I: pbuilder: network access will be disabled during build
I: Current time: Mon Jan 15 07:00:32 +14 2024
I: pbuilder-time-stamp: 1705251632
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: using eatmydata during job
I: Copying source file
I: copying [segemehl_0.3.4-3.dsc]
I: copying [./segemehl_0.3.4.orig.tar.xz]
I: copying [./segemehl_0.3.4-3.debian.tar.xz]
I: Extracting source
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.HAbd8tsQ/trustedkeys.kbx': General error
gpgv: Signature made Thu Feb 18 09:48:35 2021
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 ./segemehl_0.3.4-3.dsc
dpkg-source: info: extracting segemehl in segemehl-0.3.4
dpkg-source: info: unpacking segemehl_0.3.4.orig.tar.xz
dpkg-source: info: unpacking segemehl_0.3.4-3.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying rpath.patch
dpkg-source: info: applying cross.patch
I: using fakeroot in build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/18159/tmp/hooks/D01_modify_environment starting
debug: Running on ionos12-i386.
I: Changing host+domainname to test build reproducibility
I: Adding a custom variable just for the fun of it...
I: Changing /bin/sh to bash
'/bin/sh' -> '/bin/bash'
lrwxrwxrwx 1 root root 9 Jan 14 17:00 /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/18159/tmp/hooks/D01_modify_environment finished
I: user script /srv/workspace/pbuilder/18159/tmp/hooks/D02_print_environment starting
I: set
BASH=/bin/sh
BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath
BASH_ALIASES=()
BASH_ARGC=()
BASH_ARGV=()
BASH_CMDS=()
BASH_LINENO=([0]="12" [1]="0")
BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="i686-pc-linux-gnu")
BASH_VERSION='5.1.4(1)-release'
BUILDDIR=/build/reproducible-path
BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
BUILDUSERNAME=pbuilder2
BUILD_ARCH=i386
DEBIAN_FRONTEND=noninteractive
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=7 '
DIRSTACK=()
DISTRIBUTION=bullseye
EUID=0
FUNCNAME=([0]="Echo" [1]="main")
GROUPS=()
HOME=/root
HOSTNAME=i-capture-the-hostname
HOSTTYPE=i686
HOST_ARCH=i386
IFS='
'
INVOCATION_ID=6e403cdf6b144b1eb805d9888c60e255
LANG=C
LANGUAGE=de_CH:de
LC_ALL=C
LD_LIBRARY_PATH=/usr/lib/libeatmydata
LD_PRELOAD=libeatmydata.so
MACHTYPE=i686-pc-linux-gnu
MAIL=/var/mail/root
OPTERR=1
OPTIND=1
OSTYPE=linux-gnu
PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path
PBCURRENTCOMMANDLINEOPERATION=build
PBUILDER_OPERATION=build
PBUILDER_PKGDATADIR=/usr/share/pbuilder
PBUILDER_PKGLIBDIR=/usr/lib/pbuilder
PBUILDER_SYSCONFDIR=/etc
PIPESTATUS=([0]="0")
POSIXLY_CORRECT=y
PPID=18159
PS4='+ '
PWD=/
SHELL=/bin/bash
SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix
SHLVL=3
SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.AxDxnIcW/pbuilderrc_SRln --distribution bullseye --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.AxDxnIcW/b2 --logfile b2/build.log segemehl_0.3.4-3.dsc'
SUDO_GID=112
SUDO_UID=107
SUDO_USER=jenkins
TERM=unknown
TZ=/usr/share/zoneinfo/Etc/GMT-14
UID=0
USER=root
_='I: set'
http_proxy=http://78.137.99.97:3128
I: uname -a
Linux i-capture-the-hostname 6.1.0-17-686-pae #1 SMP PREEMPT_DYNAMIC Debian 6.1.69-1 (2023-12-30) i686 GNU/Linux
I: ls -l /bin
total 5776
-rwxr-xr-x 1 root root 1367848 Mar 27 2022 bash
-rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2
-rwxr-xr-x 3 root root 38280 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 38280 Jul 20 2020 bzip2
-rwxr-xr-x 1 root root 17768 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 38824 Sep 22 2020 cat
-rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp
-rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod
-rwxr-xr-x 1 root root 75752 Sep 22 2020 chown
-rwxr-xr-x 1 root root 157960 Sep 22 2020 cp
-rwxr-xr-x 1 root root 128724 Dec 10 2020 dash
-rwxr-xr-x 1 root root 124904 Sep 22 2020 date
-rwxr-xr-x 1 root root 92172 Sep 22 2020 dd
-rwxr-xr-x 1 root root 100752 Sep 22 2020 df
