -f debian/stringtie/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/stringtie/DEBIAN dpkg-shlibdeps -Tdebian/stringtie.substvars debian/stringtie/usr/bin/stringtie dh_installdeb install -m0755 -d debian/stringtie/DEBIAN dh_gencontrol install -m0755 -d debian/stringtie/DEBIAN echo misc:Depends= >> debian/stringtie.substvars echo misc:Pre-Depends= >> debian/stringtie.substvars install -m0755 -d debian/.debhelper/stringtie/dbgsym-root/DEBIAN dpkg-gencontrol -pstringtie -ldebian/changelog -Tdebian/stringtie.substvars -cdebian/control -Pdebian/.debhelper/stringtie/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=stringtie-dbgsym "-DDepends=stringtie (= \${binary:Version})" "-DDescription=debug symbols for stringtie" -DBuild-Ids=2061864eed9b186ebb5cfa8b3e8e8f63d24ac3be -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/stringtie/dbgsym-root/DEBIAN/control dpkg-gencontrol -pstringtie -ldebian/changelog -Tdebian/stringtie.substvars -cdebian/control -Pdebian/stringtie chmod 0644 -- debian/stringtie/DEBIAN/control dh_md5sums install -m0755 -d debian/stringtie/DEBIAN cd debian/stringtie >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/stringtie/DEBIAN/md5sums install -m0755 -d debian/.debhelper/stringtie/dbgsym-root/DEBIAN cd debian/.debhelper/stringtie/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/stringtie/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/stringtie .. dpkg-deb --root-owner-group --build debian/.debhelper/stringtie/dbgsym-root .. dpkg-deb: building package 'stringtie' in '../stringtie_2.2.1+ds-3_i386.deb'. dpkg-deb: building package 'stringtie-dbgsym' in '../stringtie-dbgsym_2.2.1+ds-3_i386.deb'. dpkg-genbuildinfo --build=binary -O../stringtie_2.2.1+ds-3_i386.buildinfo dpkg-genchanges --build=binary -O../stringtie_2.2.1+ds-3_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/29504 and its subdirectories I: Current time: Thu May 16 05:18:28 -12 2024 I: pbuilder-time-stamp: 1715879908 Thu May 16 17:18:29 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Thu May 16 17:18:29 UTC 2024 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Thu May 16 17:21:23 UTC 2024 I: Deleting $TMPDIR on ionos16-i386.debian.net. Thu May 16 17:21:23 UTC 2024 I: stringtie_2.2.1+ds-3_i386.changes: Format: 1.8 Date: Fri, 26 Jan 2024 21:34:48 +0100 Source: stringtie Binary: stringtie stringtie-dbgsym Architecture: i386 Version: 2.2.1+ds-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: stringtie - assemble short RNAseq reads to transcripts Closes: 1061576 Changes: stringtie (2.2.1+ds-3) unstable; urgency=medium . * Team upload. * Add prepDE.py3 (renamed to prepDE.py) to /usr/bin Closes: #1061576 * Depends: python3 * Lintian-overrides: script-with-language-extension * Standards-Version: 4.6.2 (routine-update) Checksums-Sha1: e5c5150e22c2138be66d42c21fc4aa5cad6bff82 1933156 stringtie-dbgsym_2.2.1+ds-3_i386.deb 7f5d01c0deb22ed7ad942199f5b027e76e3a82e3 6034 stringtie_2.2.1+ds-3_i386.buildinfo dc6899861012b2886c458f43b6aaad3bf6eb1a3d 443484 stringtie_2.2.1+ds-3_i386.deb Checksums-Sha256: 08580c167ebac3c749a8fe257002f13928cf38327fe7c8f0553ba7fe7d0e2256 1933156 stringtie-dbgsym_2.2.1+ds-3_i386.deb cb4dcda17d13a6d50120ce8b3b57e7533c69ef4e4544a6a185b5a39c3ea6cb55 6034 stringtie_2.2.1+ds-3_i386.buildinfo 6145424d73b869872541eedcf6d04eb7ef68bfe0ddcfaf04d0fc0f6eaa27414f 443484 stringtie_2.2.1+ds-3_i386.deb Files: 1885bed8dbb0b808d01261344f7e5e7d 1933156 debug optional stringtie-dbgsym_2.2.1+ds-3_i386.deb 785d3885042f23b4749d42cbe018f04c 6034 science optional stringtie_2.2.1+ds-3_i386.buildinfo 188ae19869028a9bfc102021b8dff9b1 443484 science optional stringtie_2.2.1+ds-3_i386.deb Thu May 16 17:21:24 UTC 2024 I: diffoscope 266 will be used to compare the two builds: Running as unit: rb-diffoscope-i386_12-11387.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.7QChocpy/stringtie_2.2.1+ds-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.7QChocpy/stringtie_2.2.1+ds-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.7QChocpy/stringtie_2.2.1+ds-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.7QChocpy/b1/stringtie_2.2.1+ds-3_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.7QChocpy/b2/stringtie_2.2.1+ds-3_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: 0.386s) 0.386s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.041s) 0.041s 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: 727ms CPU time consumed: 728ms Thu May 16 17:21:26 UTC 2024 I: diffoscope 266 found no differences in the changes files, and a .buildinfo file also exists. Thu May 16 17:21:26 UTC 2024 I: stringtie from unstable built successfully and reproducibly on i386. Thu May 16 17:21:27 UTC 2024 I: Submitting .buildinfo files to external archives: Thu May 16 17:21:27 UTC 2024 I: Submitting 8.0K b1/stringtie_2.2.1+ds-3_i386.buildinfo.asc Thu May 16 17:21:28 UTC 2024 I: Submitting 8.0K b2/stringtie_2.2.1+ds-3_i386.buildinfo.asc Thu May 16 17:21:29 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu May 16 17:21:29 UTC 2024 I: Done submitting .buildinfo files. Thu May 16 17:21:29 UTC 2024 I: Removing signed stringtie_2.2.1+ds-3_i386.buildinfo.asc files: removed './b1/stringtie_2.2.1+ds-3_i386.buildinfo.asc' removed './b2/stringtie_2.2.1+ds-3_i386.buildinfo.asc'