Tue Sep 7 03:34:21 UTC 2021 I: starting to build kma/bullseye/arm64 on jenkins on '2021-09-07 03:34' Tue Sep 7 03:34:21 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_24/25432/console.log Tue Sep 7 03:34:21 UTC 2021 I: Downloading source for bullseye/kma=1.3.10-1 --2021-09-07 03:34:21-- http://cdn-fastly.deb.debian.org/debian/pool/main/k/kma/kma_1.3.10-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1977 (1.9K) Saving to: ‘kma_1.3.10-1.dsc’ 0K . 100% 87.4M=0s 2021-09-07 03:34:21 (87.4 MB/s) - ‘kma_1.3.10-1.dsc’ saved [1977/1977] Tue Sep 7 03:34:21 UTC 2021 I: kma_1.3.10-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: kma Binary: kma Architecture: any Version: 1.3.10-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Nilesh Patra Homepage: https://bitbucket.org/genomicepidemiology/kma Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/kma Vcs-Git: https://salsa.debian.org/med-team/kma.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev Package-List: kma deb science optional arch=any Checksums-Sha1: ab02695671cb1d61f4ffa01871c5b93940885d22 637531 kma_1.3.10.orig.tar.bz2 917ccf4df4742ddfa3cc8bfa5bb1f2b73207bc15 5328 kma_1.3.10-1.debian.tar.xz Checksums-Sha256: 312e7b289108f44be3980a2f79ac47c10ab0e389f11a366b3962da6c63c07062 637531 kma_1.3.10.orig.tar.bz2 2c88def2c654d506b5fdf7f490165d6dd959b45bb5d5f977807f52dd421bfe26 5328 kma_1.3.10-1.debian.tar.xz Files: 0e457a73f04ca77563876efd5672bede 637531 kma_1.3.10.orig.tar.bz2 faa32f16363147632623237c376c0e96 5328 kma_1.3.10-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEPpmlJvXcwMu/HO6mALrnSzQzafEFAmAeQ+gUHG5wYXRyYTk3 NEBnbWFpbC5jb20ACgkQALrnSzQzafFa9xAAkLCs0RXMYlnDQehralnl8Me+qoso TCf23uvu2czUkDFpgvlgUtk2jW1sj+SY3Kdqqa0r3e1p6SbObPBYMCBr/QnhAy4+ neLQxR5rE0auwdvdcJ8f5Q7Vh4qMZLs4AtRYs85xeBmM48wcN4GnTC3fCI9j+3fs J7sFUqw4fmoSVHTNbKOaDBXSwQdgoPXENpiy5SpSWiHMErvncKQIrTIUFHcO3Hht ztM0EXqkEL0l2toUZtfmysq5+M/S2DP8MKOJmUM66wO0ow244VdjQ0ZW/vjlL44P 9SpoejwHLGFkeynTQkLSxxFBJsPuUxHHUQyM7zkE+wc4OTJE7ZKn4rTv38Fim0WD 1RTJz6Lgq1C/AqqpCoBM8B+E/VQ2wZlA8fxPmY2TFvfhyGcOIXyaDjWiebWEyrwc 59uekPbNB7JnzkPgKd0zk1QcFHjDj6bmqmrPHcMnFDHjTMmiQemis2TfC9XGxeXt i9BV1tvJsbol8KWrFg5H+a2qk89IQ+7j8dvobquId2Kkr3WkU+gK/LnPP8nHiVTx cdhOq1SgPvebwyd9RksU9RrukYliKm4OLnhxPRo3RO+nB008gCFkWHNRQaxUqjKW 1h0leOhgWkYfmdn5RuFzp7gplvhjiiCrLF8fSc3y0mxOBAvXVOHEMJPRXqPRoC1r 9dS7sRVRhFWuJjY= =d62e -----END PGP SIGNATURE----- Tue Sep 7 03:34:21 UTC 2021 I: Checking whether the package is not for us Tue Sep 7 03:34:21 UTC 2021 I: Starting 1st build on remote node codethink14-arm64.debian.net. Tue Sep 7 03:34:21 UTC 2021 I: Preparing to do remote build '1' on codethink14-arm64.debian.net. Tue Sep 7 03:35:16 UTC 2021 I: Deleting $TMPDIR on codethink14-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Sep 6 15:34:27 -12 2021 I: pbuilder-time-stamp: 1630985667 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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: Copying source file I: copying [kma_1.3.10-1.dsc] I: copying [./kma_1.3.10.orig.tar.bz2] I: copying [./kma_1.3.10-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.46Y_uMW4/trustedkeys.kbx': General error gpgv: Signature made Fri Feb 5 19:23:20 2021 -12 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "npatra974@gmail.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./kma_1.3.10-1.dsc dpkg-source: info: extracting kma in kma-1.3.10 dpkg-source: info: unpacking kma_1.3.10.orig.tar.bz2 dpkg-source: info: unpacking kma_1.3.10-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2573/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' DISTRIBUTION='' HOME='/var/lib/jenkins' HOST_ARCH='arm64' IFS=' ' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' 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='2573' 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/tmp.FVKJBvumFc/pbuilderrc_2KHT --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.FVKJBvumFc/b1 --logfile b1/build.log kma_1.3.10-1.dsc' SUDO_GID='117' SUDO_UID='110' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' USERNAME='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.16:3128' I: uname -a Linux codethink14-arm64 4.15.0-154-generic #161-Ubuntu SMP Fri Jul 30 13:01:15 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 -rwxr-xr-x 1 root root 1282512 Aug 4 08:25 bash -rwxr-xr-x 3 root root 34808 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 34808 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 34808 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 14264 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 39832 Sep 22 2020 cat -rwxr-xr-x 1 root root 64512 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 60368 Sep 22 2020 chmod -rwxr-xr-x 1 root root 64528 Sep 22 2020 chown -rwxr-xr-x 1 root root 138896 Sep 22 2020 cp -rwxr-xr-x 1 root root 129544 Dec 10 2020 dash -rwxr-xr-x 1 root root 101384 Sep 22 2020 date -rwxr-xr-x 1 root root 80984 Sep 22 2020 dd -rwxr-xr-x 1 root root 89824 Sep 22 2020 df -rwxr-xr-x 1 root root 143088 Sep 22 2020 dir -rwxr-xr-x 1 root root 76152 Jul 28 07:09 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 35632 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 31512 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 64856 Jul 28 07:09 findmnt -rwsr-xr-x 1 root root 34824 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 178400 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 93744 Mar 2 2021 gzip -rwxr-xr-x 1 root root 18440 Nov 6 2019 