-rwxr-xr-x 1 root root 153964 Sep 22 2020 dir
-rwxr-xr-x 1 root root 83644 Jan 20 2022 dmesg
lrwxrwxrwx 1 root root 8 Nov 7 2019 dnsdomainname -> hostname
lrwxrwxrwx 1 root root 8 Nov 7 2019 domainname -> hostname
-rwxr-xr-x 1 root root 34664 Sep 22 2020 echo
-rwxr-xr-x 1 root root 28 Jan 25 2023 egrep
-rwxr-xr-x 1 root root 34664 Sep 22 2020 false
-rwxr-xr-x 1 root root 28 Jan 25 2023 fgrep
-rwxr-xr-x 1 root root 71928 Jan 20 2022 findmnt
-rwsr-xr-x 1 root root 30112 Feb 26 2021 fusermount
-rwxr-xr-x 1 root root 210488 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 100952 Apr 10 2022 gzip
-rwxr-xr-x 1 root root 21916 Nov 7 2019 hostname
-rwxr-xr-x 1 root root 83980 Sep 22 2020 ln
-rwxr-xr-x 1 root root 55572 Feb 7 2020 login
-rwxr-xr-x 1 root root 153964 Sep 22 2020 ls
-rwxr-xr-x 1 root root 153124 Jan 20 2022 lsblk
-rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir
-rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod
-rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp
-rwxr-xr-x 1 root root 58920 Jan 20 2022 more
-rwsr-xr-x 1 root root 50720 Jan 20 2022 mount
-rwxr-xr-x 1 root root 13856 Jan 20 2022 mountpoint
-rwxr-xr-x 1 root root 157996 Sep 22 2020 mv
lrwxrwxrwx 1 root root 8 Nov 7 2019 nisdomainname -> hostname
lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5
-rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd
lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash
-rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink
-rwxr-xr-x 1 root root 75720 Sep 22 2020 rm
-rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir
-rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts
-rwxr-xr-x 1 root root 125036 Dec 22 2018 sed
lrwxrwxrwx 1 root root 9 Jan 14 17:00 sh -> /bin/bash
-rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep
-rwxr-xr-x 1 root root 83880 Sep 22 2020 stty
-rwsr-xr-x 1 root root 79396 Jan 20 2022 su
-rwxr-xr-x 1 root root 34696 Sep 22 2020 sync
-rwxr-xr-x 1 root root 602584 Feb 17 2021 tar
-rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile
-rwxr-xr-x 1 root root 108520 Sep 22 2020 touch
-rwxr-xr-x 1 root root 34664 Sep 22 2020 true
-rwxr-xr-x 1 root root 17768 Feb 26 2021 ulockmgr_server
-rwsr-xr-x 1 root root 30236 Jan 20 2022 umount
-rwxr-xr-x 1 root root 34664 Sep 22 2020 uname
-rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress
-rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir
-rwxr-xr-x 1 root root 63024 Jan 20 2022 wdctl
lrwxrwxrwx 1 root root 8 Nov 7 2019 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 5898 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 8049 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/18159/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: i386
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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 (= 12), pkg-config, libhts-dev, libncurses-dev, 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 ... 17763 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 (= 12); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on pkg-config; however:
Package pkg-config is not installed.
pbuilder-satisfydepends-dummy depends on libhts-dev; however:
Package libhts-dev is not installed.
pbuilder-satisfydepends-dummy depends on libncurses-dev; however:
Package libncurses-dev 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} libbrotli1{a} libcurl3-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libhts-dev{a} libhts3{a} libicu67{a} libldap-2.4-2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} pkg-config{a} po-debconf{a} sensible-utils{a} zlib1g-dev{a}
The following packages are RECOMMENDED but will NOT be installed:
ca-certificates curl libarchive-cpio-perl libglib2.0-data libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix shared-mime-info wget xdg-user-dirs
0 packages upgraded, 51 newly installed, 0 to remove and 0 not upgraded.
