Diff of the two buildlogs: -- --- b1/build.log 2023-04-26 13:35:04.862059494 +0000 +++ b2/build.log 2023-04-26 13:36:01.247557692 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Apr 26 01:33:32 -12 2023 -I: pbuilder-time-stamp: 1682516012 +I: Current time: Wed May 29 09:58:07 +14 2024 +I: pbuilder-time-stamp: 1716926287 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./wham-align_0.1.5.orig.tar.gz] I: copying [./wham-align_0.1.5-8.debian.tar.xz] I: Extracting source -gpgv: Signature made Thu Feb 18 19:13:34 2021 -12 +gpgv: Signature made Fri Feb 19 21:13:34 2021 +14 gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 gpgv: issuer "npatra974@gmail.com" gpgv: Can't check signature: No public key @@ -31,135 +31,167 @@ dpkg-source: info: applying cross-build.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2276061/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3037465/tmp/hooks/D01_modify_environment starting +debug: Running on ionos15-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 29 09:58 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/3037465/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3037465/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='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15' - DISTRIBUTION='bookworm' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="15" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='fbc6895388c6480fbb896e9e9b805d14' - 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='2276061' - PS1='# ' - PS2='> ' + INVOCATION_ID=7e07044cdd9a4cb7adf4141e99b3f98e + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3037465 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.YUVHASaL/pbuilderrc_lAxS --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.YUVHASaL/b1 --logfile b1/build.log wham-align_0.1.5-8.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://78.137.99.97:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.YUVHASaL/pbuilderrc_TP2K --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.YUVHASaL/b2 --logfile b2/build.log --extrapackages usrmerge wham-align_0.1.5-8.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://85.184.249.68:3128 I: uname -a - Linux ionos11-amd64 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-0.deb11.5-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.12-1~bpo11+1 (2023-03-05) x86_64 GNU/Linux I: ls -l /bin total 5632 - -rwxr-xr-x 1 root root 1265648 Apr 23 09:23 bash - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff - -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep - -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep - -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep - -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 - -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover - lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore - -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore - -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat - -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp - -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod - -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown - -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp - -rwxr-xr-x 1 root root 125640 Jan 5 01:20 dash - -rwxr-xr-x 1 root root 121904 Sep 20 2022 date - -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd - -rwxr-xr-x 1 root root 102200 Sep 20 2022 df - -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir - -rwxr-xr-x 1 root root 88656 Mar 22 22:02 dmesg - lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname - lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname - -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo - -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep - -rwxr-xr-x 1 root root 35664 Sep 20 2022 false - -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep - -rwxr-xr-x 1 root root 85600 Mar 22 22:02 findmnt - -rwsr-xr-x 1 root root 35128 Mar 22 20:35 fusermount - -rwxr-xr-x 1 root root 203152 Jan 24 02:43 grep - -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip - -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe - -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip - -rwxr-xr-x 1 root root 22680 Dec 19 01:33 hostname - -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln - -rwxr-xr-x 1 root root 53024 Mar 23 00:40 login - -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls - -rwxr-xr-x 1 root root 207168 Mar 22 22:02 lsblk - -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir - -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod - -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp - -rwxr-xr-x 1 root root 59712 Mar 22 22:02 more - -rwsr-xr-x 1 root root 59704 Mar 22 22:02 mount - -rwxr-xr-x 1 root root 18744 Mar 22 22:02 mountpoint - -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv - lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname - lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 - -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd - lrwxrwxrwx 1 root root 4 Apr 23 09:23 rbash -> bash - -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink - -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm - -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir - -rwxr-xr-x 1 root root 27560 Nov 2 04:31 run-parts - -rwxr-xr-x 1 root root 126424 Jan 5 07:55 sed - lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash - -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep - -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty - -rwsr-xr-x 1 root root 72000 Mar 22 22:02 su - -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync - -rwxr-xr-x 1 root root 531984 Apr 6 02:25 tar - -rwxr-xr-x 1 root root 14520 Nov 2 04:31 tempfile - -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch - -rwxr-xr-x 1 root root 35664 Sep 20 2022 true - -rwxr-xr-x 1 root root 14568 Mar 22 20:35 ulockmgr_server - -rwsr-xr-x 1 root root 35128 Mar 22 22:02 umount - -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname - -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress - -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir - -rwxr-xr-x 1 root root 72024 Mar 22 22:02 wdctl - lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname - -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat - -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp - -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff - -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep - -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep - -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce - -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep - -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless - -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore - -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew -I: user script /srv/workspace/pbuilder/2276061/tmp/hooks/D02_print_environment finished + -rwxr-xr-x 1 root root 1265648 Apr 24 2023 bash + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bunzip2 + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzcat + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff + -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep + -rwxr-xr-x 1 root root 4893 Nov 28 2021 bzexe + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep + -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep + -rwxr-xr-x 3 root root 39224 Sep 19 2022 bzip2 + -rwxr-xr-x 1 root root 14568 Sep 19 2022 bzip2recover + lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore + -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore + -rwxr-xr-x 1 root root 44016 Sep 21 2022 cat + -rwxr-xr-x 1 root root 68656 Sep 21 2022 chgrp + -rwxr-xr-x 1 root root 64496 Sep 21 2022 chmod + -rwxr-xr-x 1 root root 72752 Sep 21 2022 chown + -rwxr-xr-x 1 root root 151152 Sep 21 2022 cp + -rwxr-xr-x 1 root root 125640 Jan 6 2023 dash + -rwxr-xr-x 1 root root 121904 Sep 21 2022 date + -rwxr-xr-x 1 root root 89240 Sep 21 2022 dd + -rwxr-xr-x 1 root root 102200 Sep 21 2022 df + -rwxr-xr-x 1 root root 151344 Sep 21 2022 dir + -rwxr-xr-x 1 root root 88656 Mar 24 2023 dmesg + lrwxrwxrwx 1 root root 8 Dec 20 2022 dnsdomainname -> hostname + lrwxrwxrwx 1 root root 8 Dec 20 2022 domainname -> hostname + -rwxr-xr-x 1 root root 43856 Sep 21 2022 echo + -rwxr-xr-x 1 root root 41 Jan 25 2023 egrep + -rwxr-xr-x 1 root root 35664 Sep 21 2022 false + -rwxr-xr-x 1 root root 41 Jan 25 2023 fgrep + -rwxr-xr-x 1 root root 85600 Mar 24 2023 findmnt + -rwsr-xr-x 1 root root 35128 Mar 23 2023 fusermount + -rwxr-xr-x 1 root root 203152 Jan 25 2023 grep + -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip + -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe + -rwxr-xr-x 1 root root 98136 Apr 10 2022 gzip + -rwxr-xr-x 1 root root 22680 Dec 20 2022 hostname + -rwxr-xr-x 1 root root 72824 Sep 21 2022 ln + -rwxr-xr-x 1 root root 53024 Mar 24 2023 login + -rwxr-xr-x 1 root root 151344 Sep 21 2022 ls + -rwxr-xr-x 1 root root 207168 Mar 24 2023 lsblk + -rwxr-xr-x 1 root root 97552 Sep 21 2022 mkdir + -rwxr-xr-x 1 root root 72912 Sep 21 2022 mknod + -rwxr-xr-x 1 root root 43952 Sep 21 2022 mktemp + -rwxr-xr-x 1 root root 59712 Mar 24 2023 more + -rwsr-xr-x 1 root root 59704 Mar 24 2023 mount + -rwxr-xr-x 1 root root 18744 Mar 24 2023 mountpoint + -rwxr-xr-x 1 root root 142968 Sep 21 2022 mv + lrwxrwxrwx 1 root root 8 Dec 20 2022 nisdomainname -> hostname + lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 + -rwxr-xr-x 1 root root 43952 Sep 21 2022 pwd + lrwxrwxrwx 1 root root 4 Apr 24 2023 rbash -> bash + -rwxr-xr-x 1 root root 52112 Sep 21 2022 readlink + -rwxr-xr-x 1 root root 72752 Sep 21 2022 rm + -rwxr-xr-x 1 root root 56240 Sep 21 2022 rmdir + -rwxr-xr-x 1 root root 27560 Nov 3 2022 run-parts + -rwxr-xr-x 1 root root 126424 Jan 6 2023 sed + lrwxrwxrwx 1 root root 9 May 29 09:58 sh -> /bin/bash + -rwxr-xr-x 1 root root 43888 Sep 21 2022 sleep + -rwxr-xr-x 1 root root 85008 Sep 21 2022 stty + -rwsr-xr-x 1 root root 72000 Mar 24 2023 su + -rwxr-xr-x 1 root root 39824 Sep 21 2022 sync + -rwxr-xr-x 1 root root 531984 Apr 7 2023 tar + -rwxr-xr-x 1 root root 14520 Nov 3 2022 tempfile + -rwxr-xr-x 1 root root 109616 Sep 21 2022 touch + -rwxr-xr-x 1 root root 35664 Sep 21 2022 true + -rwxr-xr-x 1 root root 14568 Mar 23 2023 ulockmgr_server + -rwsr-xr-x 1 root root 35128 Mar 24 2023 umount + -rwxr-xr-x 1 root root 43888 Sep 21 2022 uname + -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress + -rwxr-xr-x 1 root root 151344 Sep 21 2022 vdir + -rwxr-xr-x 1 root root 72024 Mar 24 2023 wdctl + lrwxrwxrwx 1 root root 8 Dec 20 2022 ypdomainname -> hostname + -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat + -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp + -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff + -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep + -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep + -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce + -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep + -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless + -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore + -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew +I: user script /srv/workspace/pbuilder/3037465/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -225,7 +257,7 @@ Get: 28 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] -Fetched 18.7 MB in 1s (29.4 MB/s) +Fetched 18.7 MB in 0s (57.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19596 files and directories currently installed.) @@ -359,8 +391,19 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/wham-align-0.1.5/ && 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 > ../wham-align_0.1.5-8_source.changes +I: user script /srv/workspace/pbuilder/3037465/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +removed '/etc/unsupported-skip-usrmerge-conversion' +The system has been successfully converted. +I: user script /srv/workspace/pbuilder/3037465/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/wham-align-0.1.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../wham-align_0.1.5-8_source.changes dpkg-buildpackage: info: source package wham-align dpkg-buildpackage: info: source version 0.1.5-8 dpkg-buildpackage: info: source distribution unstable @@ -370,7 +413,7 @@ debian/rules clean dh clean dh_auto_clean - make -j15 clean + make -j16 clean make[1]: Entering directory '/build/wham-align-0.1.5' rm -f wham wham-build *.o make[1]: Leaving directory '/build/wham-align-0.1.5' @@ -393,7 +436,7 @@ dh_autoreconf dh_auto_configure dh_auto_build - make -j15 "INSTALL=install --strip-program=true" + make -j16 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/wham-align-0.1.5' g++ -c -g -O2 -ffile-prefix-map=/build/wham-align-0.1.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fsigned-char -O3 -Wno-write-strings hash.cpp g++ -c -g -O2 -ffile-prefix-map=/build/wham-align-0.1.5=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -fsigned-char -O3 -Wno-write-strings embedhash.cpp @@ -416,64 +459,6 @@ error.cpp:32:7: warning: unused variable 'lineno' [-Wunused-variable] 32 | int lineno = __LINE__; | ^~~~~~ -In file included from hitset.h:31, - from hash.h:29, - from embedhash.cpp:27: -pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': -pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] - 265 | if (num > nError) { - | ~~~~^~~~~~~~ -pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)': -pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] - 602 | int i, j, offset, min, tmp; - | ^~~~~~ -pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)': -pair.h:682:33: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:36: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:39: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:42: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:45: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:684:15: warning: unused variable 'num' [-Wunused-variable] - 684 | int i, p, num, base, Cscore; - | ^~~ -pair.h:684:20: warning: unused variable 'base' [-Wunused-variable] - 684 | int i, p, num, base, Cscore; - | ^~~~ -pair.h:685:9: warning: unused variable 'a' [-Wunused-variable] - 685 | int a; - | ^ -pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)': -pair.h:755:15: warning: unused variable 'num' [-Wunused-variable] - 755 | int i, p, num, base, Cscore; - | ^~~ -pair.h:755:20: warning: unused variable 'base' [-Wunused-variable] - 755 | int i, p, num, base, Cscore; - | ^~~~ -pair.h:756:9: warning: unused variable 'a' [-Wunused-variable] - 756 | int a; - | ^ -pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': -pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] - 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); - | ~~~~~~~^~~~~~~~~~ -hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': -hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] - 86 | int size; - | ^~~~ -hash.h: In function 'uint32 murmurHash(int64*, uint32)': -hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] - 86 | uint32 sum = 0; - | ^~~ interval.cpp: In constructor 'IntervalTree::IntervalTree(uint32, uint32)': interval.cpp:67:21: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] 67 | for (int i = 0; i < numLevel - 1; i++) { @@ -492,56 +477,15 @@ interval.cpp:370:11: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] 370 | if (ret != numIEntry) { | ~~~~^~~~~~~~~~~~ -model.cpp: In static member function 'static int AlignerModel::estimateNumPartition(unsigned int, int, int, bool)': -model.cpp:76:16: warning: variable 'nIndex' set but not used [-Wunused-but-set-variable] - 76 | unsigned int nIndex, nLookup, nBucket; - | ^~~~~~ -short.cpp: In member function 'int ShortRead::preProcess(int)': -short.cpp:212:16: warning: suggest parentheses around assignment used as truth value [-Wparentheses] - 212 | while (len = readLine(file, str, 256)) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -model.cpp: In static member function 'static unsigned int AlignerModel::getFreeMemory()': -model.cpp:166:28: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] - 166 | fscanf(file, "MemTotal: %d kB\n", &memTotal); - | ~^ ~~~~~~~~~ - | | | - | int* unsigned int* - | %d -model.cpp:167:27: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] - 167 | fscanf(file, "MemFree: %d kB\n", &memFree); - | ~^ ~~~~~~~~ - | | | - | int* unsigned int* - | %d -model.cpp:168:27: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] - 168 | fscanf(file, "Buffers: %d kB\n", &memBuffer); - | ~^ ~~~~~~~~~~ - | | | - | int* unsigned int* - | %d -model.cpp:169:26: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] - 169 | fscanf(file, "Cached: %d kB\n", &memCache); - | ~^ ~~~~~~~~~ - | | | - | int* unsigned int* - | %d -model.cpp: In static member function 'static unsigned int AlignerModel::estimateHashtableSpace(unsigned int, int, int, int)': -model.cpp:198:26: warning: variable 'p2' set but not used [-Wunused-but-set-variable] - 198 | double nSpace, p0, p1, p2; - | ^~ -short.cpp: In member function 'ShortRead** ShortRead::split(int)': -short.cpp:483:21: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] - 483 | if (szPartition <= nRead - curRead) - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from hitset.h:31, - from hitset.cpp:1: + from writer.h:26, + from writer.cpp:21: pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 265 | if (num > nError) { | ~~~~^~~~~~~~ In file included from hitset.h:31, - from writer.h:26, - from writer.cpp:21: + from hitset.cpp:1: pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 265 | if (num > nError) { @@ -550,22 +494,51 @@ pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] 602 | int i, j, offset, min, tmp; | ^~~~~~ +pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)': +pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] + 602 | int i, j, offset, min, tmp; + | ^~~~~~ pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)': pair.h:682:33: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 682 | register unsigned long long P, M, X, U, Y; | ^ +pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)': +pair.h:682:33: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:682:36: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ pair.h:682:36: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 682 | register unsigned long long P, M, X, U, Y; | ^ pair.h:682:39: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 682 | register unsigned long long P, M, X, U, Y; | ^ +pair.h:682:39: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:682:42: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ pair.h:682:42: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 682 | register unsigned long long P, M, X, U, Y; | ^ pair.h:682:45: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 682 | register unsigned long long P, M, X, U, Y; | ^ +pair.h:682:45: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:684:15: warning: unused variable 'num' [-Wunused-variable] + 684 | int i, p, num, base, Cscore; + | ^~~ +pair.h:684:20: warning: unused variable 'base' [-Wunused-variable] + 684 | int i, p, num, base, Cscore; + | ^~~~ +pair.h:685:9: warning: unused variable 'a' [-Wunused-variable] + 685 | int a; + | ^ pair.h:684:15: warning: unused variable 'num' [-Wunused-variable] 684 | int i, p, num, base, Cscore; | ^~~ @@ -585,6 +558,88 @@ pair.h:756:9: warning: unused variable 'a' [-Wunused-variable] 756 | int a; | ^ +pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)': +pair.h:755:15: warning: unused variable 'num' [-Wunused-variable] + 755 | int i, p, num, base, Cscore; + | ^~~ +pair.h:755:20: warning: unused variable 'base' [-Wunused-variable] + 755 | int i, p, num, base, Cscore; + | ^~~~ +pair.h:756:9: warning: unused variable 'a' [-Wunused-variable] + 756 | int a; + | ^ +pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': +pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] + 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); + | ~~~~~~~^~~~~~~~~~ +pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': +pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] + 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); + | ~~~~~~~^~~~~~~~~~ +hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': +hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] + 86 | int size; + | ^~~~ +hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': +hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] + 86 | int size; + | ^~~~ +hitset.cpp: In member function 'int HitPairSet::build(HitSet*, HitSet*, uint32, uint32, bool (*)[2], bool)': +hitset.cpp:90:8: warning: unused variable 'pairMatch' [-Wunused-variable] + 90 | bool pairMatch = false; + | ^~~~~~~~~ +writer.cpp: In member function 'void SimpleWriter::writeField(int64*, int64*, strand)': +writer.cpp:154:27: warning: suggest parentheses around '-' in operand of '&' [-Wparentheses] + 154 | j = BITS_PER_LONGWORD - (length * BITS_PER_BASE) & BITS_LONGWORD_MASK; +writer.cpp:148:10: warning: unused variable 'sid' [-Wunused-variable] + 148 | uint32 sid = 0, soffset = 0; + | ^~~ +writer.cpp:148:19: warning: unused variable 'soffset' [-Wunused-variable] + 148 | uint32 sid = 0, soffset = 0; + | ^~~~~~~ +writer.cpp: In member function 'void SamWriter::writeValidAlignment(int, HitSet*)': +writer.cpp:271:7: warning: unused variable 'i' [-Wunused-variable] + 271 | int i, j, k, h, lastDiff; + | ^ +writer.cpp:271:10: warning: unused variable 'j' [-Wunused-variable] + 271 | int i, j, k, h, lastDiff; + | ^ +writer.cpp:271:13: warning: unused variable 'k' [-Wunused-variable] + 271 | int i, j, k, h, lastDiff; + | ^ +writer.cpp:271:19: warning: unused variable 'lastDiff' [-Wunused-variable] + 271 | int i, j, k, h, lastDiff; + | ^~~~~~~~ +writer.cpp:272:9: warning: unused variable 'code1' [-Wunused-variable] + 272 | int64 code1, code2; + | ^~~~~ +writer.cpp:272:16: warning: unused variable 'code2' [-Wunused-variable] + 272 | int64 code1, code2; + | ^~~~~ +writer.cpp:278:10: warning: unused variable 'p' [-Wunused-variable] + 278 | double p, sump; + | ^ +writer.cpp:278:13: warning: unused variable 'sump' [-Wunused-variable] + 278 | double p, sump; + | ^~~~ +writer.cpp:279:30: warning: unused variable 'tag' [-Wunused-variable] + 279 | char qseq[128], rseq[128], tag[128]; + | ^~~ +writer.cpp:281:8: warning: unused variable 'shortread' [-Wunused-variable] + 281 | char shortread[256]; + | ^~~~~~~~~ +writer.cpp: In member function 'void SamWriter::getCIGAR(char*, char*, char*, ErrorVector)': +writer.cpp:382:24: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 382 | for (i = 0, j = 0; i < strlen(query); i++, j++) { + | ~~^~~~~~~~~~~~~~~ +writer.cpp: In member function 'void SamWriter::getMDfield(char*, char*, char*, ErrorVector)': +writer.cpp:431:24: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] + 431 | for (i = 0, j = 0; i < strlen(query); i++, j++) { + | ~~^~~~~~~~~~~~~~~ +writer.cpp: In member function 'void SamPairWriter::writeValidAlignment(int, HitSet*)': +writer.cpp:619:47: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] + 619 | if (!mate1Unmatch && !mate2Unmatch & sid1 == sid2) { + | ~~~~~^~~~~~~ In file included from hitset.h:31, from hash.h:29, from hash.cpp:27: @@ -592,10 +647,13 @@ pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 265 | if (num > nError) { | ~~~~^~~~~~~~ -pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': -pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] - 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); - | ~~~~~~~^~~~~~~~~~ +In file included from hitset.h:31, + from hash.h:29, + from embedhash.cpp:27: +pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': +pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] + 265 | if (num > nError) { + | ~~~~^~~~~~~~ pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)': pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] 602 | int i, j, offset, min, tmp; @@ -616,10 +674,6 @@ pair.h:682:45: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 682 | register unsigned long long P, M, X, U, Y; | ^ -hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': -hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] - 86 | int size; - | ^~~~ pair.h:684:15: warning: unused variable 'num' [-Wunused-variable] 684 | int i, p, num, base, Cscore; | ^~~ @@ -639,6 +693,14 @@ pair.h:756:9: warning: unused variable 'a' [-Wunused-variable] 756 | int a; | ^ +pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': +pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] + 