hostname -rwxr-xr-x 1 root root 68720 Sep 22 2020 ln -rwxr-xr-x 1 root root 52720 Feb 7 2020 login -rwxr-xr-x 1 root root 143088 Sep 22 2020 ls -rwxr-xr-x 1 root root 161960 Jul 28 07:09 lsblk -rwxr-xr-x 1 root root 85200 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 68744 Sep 22 2020 mknod -rwxr-xr-x 1 root root 43976 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 51368 Jul 28 07:09 more -rwsr-xr-x 1 root root 51360 Jul 28 07:09 mount -rwxr-xr-x 1 root root 14496 Jul 28 07:09 mountpoint -rwxr-xr-x 1 root root 134808 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35720 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash -rwxr-xr-x 1 root root 43872 Sep 22 2020 readlink -rwxr-xr-x 1 root root 68592 Sep 22 2020 rm -rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 114016 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 20 21:24 sh -> dash -rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep -rwxr-xr-x 1 root root 72640 Sep 22 2020 stty -rwsr-xr-x 1 root root 67776 Jul 28 07:09 su -rwxr-xr-x 1 root root 35672 Sep 22 2020 sync -rwxr-xr-x 1 root root 535768 Feb 16 2021 tar -rwxr-xr-x 1 root root 10568 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 89120 Sep 22 2020 touch -rwxr-xr-x 1 root root 31512 Sep 22 2020 true -rwxr-xr-x 1 root root 14264 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 30880 Jul 28 07:09 umount -rwxr-xr-x 1 root root 35640 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 143088 Sep 22 2020 vdir -rwxr-xr-x 1 root root 59584 Jul 28 07:09 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/2573/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: arm64 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), zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19646 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 zlib1g-dev; however: Package zlib1g-dev 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} libelf1{a} libfile-stripnondeterminism-perl{a} libicu67{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsigsegv2{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: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 18.1 MB of archives. After unpacking 67.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main arm64 bsdextrautils arm64 2.36.1-8 [142 kB] Get: 2 http://deb.debian.org/debian bullseye/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main arm64 groff-base arm64 1.22.4-6 [883 kB] Get: 4 http://deb.debian.org/debian bullseye/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB] Get: 5 http://deb.debian.org/debian bullseye/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get: 6 http://deb.debian.org/debian bullseye/main arm64 sensible-utils all 0.0.14 [14.8 kB] Get: 7 http://deb.debian.org/debian bullseye/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get: 8 http://deb.debian.org/debian bullseye/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get: 9 http://deb.debian.org/debian bullseye/main arm64 file arm64 1:5.39-3 [69.1 kB] Get: 10 http://deb.debian.org/debian bullseye/main arm64 gettext-base arm64 0.21-4 [173 kB] Get: 11 http://deb.debian.org/debian bullseye/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main arm64 m4 arm64 1.4.18-5 [199 kB] Get: 13 http://deb.debian.org/debian bullseye/main arm64 autoconf all 2.69-14 [313 kB] Get: 14 http://deb.debian.org/debian bullseye/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main arm64 automake all 1:1.16.3-2 [814 kB] Get: 16 http://deb.debian.org/debian bullseye/main arm64 autopoint all 0.21-4 [510 kB] Get: 17 http://deb.debian.org/debian bullseye/main arm64 libdebhelper-perl all 13.3.4 [189 kB] Get: 18 http://deb.debian.org/debian bullseye/main arm64 libtool all 2.4.6-15 [513 kB] Get: 19 http://deb.debian.org/debian bullseye/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bullseye/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bullseye/main arm64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 22 http://deb.debian.org/debian bullseye/main arm64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 23 http://deb.debian.org/debian bullseye/main arm64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 24 http://deb.debian.org/debian bullseye/main arm64 libelf1 arm64 0.183-1 [164 kB] Get: 25 http://deb.debian.org/debian bullseye/main arm64 dwz arm64 0.13+20210201-1 [155 kB] Get: 26 http://deb.debian.org/debian bullseye/main arm64 libicu67 arm64 67.1-7 [8467 kB] Get: 27 http://deb.debian.org/debian bullseye/main arm64 libxml2 arm64 2.9.10+dfsg-6.7 [629 kB] Get: 28 http://deb.debian.org/debian bullseye/main arm64 gettext arm64 0.21-4 [1261 kB] Get: 29 http://deb.debian.org/debian bullseye/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 30 http://deb.debian.org/debian bullseye/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bullseye/main arm64 debhelper all 13.3.4 [1049 kB] Get: 32 http://deb.debian.org/debian bullseye/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-2 [189 kB] Fetched 18.1 MB in 0s (44.