Need to get 27.2 MB of archives. After unpacking 87.4 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-8+deb11u1 [149 kB]
Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB]
Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB]
Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB]
Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB]
Get: 6 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB]
Get: 7 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3+deb11u1 [273 kB]
Get: 8 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3+deb11u1 [135 kB]
Get: 9 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3+deb11u1 [69.2 kB]
Get: 10 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB]
Get: 11 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB]
Get: 12 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB]
Get: 13 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB]
Get: 14 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get: 15 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB]
Get: 16 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB]
Get: 17 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB]
Get: 18 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB]
Get: 19 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB]
Get: 20 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 21 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB]
Get: 22 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB]
Get: 23 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB]
Get: 24 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB]
Get: 25 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB]
Get: 26 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-7 [8775 kB]
Get: 27 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7+deb11u4 [728 kB]
Get: 28 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB]
Get: 29 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get: 30 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 31 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB]
Get: 32 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB]
Get: 33 http://deb.debian.org/debian bullseye/main i386 libsasl2-modules-db i386 2.1.27+dfsg-2.1+deb11u1 [70.1 kB]
Get: 34 http://deb.debian.org/debian bullseye/main i386 libsasl2-2 i386 2.1.27+dfsg-2.1+deb11u1 [110 kB]
Get: 35 http://deb.debian.org/debian bullseye/main i386 libldap-2.4-2 i386 2.4.57+dfsg-3+deb11u1 [244 kB]
Get: 36 http://deb.debian.org/debian bullseye/main i386 libnghttp2-14 i386 1.43.0-1 [85.7 kB]
Get: 37 http://deb.debian.org/debian bullseye/main i386 libpsl5 i386 0.21.0-1.2 [57.9 kB]
Get: 38 http://deb.debian.org/debian bullseye/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b2 [64.3 kB]
Get: 39 http://deb.debian.org/debian bullseye/main i386 libssh2-1 i386 1.9.0-2 [164 kB]
Get: 40 http://deb.debian.org/debian bullseye/main i386 libcurl3-gnutls i386 7.74.0-1.3+deb11u9 [374 kB]
Get: 41 http://deb.debian.org/debian bullseye/main i386 libcurl4-gnutls-dev i386 7.74.0-1.3+deb11u9 [477 kB]
Get: 42 http://deb.debian.org/debian bullseye/main i386 libdeflate0 i386 1.7-1 [48.4 kB]
Get: 43 http://deb.debian.org/debian bullseye/main i386 libdeflate-dev i386 1.7-1 [44.4 kB]
Get: 44 http://deb.debian.org/debian bullseye/main i386 libglib2.0-0 i386 2.66.8-1 [1437 kB]
Get: 45 http://deb.debian.org/debian bullseye/main i386 libhts3 i386 1.11-4 [408 kB]
Get: 46 http://deb.debian.org/debian bullseye/main i386 liblzma-dev i386 5.2.5-2.1~deb11u1 [240 kB]
Get: 47 http://deb.debian.org/debian bullseye/main i386 zlib1g-dev i386 1:1.2.11.dfsg-2+deb11u2 [194 kB]
Get: 48 http://deb.debian.org/debian bullseye/main i386 libhts-dev i386 1.11-4 [3817 kB]
Get: 49 http://deb.debian.org/debian bullseye/main i386 libncurses6 i386 6.2+20201114-2+deb11u2 [110 kB]
Get: 50 http://deb.debian.org/debian bullseye/main i386 libncurses-dev i386 6.2+20201114-2+deb11u2 [373 kB]
Get: 51 http://deb.debian.org/debian bullseye/main i386 pkg-config i386 0.29.2-1 [66.3 kB]
Fetched 27.2 MB in 12s (2347 kB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package bsdextrautils.
(Reading database ...
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(Reading database ... 17763 files and directories currently installed.)
Preparing to unpack .../00-bsdextrautils_2.36.1-8+deb11u1_i386.deb ...
Unpacking bsdextrautils (2.36.1-8+deb11u1) ...
Selecting previously unselected package libuchardet0:i386.
Preparing to unpack .../01-libuchardet0_0.0.7-1_i386.deb ...
Unpacking libuchardet0:i386 (0.0.7-1) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../02-groff-base_1.22.4-6_i386.deb ...
Unpacking groff-base (1.22.4-6) ...
Selecting previously unselected package libpipeline1:i386.