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); + | ~~~~~~~^~~~~~~~~~ +hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': +hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] + 86 | int size; + | ^~~~ pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)': pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] 602 | int i, j, offset, min, tmp; @@ -668,18 +730,6 @@ pair.h:685:9: warning: unused variable 'a' [-Wunused-variable] 685 | int a; | ^ -pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': -pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] - 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); - | ~~~~~~~^~~~~~~~~~ -hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': -hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] - 86 | int size; - | ^~~~ -hitset.cpp: In member function 'int HitPairSet::build(HitSet*, HitSet*, uint32, uint32, bool (*)[2], bool)': -hitset.cpp:90:8: warning: unused variable 'pairMatch' [-Wunused-variable] - 90 | bool pairMatch = false; - | ^~~~~~~~~ pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)': pair.h:755:15: warning: unused variable 'num' [-Wunused-variable] 755 | int i, p, num, base, Cscore; @@ -690,6 +740,10 @@ pair.h:756:9: warning: unused variable 'a' [-Wunused-variable] 756 | int a; | ^ +hash.h: In function 'uint32 murmurHash(int64*, uint32)': +hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] + 86 | uint32 sum = 0; + | ^~~ pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); @@ -702,62 +756,68 @@ hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] 86 | uint32 sum = 0; | ^~~ -writer.cpp: In member function 'void SimpleWriter::writeField(int64*, int64*, strand)': -writer.cpp:154:27: warning: suggest parentheses around '-' in operand of '&' [-Wparentheses] - 154 | j = BITS_PER_LONGWORD - (length * BITS_PER_BASE) & BITS_LONGWORD_MASK; -writer.cpp:148:10: warning: unused variable 'sid' [-Wunused-variable] - 148 | uint32 sid = 0, soffset = 0; - | ^~~ -writer.cpp:148:19: warning: unused variable 'soffset' [-Wunused-variable] - 148 | uint32 sid = 0, soffset = 0; - | ^~~~~~~ -writer.cpp: In member function 'void SamWriter::writeValidAlignment(int, HitSet*)': -writer.cpp:271:7: warning: unused variable 'i' [-Wunused-variable] - 271 | int i, j, k, h, lastDiff; +model.cpp: In static member function 'static int AlignerModel::estimateNumPartition(unsigned int, int, int, bool)': +model.cpp:76:16: warning: variable 'nIndex' set but not used [-Wunused-but-set-variable] + 76 | unsigned int nIndex, nLookup, nBucket; + | ^~~~~~ +model.cpp: In static member function 'static unsigned int AlignerModel::getFreeMemory()': +model.cpp:166:28: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] + 166 | fscanf(file, "MemTotal: %d kB\n", &memTotal); + | ~^ ~~~~~~~~~ + | | | + | int* unsigned int* + | %d +model.cpp:167:27: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] + 167 | fscanf(file, "MemFree: %d kB\n", &memFree); + | ~^ ~~~~~~~~ + | | | + | int* unsigned int* + | %d +model.cpp:168:27: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] + 168 | fscanf(file, "Buffers: %d kB\n", &memBuffer); + | ~^ ~~~~~~~~~~ + | | | + | int* unsigned int* + | %d +model.cpp:169:26: warning: format '%d' expects argument of type 'int*', but argument 3 has type 'unsigned int*' [-Wformat=] + 169 | fscanf(file, "Cached: %d kB\n", &memCache); + | ~^ ~~~~~~~~~ + | | | + | int* unsigned int* + | %d +model.cpp: In static member function 'static unsigned int AlignerModel::estimateHashtableSpace(unsigned int, int, int, int)': +model.cpp:198:26: warning: variable 'p2' set but not used [-Wunused-but-set-variable] + 198 | double nSpace, p0, p1, p2; + | ^~ +short.cpp: In member function 'int ShortRead::preProcess(int)': +short.cpp:212:16: warning: suggest parentheses around assignment used as truth value [-Wparentheses] + 212 | while (len = readLine(file, str, 256)) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +short.cpp: In member function 'ShortRead** ShortRead::split(int)': +short.cpp:483:21: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] + 483 | if (szPartition <= nRead - curRead) + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +edit_distance.cpp: In function 'scoreinfo edit_distance(char*, char*, int, int, char*, char*, int)': +edit_distance.cpp:61:7: warning: unused variable 'i' [-Wunused-variable] + 61 | int i; | ^ -writer.cpp:271:10: warning: unused variable 'j' [-Wunused-variable] - 271 | int i, j, k, h, lastDiff; - | ^ -writer.cpp:271:13: warning: unused variable 'k' [-Wunused-variable] - 271 | int i, j, k, h, lastDiff; - | ^ -writer.cpp:271:19: warning: unused variable 'lastDiff' [-Wunused-variable] - 271 | int i, j, k, h, lastDiff; - | ^~~~~~~~ -writer.cpp:272:9: warning: unused variable 'code1' [-Wunused-variable] - 272 | int64 code1, code2; - | ^~~~~ -writer.cpp:272:16: warning: unused variable 'code2' [-Wunused-variable] - 272 | int64 code1, code2; - | ^~~~~ -writer.cpp:278:10: warning: unused variable 'p' [-Wunused-variable] - 278 | double p, sump; - | ^ -writer.cpp:278:13: warning: unused variable 'sump' [-Wunused-variable] - 278 | double p, sump; - | ^~~~ -writer.cpp:279:30: warning: unused variable 'tag' [-Wunused-variable] - 279 | char qseq[128], rseq[128], tag[128]; - | ^~~ -writer.cpp:281:8: warning: unused variable 'shortread' [-Wunused-variable] - 281 | char shortread[256]; - | ^~~~~~~~~ -writer.cpp: In member function 'void SamWriter::getCIGAR(char*, char*, char*, ErrorVector)': -writer.cpp:382:24: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 382 | for (i = 0, j = 0; i < strlen(query); i++, j++) { - | ~~^~~~~~~~~~~~~~~ -writer.cpp: In member function 'void SamWriter::getMDfield(char*, char*, char*, ErrorVector)': -writer.cpp:431:24: warning: comparison of integer expressions of different signedness: 'int' and 'size_t' {aka 'long unsigned int'} [-Wsign-compare] - 431 | for (i = 0, j = 0; i < strlen(query); i++, j++) { - | ~~^~~~~~~~~~~~~~~ -writer.cpp: In member function 'void SamPairWriter::writeValidAlignment(int, HitSet*)': -writer.cpp:619:47: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] - 619 | if (!mate1Unmatch && !mate2Unmatch & sid1 == sid2) { - | ~~~~~^~~~~~~ +edit_distance.cpp: In function 'scoreinfo edit_distance_align(int**, char**, char*, char*, int, int, char*, char*, int)': +edit_distance.cpp:181:10: warning: unused variable 'tmp_trace' [-Wunused-variable] + 181 | char tmp_trace = traceback[i][j]; + | ^~~~~~~~~ +edit_distance.cpp:132:14: warning: unused variable 'x' [-Wunused-variable] + 132 | int k = 0, x = 0, y = 0; + | ^ +edit_distance.cpp:132:21: warning: unused variable 'y' [-Wunused-variable] + 132 | int k = 0, x = 0, y = 0; + | ^ +edit_distance.cpp:178:7: warning: unused variable 'kk' [-Wunused-variable] + 178 | int kk = 0; + | ^~ In file included from hitset.h:31, from hash.h:29, from aligner.h:25, - from builder.cpp:31: + from aligner.cpp:25: pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 265 | if (num > nError) { @@ -816,7 +876,7 @@ In file included from hitset.h:31, from hash.h:29, from aligner.h:25, - from aligner.cpp:25: + from builder.cpp:31: pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 265 | if (num > nError) { @@ -872,92 +932,6 @@ hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] 86 | uint32 sum = 0; | ^~~ -edit_distance.cpp: In function 'scoreinfo edit_distance(char*, char*, int, int, char*, char*, int)': -edit_distance.cpp:61:7: warning: unused variable 'i' [-Wunused-variable] - 61 | int i; - | ^ -edit_distance.cpp: In function 'scoreinfo edit_distance_align(int**, char**, char*, char*, int, int, char*, char*, int)': -edit_distance.cpp:181:10: warning: unused variable 'tmp_trace' [-Wunused-variable] - 181 | char tmp_trace = traceback[i][j]; - | ^~~~~~~~~ -edit_distance.cpp:132:14: warning: unused variable 'x' [-Wunused-variable] - 132 | int k = 0, x = 0, y = 0; - | ^ -edit_distance.cpp:132:21: warning: unused variable 'y' [-Wunused-variable] - 132 | int k = 0, x = 0, y = 0; - | ^ -edit_distance.cpp:178:7: warning: unused variable 'kk' [-Wunused-variable] - 178 | int kk = 0; - | ^~ -embedhash.cpp: In member function 'int EmbedHashTable::preProcessEnd()': -embedhash.cpp:137:16: warning: unused variable 'ln2' [-Wunused-variable] - 