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19646 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_arm64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../01-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_arm64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../03-libpipeline1_1.5.3-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_arm64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../05-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../06-libmagic-mgc_1%3a5.39-3_arm64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../07-libmagic1_1%3a5.39-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../08-file_1%3a5.39-3_arm64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../09-gettext-base_0.21-4_arm64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../10-libsigsegv2_2.13-1_arm64.deb ... Unpacking libsigsegv2:arm64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.18-5_arm64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../20-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.12.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../22-dh-strip-nondeterminism_1.12.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../23-libelf1_0.183-1_arm64.deb ... Unpacking libelf1:arm64 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.13+20210201-1_arm64.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:arm64. Preparing to unpack .../25-libicu67_67.1-7_arm64.deb ... Unpacking libicu67:arm64 (67.1-7) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../26-libxml2_2.9.10+dfsg-6.7_arm64.deb ... Unpacking libxml2:arm64 (2.9.10+dfsg-6.7) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.21-4_arm64.deb ... Unpacking gettext (0.21-4) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/kma-1.3.10/ && 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 > ../kma_1.3.10-1_source.changes dpkg-buildpackage: info: source package kma dpkg-buildpackage: info: source version 1.3.10-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j8 clean make[1]: Entering directory '/build/kma-1.3.10' rm -f align.o alnfrags.o ankers.o assembly.o chain.o compdna.o compkmers.o compress.o db.o decon.o dist.o ef.o filebuff.o frags.o hashmap.o hashmapcci.o hashmapkma.o hashmapkmers.o hashtable.o index.o kma.o kmapipe.o kmeranker.o kmers.o kmmap.o loadupdate.o makeindex.o matrix.o mt1.o nw.o pherror.o printconsensus.o qseqs.o qualcheck.o runinput.o runkma.o sam.o savekmers.o seq2fasta.o seqmenttree.o seqparse.o shm.o sparse.o spltdb.o stdnuc.o stdstat.o tmp.o update.o updateindex.o updatescores.o valueshash.o vcf.o xml.o kma kma_index kma_shm kma_update libkma.a make[1]: Leaving directory '/build/kma-1.3.10' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j8 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/kma-1.3.10' cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o align.o align.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o alnfrags.o alnfrags.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ankers.o ankers.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o assembly.o assembly.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o chain.o chain.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o compdna.o compdna.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o compkmers.o compkmers.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o compress.o compress.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o db.o db.c compdna.c: In function 'getComp': compdna.c:322:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 322 | fread(&compressor->seqlen, sizeof(int), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ankers.c: In function 'get_ankers': ankers.c:202:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 202 | fread(qseq->seq, sizeof(long unsigned), qseq->complen, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ankers.c:203:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 203 | fread(qseq->N + 1, sizeof(int), qseq->N[0], inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ankers.c:204:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 204 | fread(out_Tem + 1, sizeof(int), *out_Tem, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ankers.c:205:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 205 | fread(header->seq, 1, header->len, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c: In function 'assemble_KMA_threaded': assembly.c:371:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 371 | fread(buffer, sizeof(int), 8, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:392:6: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 392 | fread(qseq->seq, 1, qseq->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:393:6: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 393 | fread(header->seq, 1, header->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c: In function 'assemble_KMA_dense_threaded': assembly.c:917:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 917 | fread(buffer, sizeof(int), 8, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:944:6: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 944 | fread(qseq->seq, 1, qseq->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:945:6: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 945 | fread(header->seq, 1, header->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c: In function 'skip_assemble_KMA': assembly.c:1240:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1240 | fread(buffer, sizeof(int), 8, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:1260:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1260 | fread(qseq->seq, 1, qseq->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:1261:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1261 | fread(header->seq, 1, header->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c: In function 'assemble_KMA': assembly.c:1797:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1797 | fread(buffer, sizeof(int), 8, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:1818:6: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1818 | fread(qseq->seq, 1, qseq->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ assembly.c:1819:6: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1819 | fread(header->seq, 1, header->len, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o decon.o decon.