Preparing to unpack .../03-libpipeline1_1.5.3-1_i386.deb ...
Unpacking libpipeline1:i386 (1.5.3-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../04-man-db_2.9.4-2_i386.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+deb11u1_i386.deb ...
Unpacking libmagic-mgc (1:5.39-3+deb11u1) ...
Selecting previously unselected package libmagic1:i386.
Preparing to unpack .../07-libmagic1_1%3a5.39-3+deb11u1_i386.deb ...
Unpacking libmagic1:i386 (1:5.39-3+deb11u1) ...
Selecting previously unselected package file.
Preparing to unpack .../08-file_1%3a5.39-3+deb11u1_i386.deb ...
Unpacking file (1:5.39-3+deb11u1) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../09-gettext-base_0.21-4_i386.deb ...
Unpacking gettext-base (0.21-4) ...
Selecting previously unselected package libsigsegv2:i386.
Preparing to unpack .../10-libsigsegv2_2.13-1_i386.deb ...
Unpacking libsigsegv2:i386 (2.13-1) ...
Selecting previously unselected package m4.
Preparing to unpack .../11-m4_1.4.18-5_i386.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.
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fakeroot is already the newest version (1.25.3-1.1).
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
I: Building the package
I: user script /srv/workspace/pbuilder/18159/tmp/hooks/A99_set_merged_usr starting
Not re-configuring usrmerge for bullseye
I: user script /srv/workspace/pbuilder/18159/tmp/hooks/A99_set_merged_usr finished
hostname: Name or service not known
I: Running cd /build/reproducible-path/segemehl-0.3.4/ && 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 > ../segemehl_0.3.4-3_source.changes
dpkg-buildpackage: info: source package segemehl
dpkg-buildpackage: info: source version 0.3.4-3
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Nilesh Patra <npatra974@gmail.com>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture i386
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j7 clean
make[1]: Entering directory '/build/reproducible-path/segemehl-0.3.4'
Cleaning...
rm -f -r build segemehl haarz
make[1]: Leaving directory '/build/reproducible-path/segemehl-0.3.4'
dh_clean
debian/rules build
dh build
dh_update_autotools_config
dh_autoreconf
dh_auto_configure
debian/rules override_dh_auto_build
make[1]: Entering directory '/build/reproducible-path/segemehl-0.3.4'
dh_auto_build -- all
make -j7 "INSTALL=install --strip-program=true" all
make[2]: Entering directory '/build/reproducible-path/segemehl-0.3.4'
Building... library for source build/info.o
Building... library for source build/match.o
Building... library for source build/segemehl.o
Building... library for source build/sw.o
Building... library for source build/merge.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/info.o libs/info.c
Building... library for source build/bitVector.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/match.o libs/match.c
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/segemehl.o libs/segemehl.c
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/sw.o libs/sw.c
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/merge.o libs/merge.c
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/bitVector.o libs/bitVector.c
Building... library for source build/gzip.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/gzip.o libs/gzip.c
libs/gzip.c: In function 'readCommonHeader':
libs/gzip.c:41:56: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
41 | fprintf(stderr, "common header has a length of %ld instead of %ld - not good.\n", bytesRead, sizeof(u_CommonHeader));
| ~~^ ~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
libs/gzip.c:41:71: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'unsigned int' [-Wformat=]
41 | fprintf(stderr, "common header has a length of %ld instead of %ld - not good.\n", bytesRead, sizeof(u_CommonHeader));
| ~~^ ~~~~~~~~~~~~~~~~~~~~~~
| | |
| long int unsigned int
| %d
libs/info.c: In function 'timestr_r':
libs/info.c:64:50: warning: '%d' directive writing between 1 and 11 bytes into a region of size between 0 and 12 [-Wformat-overflow=]
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~
libs/info.c:64:21: note: directive argument in the range [-2147481748, 2147483647]
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libs/info.c:64:5: note: 'sprintf' output between 16 and 67 bytes into a destination of size 26
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
65 | wday_name[timeptr->tm_wday], mon_name[timeptr->tm_mon],
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
66 | timeptr->tm_mday, timeptr->tm_hour, timeptr->tm_min,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