137 | const double ln2 = log(2); - | ^~~ -embedhash.cpp: In member function 'void EmbedHashTable::setScanThreshold(double)': -embedhash.cpp:253:9: warning: unused variable 'sum' [-Wunused-variable] - 253 | int64 sum = 0; - | ^~~ -embedhash.cpp:255:9: warning: unused variable 'top' [-Wunused-variable] - 255 | int64 top = total - total * r; - | ^~~ -embedhash.cpp: In member function 'void EmbedHashTable::insert(int64*, unsigned int)': -embedhash.cpp:369:38: warning: operation on '*(((EmbedHashTable*)this)->EmbedHashTable::overflowPool + ((sizetype)(((long unsigned int)curOverflowEntry) * 4)))' may be undefined [-Wsequence-point] - 369 | overflowPool[curOverflowEntry] = -embedhash.cpp:328:10: warning: unused variable 'seqOffset' [-Wunused-variable] - 328 | uint32 seqOffset; - | ^~~~~~~~~ -embedhash.cpp:330:10: warning: unused variable 'counter' [-Wunused-variable] - 330 | uint32 counter = 0; - | ^~~~~~~ -embedhash.cpp:331:11: warning: variable 'seqVector' set but not used [-Wunused-but-set-variable] - 331 | int64 * seqVector; - | ^~~~~~~~~ -embedhash.cpp:333:11: warning: unused variable 'target' [-Wunused-variable] - 333 | int64 * target = &tspace[8]; - | ^~~~~~ -embedhash.cpp:334:8: warning: unused variable 'isBloomFilter' [-Wunused-variable] - 334 | bool isBloomFilter; - | ^~~~~~~~~~~~~ -embedhash.cpp:335:12: warning: unused variable 'bloomFilter' [-Wunused-variable] - 335 | uint32 * bloomFilter; - | ^~~~~~~~~~~ -embedhash.cpp:336:10: warning: unused variable 'bloomFilterNum' [-Wunused-variable] - 336 | uint32 bloomFilterNum; - | ^~~~~~~~~~~~~~ -embedhash.cpp: In member function 'unsigned int EmbedHashTable::lookup(int64*, int64*, int, char*, strand, int, HitSet*, bool)': -embedhash.cpp:385:7: warning: unused variable 'num' [-Wunused-variable] - 385 | int num; - | ^~~ -embedhash.cpp:387:34: warning: variable 'startOffset' set but not used [-Wunused-but-set-variable] - 387 | uint32 seqOffset, entryOffset, startOffset; - | ^~~~~~~~~~~ -embedhash.cpp:389:11: warning: unused variable 'diff' [-Wunused-variable] - 389 | int64 * diff = &tspace1[8], *target = &tspace2[8]; - | ^~~~ -embedhash.cpp:392:10: warning: unused variable 'sid' [-Wunused-variable] - 392 | uint32 sid, soffset; - | ^~~ -embedhash.cpp:392:15: warning: unused variable 'soffset' [-Wunused-variable] - 392 | uint32 sid, soffset; - | ^~~~~~~ -short.cpp: In member function 'int ShortRead::load(int)': -short.cpp:422:28: warning: 'code' may be used uninitialized [-Wmaybe-uninitialized] - 422 | forward_word = ~((~code) | (-1LL << forward_offset)); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -short.cpp:310:38: note: 'code' was declared here - 310 | int64 forward_word, backward_word, code; - | ^~~~ -builder.cpp: In function 'int getArguVal(char*)': -builder.cpp:115:15: warning: suggest parentheses around assignment used as truth value [-Wparentheses] - 115 | else if (*c = 'g' || *c == 'G') - | ~~~^~~~~~~~~~~~~~~~~~ -builder.cpp: In function 'int main(int, char**)': -builder.cpp:159:7: warning: unused variable 'build_mode' [-Wunused-variable] - 159 | int build_mode = BUILD_MODE_ALL; - | ^~~~~~~~~~ -builder.cpp:277:7: warning: unused variable 'nChar' [-Wunused-variable] - 277 | int nChar = sequence->getNum(); - | ^~~~~ hash.cpp: In member function 'int HashTable::preProcessEnd()': hash.cpp:236:11: warning: comparison of integer expressions of different signedness: 'int' and 'const uint32' {aka 'const unsigned int'} [-Wsign-compare] 236 | if (h >= nHistogram) @@ -1019,6 +993,41 @@ hash.cpp:590:32: warning: unused variable 'subkey5' [-Wunused-variable] 590 | *subkey4 = &tspace[88], *subkey5 = &tspace[104]; | ^~~~~~~ +embedhash.cpp: In member function 'int EmbedHashTable::preProcessEnd()': +embedhash.cpp:137:16: warning: unused variable 'ln2' [-Wunused-variable] + 137 | const double ln2 = log(2); + | ^~~ +embedhash.cpp: In member function 'void EmbedHashTable::setScanThreshold(double)': +embedhash.cpp:253:9: warning: unused variable 'sum' [-Wunused-variable] + 253 | int64 sum = 0; + | ^~~ +embedhash.cpp:255:9: warning: unused variable 'top' [-Wunused-variable] + 255 | int64 top = total - total * r; + | ^~~ +embedhash.cpp: In member function 'void EmbedHashTable::insert(int64*, unsigned int)': +embedhash.cpp:369:38: warning: operation on '*(((EmbedHashTable*)this)->EmbedHashTable::overflowPool + ((sizetype)(((long unsigned int)curOverflowEntry) * 4)))' may be undefined [-Wsequence-point] + 369 | overflowPool[curOverflowEntry] = +embedhash.cpp:328:10: warning: unused variable 'seqOffset' [-Wunused-variable] + 328 | uint32 seqOffset; + | ^~~~~~~~~ +embedhash.cpp:330:10: warning: unused variable 'counter' [-Wunused-variable] + 330 | uint32 counter = 0; + | ^~~~~~~ +embedhash.cpp:331:11: warning: variable 'seqVector' set but not used [-Wunused-but-set-variable] + 331 | int64 * seqVector; + | ^~~~~~~~~ +embedhash.cpp:333:11: warning: unused variable 'target' [-Wunused-variable] + 333 | int64 * target = &tspace[8]; + | ^~~~~~ +embedhash.cpp:334:8: warning: unused variable 'isBloomFilter' [-Wunused-variable] + 334 | bool isBloomFilter; + | ^~~~~~~~~~~~~ +embedhash.cpp:335:12: warning: unused variable 'bloomFilter' [-Wunused-variable] + 335 | uint32 * bloomFilter; + | ^~~~~~~~~~~ +embedhash.cpp:336:10: warning: unused variable 'bloomFilterNum' [-Wunused-variable] + 336 | uint32 bloomFilterNum; + | ^~~~~~~~~~~~~~ hash.cpp: In member function 'void HashTable::insertEmbedTableEntry(int64*, uint32, int, int)': hash.cpp:662:11: warning: unused variable 'noheadkey' [-Wunused-variable] 662 | int64 * noheadkey = &tspace[8], *rest = &tspace[24]; @@ -1029,6 +1038,22 @@ hash.cpp:665:32: warning: unused variable 'subkey5' [-Wunused-variable] 665 | *subkey4 = &tspace[88], *subkey5 = &tspace[104]; | ^~~~~~~ +embedhash.cpp: In member function 'unsigned int EmbedHashTable::lookup(int64*, int64*, int, char*, strand, int, HitSet*, bool)': +embedhash.cpp:385:7: warning: unused variable 'num' [-Wunused-variable] + 385 | int num; + | ^~~ +embedhash.cpp:387:34: warning: variable 'startOffset' set but not used [-Wunused-but-set-variable] + 387 | uint32 seqOffset, entryOffset, startOffset; + | ^~~~~~~~~~~ +embedhash.cpp:389:11: warning: unused variable 'diff' [-Wunused-variable] + 389 | int64 * diff = &tspace1[8], *target = &tspace2[8]; + | ^~~~ +embedhash.cpp:392:10: warning: unused variable 'sid' [-Wunused-variable] + 392 | uint32 sid, soffset; + | ^~~ +embedhash.cpp:392:15: warning: unused variable 'soffset' [-Wunused-variable] + 392 | uint32 sid, soffset; + | ^~~~~~~ hash.cpp: In member function 'unsigned int HashTable::lookup(int64*, int64*, int, char*, strand, int, HitSet*, bool)': hash.cpp:746:7: warning: unused variable 'num' [-Wunused-variable] 746 | int num; @@ -1042,25 +1067,6 @@ hash.cpp:753:15: warning: unused variable 'soffset' [-Wunused-variable] 753 | uint32 sid, soffset; | ^~~~~~~ -short.cpp: In member function 'ShortRead** ShortRead::split(int)': -short.cpp:503:45: warning: '.t' directive writing 2 bytes into a region of size between 1 and 256 [-Wformat-overflow=] - 503 | sprintf(partitions[i]->alFileName, "%s.t%d", alFileName, i); - | ^~ -short.cpp:503:42: note: directive argument in the range [0, 2147483646] - 503 | sprintf(partitions[i]->alFileName, "%s.t%d", alFileName, i); - | ^~~~~~~~ -short.cpp:503:14: note: 'sprintf' output between 4 and 268 bytes into a destination of size 256 - 503 | sprintf(partitions[i]->alFileName, "%s.t%d", alFileName, i); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -short.cpp:510:45: warning: '.t' directive writing 2 bytes into a region of size between 1 and 256 [-Wformat-overflow=] - 510 | sprintf(partitions[i]->unFileName, "%s.t%d", unFileName, i); - | ^~ -short.cpp:510:42: note: directive argument in the range [0, 2147483646] - 510 | sprintf(partitions[i]->unFileName, "%s.t%d", unFileName, i); - | ^~~~~~~~ -short.cpp:510:14: note: 'sprintf' output between 4 and 268 bytes into a destination of size 256 - 510 | sprintf(partitions[i]->unFileName, "%s.t%d", unFileName, i); - | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hash.cpp: In member function 'unsigned int HashTable::lookupEmbedTable(int64*, uint32, int, char*, strand, int, HitSet*, bool)': hash.cpp:962:11: warning: unused variable 'noheadkey' [-Wunused-variable] 962 | int64 * noheadkey = &tspace[8], *rest = &tspace[24]; @@ -1114,6 +1120,13 @@ hash.cpp:1321:34: warning: variable 'offset' set but not used [-Wunused-but-set-variable] 1321 | uint32 entryOffset, seqOffset, offset; | ^~~~~~ +short.cpp: In member function 'int ShortRead::load(int)': +short.cpp:422:28: warning: 'code' may be used uninitialized [-Wmaybe-uninitialized] + 422 | forward_word = ~((~code) | (-1LL << forward_offset)); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +short.cpp:310:38: note: 'code' was declared here + 310 | int64 forward_word, backward_word, code; + | ^~~~ hash.cpp: In member function 'void HashTable::checkRepeat(uint32)': hash.cpp:1673:34: warning: variable 'offset' set but not used [-Wunused-but-set-variable] 1673 | uint32 entryOffset, seqOffset, offset; @@ -1121,16 +1134,25 @@ hash.cpp:1690:5: warning: label 'restart' defined but not used [-Wunused-label] 1690 | restart: if (buckets[bucketId] == HASH_EMPTY | ^~~~~~~ -In file included from embedhash.cpp:32: -edit_distance.h: At global scope: -edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable] - 25 | static score_mat obj_score_mat = { 1, 1, 1, 1 }; - | ^~~~~~~~~~~~~ -In file included from builder.cpp:34: -edit_distance.h: At global scope: -edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable] - 25 | static score_mat obj_score_mat = { 1, 1, 1, 1 }; - | ^~~~~~~~~~~~~ +short.cpp: In member function 'ShortRead** ShortRead::split(int)': +short.cpp:503:45: warning: '.t' directive writing 2 bytes into a region of size between 1 and 256 [-Wformat-overflow=] + 503 | sprintf(partitions[i]->alFileName, "%s.t%d", alFileName, i); + | ^~ +short.cpp:503:42: note: directive argument in the range [0, 2147483646] + 503 | sprintf(partitions[i]->alFileName, "%s.t%d", alFileName, i); + | ^~~~~~~~ +short.cpp:503:14: note: 'sprintf' output between 4 and 268 bytes into a destination of size 256 + 503 | sprintf(partitions[i]->alFileName, "%s.t%d", alFileName, i); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +short.cpp:510:45: warning: '.t' directive writing 2 bytes into a region of size between 1 and 256 [-Wformat-overflow=] + 510 | sprintf(partitions[i]->unFileName, "%s.t%d", unFileName, i); + | ^~ +short.cpp:510:42: note: directive argument in the range [0, 2147483646] + 510 | sprintf(partitions[i]->unFileName, "%s.t%d", unFileName, i); + | ^~~~~~~~ +short.cpp:510:14: note: 'sprintf' output between 4 and 268 bytes into a destination of size 256 + 510 | sprintf(partitions[i]->unFileName, "%s.t%d", unFileName, i); + | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from hitset.h:31, from hash.h:29, from aligner.h:25, @@ -1139,6 +1161,14 @@ pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] 265 | if (num > nError) { | ~~~~^~~~~~~~ +In file included from hitset.h:31, + from hash.h:29, + from aligner.h:25, + from sequence.cpp:30: +pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': +pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] + 265 | if (num > nError) { + | ~~~~^~~~~~~~ pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)': pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] 602 | int i, j, offset, min, tmp; @@ -1186,17 +1216,174 @@ hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] 86 | int size; | ^~~~ +pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)': +pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] + 602 | int i, j, offset, min, tmp; + | ^~~~~~ +pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)': +pair.h:682:33: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:682:36: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:682:39: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:682:42: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:682:45: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] + 682 | register unsigned long long P, M, X, U, Y; + | ^ +pair.h:684:15: warning: unused variable 'num' [-Wunused-variable] + 684 | int i, p, num, base, Cscore; + | ^~~ +pair.h:684:20: warning: unused variable 'base' [-Wunused-variable] + 684 | int i, p, num, base, Cscore; + | ^~~~ +pair.h:685:9: warning: unused variable 'a' [-Wunused-variable] + 685 | int a; + | ^ +pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)': +pair.h:755:15: warning: unused variable 'num' [-Wunused-variable] + 755 | int i, p, num, base, Cscore; + | ^~~ +pair.h:755:20: warning: unused variable 'base' [-Wunused-variable] + 755 | int i, p, num, base, Cscore; + | ^~~~ +pair.h:756:9: warning: unused variable 'a' [-Wunused-variable] + 756 | int a; + | ^ +pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': +pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] + 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); + | ~~~~~~~^~~~~~~~~~ +hash.h: In function 'uint32 murmurHash(int64*, uint32)': +hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] + 86 | uint32 sum = 0; + | ^~~ +hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': +hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] + 86 | int size; + | ^~~~ +hash.h: In function 'uint32 murmurHash(int64*, uint32)': +hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] + 86 | uint32 sum = 0; + | ^~~ +sequence.cpp: In member function 'void CompactSequence::extractFileName(char*, char*)': +sequence.cpp:97:10: warning: unused variable 'str' [-Wunused-variable] + 97 | char * str; + | ^~~ +sequence.cpp: In member function 'int CompactSequence::build(char**, int, int, int)': +sequence.cpp:238:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 238 | for (i = 0; i < numFile; i++) { + | ~~^~~~~~~~~ +sequence.cpp:309:13: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 309 | ( i = 0; i < nSeq; i++) + | ~~^~~~~~ +sequence.cpp:324:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 324 | for (i = 0; i < numFile; i++) { + | ~~^~~~~~~~~ +sequence.cpp:344:23: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 344 | for (j = 0; j < numError + 1; j++) { + | ~~^~~~~~~~~~~~~~ +sequence.cpp:410:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 410 | if (lenSegmentN > numError + 1) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~ +sequence.cpp:429:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 429 | if (lenSegmentN > numError + 1) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~ +sequence.cpp:223:16: warning: unused variable 'step' [-Wunused-variable] + 223 | unsigned int step, nextstep; + | ^~~~ +sequence.cpp:223:22: warning: unused variable 'nextstep' [-Wunused-variable] + 223 | unsigned int step, nextstep; + | ^~~~~~~~ +sequence.cpp: In member function 'int CompactSequence::filter(Aligner*, char**, int, char*)': +sequence.cpp:534:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 534 | for (i = 0; i < numFile; i++) { + | ~~^~~~~~~~~ +sequence.cpp:599:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] + 599 | if (lenSegmentN > nError + 1) + | ~~~~~~~~~~~~^~~~~~~~~~~~ +sequence.cpp:520:16: warning: unused variable 'step' [-Wunused-variable] + 520 | unsigned int step, nextstep; + | ^~~~ +sequence.cpp:520:22: warning: unused variable 'nextstep' [-Wunused-variable] + 520 | unsigned int step, nextstep; + | ^~~~~~~~ +sequence.cpp:521:9: warning: unused variable 'numFileChar' [-Wunused-variable] + 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; + | ^~~~~~~~~~~ +sequence.cpp:521:22: warning: unused variable 'numFileNSeg' [-Wunused-variable] + 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; + | ^~~~~~~~~~~ +sequence.cpp:521:35: warning: unused variable 'numFileSeq' [-Wunused-variable] + 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; + | ^~~~~~~~~~ +sequence.cpp:521:47: warning: unused variable 'nChar' [-Wunused-variable] + 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; + | ^~~~~ +sequence.cpp:521:54: warning: unused variable 'nNSegment' [-Wunused-variable] + 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; + | ^~~~~~~~~ +sequence.cpp: In member function 'int CompactSequence::save(char*)': +sequence.cpp:738:11: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] + 738 | if (ret != size) { + | ~~~~^~~~~~~ +sequence.cpp: In member function 'int