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o dist.o dist.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ef.o ef.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o filebuff.o filebuff.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o frags.o frags.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o hashmap.o hashmap.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o hashmapcci.o hashmapcci.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o hashmapkma.o hashmapkma.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o hashmapkmers.o hashmapkmers.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o hashtable.o hashtable.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o index.o index.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o kma.o kma.c index.c: In function 'index_main': index.c:340:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 340 | fread(inputfiles[filecount - 1], 1, size - 1, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ index.c:390:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 390 | fread(deconfiles[deconcount - 1], 1, size - 1, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o kmapipe.o kmapipe.c kma.c: In function 'kma_main': kma.c:1245:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1245 | fread(&qseq.len, sizeof(int), 1, templatefile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o kmeranker.o kmeranker.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o kmers.o kmers.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o kmmap.o kmmap.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o loadupdate.o loadupdate.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o makeindex.o makeindex.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o matrix.o matrix.c loadupdate.c: In function 'load_DBs': loadupdate.c:175:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 175 | fread(&DB_size, sizeof(unsigned), 1, infile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ loadupdate.c:180:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 180 | fread(*template_lengths, sizeof(unsigned), DB_size, infile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ loadupdate.c:181:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 181 | fread(*template_slengths, sizeof(unsigned), DB_size, infile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ loadupdate.c:182:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 182 | fread(*template_ulengths, sizeof(unsigned), DB_size, infile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ loadupdate.c:190:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 190 | fread(*template_lengths, sizeof(unsigned), DB_size, infile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mt1.o mt1.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o nw.o nw.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o pherror.o pherror.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o printconsensus.o printconsensus.c mt1.c: In function 'runKMA_Mt1': mt1.c:183:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 183 | fread(&DB_size, sizeof(int), 1, DB_file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o qseqs.o qseqs.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o qualcheck.o qualcheck.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o runinput.o runinput.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o runkma.o runkma.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sam.o sam.c runkma.c: In function 'runKMA': runkma.c:584:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 584 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:585:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 585 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:586:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 586 | fread(best_start_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:587:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 587 | fread(best_end_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:588:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 588 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:683:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 683 | fread(stats, sizeof(int), 3, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:687:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 687 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:688:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 688 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:732:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 732 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:785:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 785 | fread(stats, sizeof(int), 2, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:828:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 828 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:852:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 852 | fread(stats, sizeof(int), 2, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:868:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 