67 | timeptr->tm_sec, 1900 + timeptr->tm_year);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libs/info.c: In function 'infomsg':
libs/info.c:64:50: warning: '%d' directive writing between 1 and 11 bytes into a region of size between 0 and 12 [-Wformat-overflow=]
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~
libs/info.c:64:21: note: directive argument in the range [-2147481748, 2147483647]
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libs/info.c:64:5: note: 'sprintf' output between 16 and 67 bytes into a destination of size 26
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
65 | wday_name[timeptr->tm_wday], mon_name[timeptr->tm_mon],
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
66 | timeptr->tm_mday, timeptr->tm_hour, timeptr->tm_min,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
67 | timeptr->tm_sec, 1900 + timeptr->tm_year);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libs/info.c: In function 'nfolevel':
libs/info.c:64:50: warning: '%d' directive writing between 1 and 11 bytes into a region of size between 0 and 12 [-Wformat-overflow=]
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~
libs/info.c:64:21: note: directive argument in the range [-2147481748, 2147483647]
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
libs/info.c:64:5: note: 'sprintf' output between 16 and 67 bytes into a destination of size 26
64 | sprintf(result, "%.3s %.3s%3d %.2d:%.2d:%.2d %d",
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
65 | wday_name[timeptr->tm_wday], mon_name[timeptr->tm_mon],
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
66 | timeptr->tm_mday, timeptr->tm_hour, timeptr->tm_min,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
67 | timeptr->tm_sec, 1900 + timeptr->tm_year);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Building... library for source build/manopt.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/manopt.o libs/manopt.c
Building... library for source build/samio.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/samio.o libs/samio.c
In file included from include/stringutils.h:27,
from libs/merge.c:34:
libs/merge.c: In function 'se_mergeWorker':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/merge.c:1096:20: note: in expansion of macro 'FREEMEMORY'
1096 | if(curkey) FREEMEMORY(NULL, curkey);
| ^~~~~~~~~~
libs/merge.c:1096:9: note: some parts of macro expansion are not guarded by this 'if' clause
1096 | if(curkey) FREEMEMORY(NULL, curkey);
| ^~
In file included from include/stringutils.h:27,
from libs/merge.c:34:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/merge.c:1216:26: note: in expansion of macro 'FREEMEMORY'
1216 | if(!reads && curkey) FREEMEMORY(NULL, curkey);
| ^~~~~~~~~~
libs/merge.c:1216:5: note: some parts of macro expansion are not guarded by this 'if' clause
1216 | if(!reads && curkey) FREEMEMORY(NULL, curkey);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
libs/samio.c: In function 'bl_samDestructTag':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:102:15: note: in expansion of macro 'FREEMEMORY'
102 | if(kv->tag) FREEMEMORY(NULL, kv->tag);
| ^~~~~~~~~~
libs/samio.c:102:3: note: some parts of macro expansion are not guarded by this 'if' clause
102 | if(kv->tag) FREEMEMORY(NULL, kv->tag);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:103:15: note: in expansion of macro 'FREEMEMORY'
103 | if(kv->val) FREEMEMORY(NULL, kv->val);
| ^~~~~~~~~~
libs/samio.c:103:3: note: some parts of macro expansion are not guarded by this 'if' clause
103 | if(kv->val) FREEMEMORY(NULL, kv->val);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:104:16: note: in expansion of macro 'FREEMEMORY'
104 | if(kv->type) FREEMEMORY(NULL, kv->type);
| ^~~~~~~~~~
libs/samio.c:104:3: note: some parts of macro expansion are not guarded by this 'if' clause
104 | if(kv->type) FREEMEMORY(NULL, kv->type);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:105:15: note: in expansion of macro 'FREEMEMORY'
105 | if(kv->key) FREEMEMORY(NULL, kv->key);
| ^~~~~~~~~~
libs/samio.c:105:3: note: some parts of macro expansion are not guarded by this 'if' clause
105 | if(kv->key) FREEMEMORY(NULL, kv->key);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
libs/samio.c: In function 'bl_samDestruct':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:112:21: note: in expansion of macro 'FREEMEMORY'
112 | if(samrec->qname) FREEMEMORY(NULL, samrec->qname);
| ^~~~~~~~~~
libs/samio.c:112:3: note: some parts of macro expansion are not guarded by this 'if' clause
112 | if(samrec->qname) FREEMEMORY(NULL, samrec->qname);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:113:21: note: in expansion of macro 'FREEMEMORY'