CompactSequence::load(char*)': +sequence.cpp:804:11: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] + 804 | if (ret != size) { + | ~~~~^~~~~~~ +In file included from embedhash.cpp:32: +edit_distance.h: At global scope: +edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable] + 25 | static score_mat obj_score_mat = { 1, 1, 1, 1 }; + | ^~~~~~~~~~~~~ +hash.cpp: In member function 'unsigned int HashTable::lookupEmbedTable(int64*, uint32, int, char*, strand, int, HitSet*, bool)': +hash.cpp:1049:1: warning: control reaches end of non-void function [-Wreturn-type] + 1049 | } + | ^ +In file included from hash.cpp:31: +edit_distance.h: At global scope: +edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable] + 25 | static score_mat obj_score_mat = { 1, 1, 1, 1 }; + | ^~~~~~~~~~~~~ +main.cpp: In function 'int getArguVal(char*)': +main.cpp:159:15: warning: suggest parentheses around assignment used as truth value [-Wparentheses] + 159 | else if (*c = 'g' || *c == 'G') + | ~~~^~~~~~~~~~~~~~~~~~ +main.cpp: In function 'int align(char*, AlignInfo*, char*, int)': +main.cpp:350:7: warning: unused variable 'i' [-Wunused-variable] + 350 | int i, j, ret; + | ^ +main.cpp:350:10: warning: unused variable 'j' [-Wunused-variable] + 350 | int i, j, ret; + | ^ aligner.cpp: In member function 'int Aligner::initLookupArray()': aligner.cpp:365:37: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] 365 | if ((indexBits[i] >> j) & 0x1 == 1) { | ~~~~^~~~ +main.cpp: In function 'int main(int, char**)': +main.cpp:523:7: warning: unused variable 'numKeys' [-Wunused-variable] + 523 | int numKeys; + | ^~~~~~~ +main.cpp:526:7: warning: unused variable 'nSeq' [-Wunused-variable] + 526 | int nSeq = 1; + | ^~~~ +main.cpp:532:21: warning: unused variable 'sequence' [-Wunused-variable] + 532 | CompactSequence * sequence; + | ^~~~~~~~ +main.cpp:534:15: warning: unused variable 'threadpool' [-Wunused-variable] + 534 | pthread_t * threadpool; + | ^~~~~~~~~~ +main.cpp:536:9: warning: unused variable 'threadid' [-Wunused-variable] + 536 | int * threadid; + | ^~~~~~~~ aligner.cpp:371:37: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] 371 | if ((indexBits[i] >> j) & 0x1 == 1) { | ~~~~^~~~ -hash.h: In function 'uint32 murmurHash(int64*, uint32)': -hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] - 86 | uint32 sum = 0; - | ^~~ aligner.cpp: In member function 'int Aligner::preProcessHashTables()': aligner.cpp:534:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 534 | for (i = 0; i < nHashTable; i++) { @@ -1211,6 +1398,10 @@ aligner.cpp:724:19: warning: unused variable 'j' [-Wunused-variable] 724 | unsigned int i, j; | ^ +builder.cpp: In function 'int getArguVal(char*)': +builder.cpp:115:15: warning: suggest parentheses around assignment used as truth value [-Wparentheses] + 115 | else if (*c = 'g' || *c == 'G') + | ~~~^~~~~~~~~~~~~~~~~~ aligner.cpp: In member function 'int Aligner::buildHashTables(char*)': aligner.cpp:807:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 807 | for (i = 0; i < nHashTable; i++) { @@ -1266,6 +1457,13 @@ aligner.cpp:1006:19: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 1006 | for (i = 0; i < nHashTable; i++) { | ~~^~~~~~~~~~~~ +builder.cpp: In function 'int main(int, char**)': +builder.cpp:159:7: warning: unused variable 'build_mode' [-Wunused-variable] + 159 | int build_mode = BUILD_MODE_ALL; + | ^~~~~~~~~~ +builder.cpp:277:7: warning: unused variable 'nChar' [-Wunused-variable] + 277 | int nChar = sequence->getNum(); + | ^~~~~ aligner.cpp: In member function 'unsigned int Aligner::alignFirst(int64*, char*, strand, int, HitSet*, bool)': aligner.cpp:1035:10: warning: unused variable 'offset' [-Wunused-variable] 1035 | uint32 offset; @@ -1273,10 +1471,6 @@ aligner.cpp:1039:7: warning: unused variable 'nHit' [-Wunused-variable] 1039 | int nHit = 0; | ^~~~ -hash.cpp: In member function 'unsigned int HashTable::lookupEmbedTable(int64*, uint32, int, char*, strand, int, HitSet*, bool)': -hash.cpp:1049:1: warning: control reaches end of non-void function [-Wreturn-type] - 1049 | } - | ^ aligner.cpp: In member function 'unsigned int Aligner::align(int64*, char*, strand, int, HitSet*, bool, bool)': aligner.cpp:1119:10: warning: variable 'offset' set but not used [-Wunused-but-set-variable] 1119 | uint32 offset; @@ -1301,14 +1495,6 @@ aligner.cpp:1547:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 1547 | for (i = 0; i < res.nRead; i++) { | ~~^~~~~~~~~~~ -In file included from hitset.h:31, - from hash.h:29, - from aligner.h:25, - from sequence.cpp:30: -pair.h: In static member function 'static ErrorVector PairAligner::pairAlignDBA(int64*, int64*, int, int, int)': -pair.h:265:13: warning: comparison of integer expressions of different signedness: 'int64' {aka 'long long unsigned int'} and 'int' [-Wsign-compare] - 265 | if (num > nError) { - | ~~~~^~~~~~~~ aligner.cpp:1629:3: warning: deleting object of abstract class type 'Writer' which has non-virtual destructor will cause undefined behavior [-Wdelete-non-virtual-dtor] 1629 | delete writer; | ^~~~~~~~~~~~~ @@ -1356,11 +1542,6 @@ aligner.cpp:1851:3: warning: deleting object of abstract class type 'Writer' which has non-virtual destructor will cause undefined behavior [-Wdelete-non-virtual-dtor] 1851 | delete writer; | ^~~~~~~~~~~~~ -In file included from hash.cpp:31: -edit_distance.h: At global scope: -edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable] - 25 | static score_mat obj_score_mat = { 1, 1, 1, 1 }; - | ^~~~~~~~~~~~~ aligner.cpp:1775:10: warning: unused variable 'ret' [-Wunused-variable] 1775 | int i, ret; | ^~~ @@ -1371,149 +1552,11 @@ aligner.cpp:1874:10: warning: unused variable 'ret' [-Wunused-variable] 1874 | int i, ret; | ^~~ -pair.h: In static member function 'static bool PairAligner::pairAlignDP(int64*, int64*, int, int, int, bool)': -pair.h:602:15: warning: unused variable 'offset' [-Wunused-variable] - 602 | int i, j, offset, min, tmp; - | ^~~~~~ -pair.h: In static member function 'static bool PairAligner::pairAlignBitVector64(int64*, int64*, int, int, int)': -pair.h:682:33: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:36: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:39: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:42: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:682:45: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] - 682 | register unsigned long long P, M, X, U, Y; - | ^ -pair.h:684:15: warning: unused variable 'num' [-Wunused-variable] - 684 | int i, p, num, base, Cscore; - | ^~~ -pair.h:684:20: warning: unused variable 'base' [-Wunused-variable] - 684 | int i, p, num, base, Cscore; - | ^~~~ -pair.h:685:9: warning: unused variable 'a' [-Wunused-variable] - 685 | int a; - | ^ -pair.h: In static member function 'static bool PairAligner::pairAlignBitVector(int64*, int64*, int, int, int)': -pair.h:755:15: warning: unused variable 'num' [-Wunused-variable] - 755 | int i, p, num, base, Cscore; - | ^~~ -pair.h:755:20: warning: unused variable 'base' [-Wunused-variable] - 755 | int i, p, num, base, Cscore; - | ^~~~ -pair.h:756:9: warning: unused variable 'a' [-Wunused-variable] - 756 | int a; - | ^ -pair.h: In static member function 'static int128 PairAligner::Bit128RemoveSmearRightmost1(int128)': -pair.h:974:23: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] - 974 | tmp.high = x.high ^ - x.high | (0LL - (x.low != 0)); - | ~~~~~~~^~~~~~~~~~ -hitset.h: In constructor 'HitSet::HitSet(int, int, int, bool, bool)': -hitset.h:86:9: warning: variable 'size' set but not used [-Wunused-but-set-variable] - 86 | int size; - | ^~~~ -hash.h: In function 'uint32 murmurHash(int64*, uint32)': -hash.h:86:10: warning: unused variable 'sum' [-Wunused-variable] - 86 | uint32 sum = 0; - | ^~~ -sequence.cpp: In member function 'void CompactSequence::extractFileName(char*, char*)': -sequence.cpp:97:10: warning: unused variable 'str' [-Wunused-variable] - 97 | char * str; - | ^~~ -sequence.cpp: In member function 'int CompactSequence::build(char**, int, int, int)': -sequence.cpp:238:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 238 | for (i = 0; i < numFile; i++) { - | ~~^~~~~~~~~ -sequence.cpp:309:13: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 309 | ( i = 0; i < nSeq; i++) - | ~~^~~~~~ -sequence.cpp:324:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 324 | for (i = 0; i < numFile; i++) { - | ~~^~~~~~~~~ -sequence.cpp:344:23: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 344 | for (j = 0; j < numError + 1; j++) { - | ~~^~~~~~~~~~~~~~ -sequence.cpp:410:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 410 | if (lenSegmentN > numError + 1) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~ -sequence.cpp:429:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 429 | if (lenSegmentN > numError + 1) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~ -sequence.cpp:223:16: warning: unused variable 'step' [-Wunused-variable] - 223 | unsigned int step, nextstep; - | ^~~~ -sequence.cpp:223:22: warning: unused variable 'nextstep' [-Wunused-variable] - 223 | unsigned int step, nextstep; - | ^~~~~~~~ -sequence.cpp: In member function 'int CompactSequence::filter(Aligner*, char**, int, char*)': -sequence.cpp:534:17: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 534 | for (i = 0; i < numFile; i++) { - | ~~^~~~~~~~~ -sequence.cpp:599:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] - 599 | if (lenSegmentN > nError + 1) - | ~~~~~~~~~~~~^~~~~~~~~~~~ -sequence.cpp:520:16: warning: unused variable 'step' [-Wunused-variable] - 520 | unsigned int step, nextstep; - | ^~~~ -sequence.cpp:520:22: warning: unused variable 'nextstep' [-Wunused-variable] - 520 | unsigned int step, nextstep; - | ^~~~~~~~ -sequence.cpp:521:9: warning: unused variable 'numFileChar' [-Wunused-variable] - 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; - | ^~~~~~~~~~~ -sequence.cpp:521:22: warning: unused variable 'numFileNSeg' [-Wunused-variable] - 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; - | ^~~~~~~~~~~ -sequence.cpp:521:35: warning: unused variable 'numFileSeq' [-Wunused-variable] - 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; - | ^~~~~~~~~~ -sequence.cpp:521:47: warning: unused variable 'nChar' [-Wunused-variable] - 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; - | ^~~~~ -sequence.cpp:521:54: warning: unused variable 'nNSegment' [-Wunused-variable] - 521 | int64 numFileChar, numFileNSeg, numFileSeq, nChar, nNSegment; - | ^~~~~~~~~ -sequence.cpp: In member function 'int CompactSequence::save(char*)': -sequence.cpp:738:11: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] - 738 | if (ret != size) { - | ~~~~^~~~~~~ -sequence.cpp: In member function 'int CompactSequence::load(char*)': -sequence.cpp:804:11: warning: comparison of integer expressions of different signedness: 'int' and 'uint32' {aka 'unsigned int'} [-Wsign-compare] - 804 | if (ret != size) { - | ~~~~^~~~~~~ -main.cpp: In function 'int getArguVal(char*)': -main.cpp:159:15: warning: suggest parentheses around assignment used as truth value [-Wparentheses] - 159 | else if (*c = 'g' || *c == 'G') - | ~~~^~~~~~~~~~~~~~~~~~ -main.cpp: In function 'int align(char*, AlignInfo*, char*, int)': -main.cpp:350:7: warning: unused variable 'i' [-Wunused-variable] - 350 | int i, j, ret; - | ^ -main.cpp:350:10: warning: unused variable 'j' [-Wunused-variable] - 350 | int i, j, ret; - | ^ -main.cpp: In function 'int main(int, char**)': -main.cpp:523:7: warning: unused variable 'numKeys' [-Wunused-variable] - 523 | int numKeys; - | ^~~~~~~ -main.cpp:526:7: warning: unused variable 'nSeq' [-Wunused-variable] - 526 | int nSeq = 1; - | ^~~~ -main.cpp:532:21: warning: unused variable 'sequence' [-Wunused-variable] - 532 | CompactSequence * sequence; - | ^~~~~~~~ -main.cpp:534:15: warning: unused variable 'threadpool' [-Wunused-variable] - 534 | pthread_t * threadpool; - | ^~~~~~~~~~ -main.cpp:536:9: warning: unused variable 'threadid' [-Wunused-variable] - 536 | int * threadid; - | ^~~~~~~~ +In file included from builder.cpp:34: +edit_distance.h: At global scope: +edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable] + 25 | static score_mat obj_score_mat = { 1, 1, 1, 1 }; + | ^~~~~~~~~~~~~ In file included from main.cpp:38: edit_distance.h: At global scope: edit_distance.h:25:18: warning: 'obj_score_mat' defined but not used [-Wunused-variable] @@ -1545,6 +1588,13 @@ sequence.cpp:221:33: note: 'offsetInOrgSeq' was declared here 221 | unsigned int offsetInCmptSeq, offsetInOrgSeq; | ^~~~~~~~~~~~~~ +sequence.cpp: In static member function 'static void CompactSequence::compose(char*, int, int64*)': +sequence.cpp:674:20: warning: 'code' may be used uninitialized [-Wmaybe-uninitialized] + 674 | forward_word = ~((~code) | (-1LL << forward_offset)); + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +sequence.cpp:630:23: note: 'code' was declared here + 630 | int64 forward_word, code; + | ^~~~ In member function 'void HashTable::setLookupInfo(int, int*)', inlined from 'int Aligner::initLookupArray()' at aligner.cpp:375:32: hash.h:353:18: warning: 'keySpan' may be used uninitialized [-Wmaybe-uninitialized] @@ -1554,13 +1604,6 @@ aligner.cpp:360:7: note: 'keySpan' was declared here 360 | int keySpan; | ^~~~~~~ -sequence.cpp: In static member function 'static void CompactSequence::compose(char*, int, int64*)': -sequence.cpp:674:20: warning: 'code' may be used uninitialized [-Wmaybe-uninitialized] - 674 | forward_word = ~((~code) | (-1LL << forward_offset)); - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -sequence.cpp:630:23: note: 'code' was declared here - 630 | int64 forward_word, code; - | ^~~~ aligner.cpp: In member function 'unsigned int Aligner::alignFirst(int64*, char*, strand, int, HitSet*, bool)': aligner.cpp:1097:3: warning: 'ret' may be used uninitialized [-Wmaybe-uninitialized] 1097 | if (ret == MSG_HITSETFULL) @@ -1572,7 +1615,7 @@ g++ -o wham-build sequence.o hash.o embedhash.o builder.o aligner.o interval.o edit_distance.o error.o short.o hitset.o model.o perfcounters.o writer.o -lpthread make[1]: Leaving directory '/build/wham-align-0.1.5' dh_auto_test - rm -fr -- /tmp/dh-xdg-rundir-Qw3T4exo + rm -fr -- /tmp/dh-xdg-rundir-mB7387eF create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/wham-align.substvars @@ -1607,12 +1650,12 @@ install -p -m0644 ./debian/wham-build.1 debian/wham-align/usr/share/man/man1/wham-build.1 install -m0755 -d debian/wham-align/usr/share/man/man1/ install -p -m0644 ./debian/wham.1 debian/wham-align/usr/share/man/man1/wham.1 - man-recode --to-code UTF-8 --suffix .dh-new debian/wham-align/usr/share/man/man1/wham.1 man-recode --to-code UTF-8 --suffix .dh-new debian/wham-align/usr/share/man/man1/wham-build.1 - mv debian/wham-align/usr/share/man/man1/wham.1.dh-new debian/wham-align/usr/share/man/man1/wham.1 - chmod 0644 -- debian/wham-align/usr/share/man/man1/wham.1 + man-recode --to-code UTF-8 --suffix .dh-new debian/wham-align/usr/share/man/man1/wham.1 mv debian/wham-align/usr/share/man/man1/wham-build.1.dh-new debian/wham-align/usr/share/man/man1/wham-build.1 chmod 0644 -- debian/wham-align/usr/share/man/man1/wham-build.1 + mv debian/wham-align/usr/share/man/man1/wham.1.dh-new debian/wham-align/usr/share/man/man1/wham.1 + chmod 0644 -- debian/wham-align/usr/share/man/man1/wham.1 dh_perl dh_link dh_strip_nondeterminism @@ -1677,9 +1720,9 @@ chmod 0644 -- debian/.debhelper/wham-align/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/wham-align .. +dpkg-deb: building package 'wham-align' in '../wham-align_0.1.5-8_amd64.deb'. dpkg-deb --root-owner-group --build debian/.debhelper/wham-align/dbgsym-root .. dpkg-deb: building package 'wham-align-dbgsym' in '../wham-align-dbgsym_0.1.5-8_amd64.deb'. -dpkg-deb: building package 'wham-align' in '../wham-align_0.1.5-8_amd64.deb'. dpkg-genbuildinfo --build=binary -O../wham-align_0.1.5-8_amd64.buildinfo dpkg-genchanges --build=binary -O../wham-align_0.1.5-8_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1687,12 +1730,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3037465/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3037465/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/2276061 and its subdirectories -I: Current time: Wed Apr 26 01:35:04 -12 2023 -I: pbuilder-time-stamp: 1682516104 +I: removing directory /srv/workspace/pbuilder/3037465 and its subdirectories +I: Current time: Wed May 29 09:59:01 +14 2024 +I: pbuilder-time-stamp: 1716926341