868 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:869:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 869 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:870:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 870 | fread(best_start_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:871:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 871 | fread(best_end_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:872:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 872 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1018:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1018 | fread(stats, sizeof(int), 3, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1022:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1022 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1023:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1023 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c: In function 'runKMA_MEM': runkma.c:1675:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1675 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1676:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1676 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1677:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1677 | fread(best_start_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1678:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1678 | fread(best_end_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1679:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1679 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1774:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1774 | fread(stats, sizeof(int), 3, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1778:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1778 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1779:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1779 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1823:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1823 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1876:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1876 | fread(stats, sizeof(int), 2, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1919:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1919 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1943:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1943 | fread(stats, sizeof(int), 2, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1959:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1959 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1960:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1960 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1961:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1961 | fread(best_start_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1962:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1962 | fread(best_end_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:1963:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1963 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:2106:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 2106 | fread(stats, sizeof(int), 3, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:2110:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 2110 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ runkma.c:2111:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 2111 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o savekmers.o savekmers.c savekmers.c: In function 'loadFsa': savekmers.c:83:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 83 | fread(qseq->seq, sizeof(long unsigned), qseq->complen, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ savekmers.c:84:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 84 | fread(qseq->N + 1, sizeof(int), qseq->N[0], inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ savekmers.c:85:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 85 | fread(header->seq, 1, header->len, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o seq2fasta.o seq2fasta.c seq2fasta.c: In function 'printFastas': seq2fasta.c:84:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 84 | fread(compseq, sizeof(long unsigned), (template_lengths[i] >> 5) + 1, seqfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ seq2fasta.c: In function 'printFastaList': seq2fasta.c:146:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 146 | fread(compseq, sizeof(long unsigned), (template_lengths[i] >> 5) + 1, seqfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o seqmenttree.o seqmenttree.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o seqparse.o seqparse.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o shm.o shm.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sparse.o sparse.c shm.c: In function 'hashMapKMA_setupSHM': shm.c:95:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 95 | fread(dest->exist, 1, size, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ shm.c:115:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 115 | fread(dest->values, 1, size, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ shm.c:138:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 138 | fread(dest->key_index, 1, size, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ shm.c:158:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 158 | fread(dest->value_index, 1, size, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ shm.c: In function 'length_setupSHM': shm.c:263:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 263 | fread(template_lengths, sizeof(unsigned), size / sizeof(unsigned), file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ shm.c: In function 'seq_setupSHM': shm.c:305:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 305 | fread(seq, sizeof(long unsigned), size / sizeof(long unsigned), file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ shm.c: In function 'name_setupSHM': shm.c:347:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 347 | fread(template_names, 1, size, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sparse.c: In function 'load_DBs_Sparse': sparse.c:156:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 156 | fread(*template_lengths, sizeof(int), DB_size, DB_file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sparse.c:157:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 157 | fread(*template_ulengths, sizeof(int), DB_size, DB_file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sparse.c:197:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 197 | fread(template_names[0], 1, file_size, DB_file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o spltdb.o spltdb.c spltdb.c: In function 'runKMA_spltDB': spltdb.c:461:3: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 461 | fread(template_lengths + dbBiases[i], sizeof(int), bias, inputfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:880:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 880 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:881:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 881 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:882:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 882 | fread(best_start_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:883:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 883 | fread(best_end_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:884:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 884 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:979:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 979 | fread(stats, sizeof(int), 3, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:983:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 983 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:984:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 984 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1028:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1028 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1081:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1081 | fread(stats, sizeof(int), 2, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1124:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1124 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1148:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1148 | fread(stats, sizeof(int), 2, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1164:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1164 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1165:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1165 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1166:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1166 | fread(best_start_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1167:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1167 | fread(best_end_pos, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1168:4: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1168 | fread(bestTemplates, sizeof(int), bestHits, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1312:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1312 | fread(stats, sizeof(int), 3, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1316:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1316 | fread(qseq->seq, 1, qseq->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ spltdb.c:1317:5: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 1317 | fread(header->seq, 1, header->len, frag_in_raw); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stdnuc.o stdnuc.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o stdstat.o stdstat.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o tmp.o tmp.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o update.o update.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o updateindex.o updateindex.c update.c: In function 'convertLength_014to015': update.c:40:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 40 | fread(&size, sizeof(unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c: In function 'hashMapKMA_014to015': update.c:88:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 88 | fread(&DB_size, sizeof(unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:89:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 89 | fread(&dest->kmersize, sizeof(unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:90:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 90 | fread(&dest->prefix_len, sizeof(unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:91:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 91 | fread(&dest->prefix, sizeof(long unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:92:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 92 | fread(&dest->size, sizeof(long unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:100:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 100 | fread(&tmp, sizeof(unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:102:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 102 | fread(&seqsize, sizeof(unsigned), 1, file); //seq size | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:103:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 103 | fread(&tmp, sizeof(unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ update.c:105:2: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result] 105 | fread(&tmp, sizeof(unsigned), 1, file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o updatescores.o updatescores.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o valueshash.o valueshash.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcf.o vcf.c cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o xml.o xml.c ar -csru libkma.a align.o alnfrags.o ankers.o assembly.o chain.o compdna.o compkmers.o compress.o db.o decon.o dist.o ef.o filebuff.o frags.o hashmap.o hashmapcci.o hashmapkma.o hashmapkmers.o hashtable.o index.o kma.o kmapipe.o kmeranker.o kmers.o kmmap.o loadupdate.o makeindex.o matrix.o mt1.o nw.o pherror.o printconsensus.o qseqs.o qualcheck.o runinput.o runkma.o sam.o savekmers.o seq2fasta.o seqmenttree.o seqparse.o shm.o sparse.o spltdb.o stdnuc.o stdstat.o tmp.o update.o updateindex.o updatescores.o valueshash.o vcf.o xml.o ar: `u' modifier ignored since `D' is the default (see `U') cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -o kma main.c libkma.a -lm -lpthread -lz -Wl,-z,relro -Wl,-z,now cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -o kma_index kma_index.c libkma.a -lm -lz -Wl,-z,relro -Wl,-z,now cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -o kma_shm kma_shm.c libkma.a -Wl,-z,relro -Wl,-z,now cc -g -O2 -fdebug-prefix-map=/build/kma-1.3.10=. -fstack-protector-strong -Wformat -Werror=format-security -std=c99 -o kma_update kma_update.c libkma.a -Wl,-z,relro -Wl,-z,now make[1]: Leaving directory '/build/kma-1.3.10' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install dh_install dh_installdocs dh_installchangelogs 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 'kma-dbgsym' in '../kma-dbgsym_1.3.10-1_arm64.deb'. dpkg-deb: building package 'kma' in '../kma_1.3.10-1_arm64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../kma_1.3.10-1_arm64.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: including full 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/2573 and its subdirectories I: Current time: Mon Sep 6 15:35:15 -12 2021 I: pbuilder-time-stamp: 1630985715 Tue Sep 7 03:35:17 UTC 2021 I: 1st build successful. Starting 2nd build on remote node codethink15-arm64.debian.net. Tue Sep 7 03:35:17 UTC 2021 I: Preparing to do remote build '2' on codethink15-arm64.debian.net. Tue Sep 7 03:36:05 UTC 2021 I: Deleting $TMPDIR on codethink15-arm64.debian.net. Tue Sep 7 03:36:06 UTC 2021 I: kma_1.3.10-1_arm64.changes: Format: 1.8 Date: Sat, 06 Feb 2021 12:48:44 +0530 Source: kma Binary: kma kma-dbgsym Architecture: arm64 Version: 1.3.10-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Nilesh Patra Description: kma - mapping genomic sequences to raw reads directly against redundant Changes: kma (1.3.10-1) unstable; urgency=medium . * New upstream version * Fix faulty VCS URL Checksums-Sha1: cdc61d07f2e868efbb91b146bec69480277d9bb3 571904 kma-dbgsym_1.3.10-1_arm64.deb e7f6f3163a92a79fbe36ba81fa3b76102b4bc2dd 4825 kma_1.3.10-1_arm64.buildinfo dc264d0205f7e8825ae5d9d6ff853e4150fb2961 172700 kma_1.3.10-1_arm64.deb Checksums-Sha256: 4e2738c6aa56dc5a4e1ff4dc90530393705829dcc91f3f9708a26b6fe2e78b04 571904 kma-dbgsym_1.3.10-1_arm64.deb d71b09296a1529544c0c4e2a252c9b0b6a9c520487f017760260ea2c9bd59968 4825 kma_1.3.10-1_arm64.buildinfo 0cef8c9f608b8686ab6fcf647369e5eb60863b0bb2fa61c0eb1cb85dc9b1afcc 172700 kma_1.3.10-1_arm64.deb Files: 32a0f9a7b8c31564ca2874a9047b8aea 571904 debug optional kma-dbgsym_1.3.10-1_arm64.deb 9d12f998b4427485b8e8aabf24b97032 4825 science optional kma_1.3.10-1_arm64.buildinfo 4ee94d50861af03ba59d863398ebb3e0 172700 science optional kma_1.3.10-1_arm64.deb Tue Sep 7 03:36:30 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.FVKJBvumFc/kma_1.3.10-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.FVKJBvumFc/kma_1.3.10-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.FVKJBvumFc/kma_1.3.10-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.FVKJBvumFc/b1/kma_1.3.10-1_arm64.changes /srv/reproducible-results/rbuild-debian/tmp.FVKJBvumFc/b2/kma_1.3.10-1_arm64.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: 0.370s) 0.370s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.033s) 0.033s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Tue Sep 7 03:37:21 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Tue Sep 7 03:37:21 UTC 2021 I: kma from bullseye built successfully and reproducibly on arm64. Tue Sep 7 03:37:22 UTC 2021 I: Submitting .buildinfo files to external archives: Tue Sep 7 03:37:22 UTC 2021 I: Submitting 8.0K b1/kma_1.3.10-1_arm64.buildinfo.asc Tue Sep 7 03:37:23 UTC 2021 I: Submitting 8.0K b2/kma_1.3.10-1_arm64.buildinfo.asc Tue Sep 7 03:37:24 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Sep 7 03:37:24 UTC 2021 I: Done submitting .buildinfo files. Tue Sep 7 03:37:24 UTC 2021 I: Removing signed kma_1.3.10-1_arm64.buildinfo.asc files: removed './b1/kma_1.3.10-1_arm64.buildinfo.asc' removed './b2/kma_1.3.10-1_arm64.buildinfo.asc'