113 | if(samrec->rname) FREEMEMORY(NULL, samrec->rname);
| ^~~~~~~~~~
libs/samio.c:113:3: note: some parts of macro expansion are not guarded by this 'if' clause
113 | if(samrec->rname) FREEMEMORY(NULL, samrec->rname);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:114:21: note: in expansion of macro 'FREEMEMORY'
114 | if(samrec->cigar) FREEMEMORY(NULL, samrec->cigar);
| ^~~~~~~~~~
libs/samio.c:114:3: note: some parts of macro expansion are not guarded by this 'if' clause
114 | if(samrec->cigar) FREEMEMORY(NULL, samrec->cigar);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:115:21: note: in expansion of macro 'FREEMEMORY'
115 | if(samrec->rnext) FREEMEMORY(NULL, samrec->rnext);
| ^~~~~~~~~~
libs/samio.c:115:3: note: some parts of macro expansion are not guarded by this 'if' clause
115 | if(samrec->rnext) FREEMEMORY(NULL, samrec->rnext);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:116:21: note: in expansion of macro 'FREEMEMORY'
116 | if(samrec->seq) FREEMEMORY(NULL, samrec->seq);
| ^~~~~~~~~~
libs/samio.c:116:3: note: some parts of macro expansion are not guarded by this 'if' clause
116 | if(samrec->seq) FREEMEMORY(NULL, samrec->seq);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:117:21: note: in expansion of macro 'FREEMEMORY'
117 | if(samrec->qual) FREEMEMORY(NULL, samrec->qual);
| ^~~~~~~~~~
libs/samio.c:117:3: note: some parts of macro expansion are not guarded by this 'if' clause
117 | if(samrec->qual) FREEMEMORY(NULL, samrec->qual);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from libs/samio.c:33:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/samio.c:121:20: note: in expansion of macro 'FREEMEMORY'
121 | if(samrec->tags) FREEMEMORY(NULL, samrec->tags);
| ^~~~~~~~~~
libs/samio.c:121:3: note: some parts of macro expansion are not guarded by this 'if' clause
121 | if(samrec->tags) FREEMEMORY(NULL, samrec->tags);
| ^~
Building... library for source build/memory.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/memory.o libs/memory.c
Building... library for source build/aluruSort.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/aluruSort.o libs/aluruSort.c
libs/samio.c: In function 'bl_samgetNextSplitRefIdx':
libs/samio.c:369:3: warning: '%s' directive argument is null [-Wformat-overflow=]
369 | fprintf(stderr, "ref: '%s'\n", ref);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Building... library for source build/multicharseq.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/multicharseq.o libs/multicharseq.c
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from libs/multicharseq.c:38:
libs/multicharseq.c: In function 'destructMultiCharSeq':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/multicharseq.c:212:7: note: in expansion of macro 'FREEMEMORY'
212 | FREEMEMORY(space, mseq->markpos);
| ^~~~~~~~~~
libs/multicharseq.c:211:2: note: some parts of macro expansion are not guarded by this 'if' clause
211 | if (mseq->markpos != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from libs/multicharseq.c:38:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/multicharseq.c:214:7: note: in expansion of macro 'FREEMEMORY'
214 | FREEMEMORY(space, mseq->map);
| ^~~~~~~~~~
libs/multicharseq.c:213:2: note: some parts of macro expansion are not guarded by this 'if' clause
213 | if (mseq->map != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from libs/multicharseq.c:38:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/multicharseq.c:216:7: note: in expansion of macro 'FREEMEMORY'
216 | FREEMEMORY(space, mseq->ref);
| ^~~~~~~~~~
libs/multicharseq.c:215:5: note: some parts of macro expansion are not guarded by this 'if' clause
215 | if (mseq->ref != NULL)
| ^~
Building... library for source build/portable_endian.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/portable_endian.o libs/portable_endian.c
Building... library for source build/kdseed.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/kdseed.o libs/kdseed.c
Building... library for source build/mappingqual.o
Building... library for source build/brendel.o
Building... library for source build/pigeon.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/mappingqual.o libs/mappingqual.c
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/brendel.o libs/brendel.c
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/pigeon.o libs/pigeon.c
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/segemehl.h:44,
from libs/pigeon.c:35:
libs/pigeon.c: In function 'pigeon':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/pigeon.c:352:13: note: in expansion of macro 'FREEMEMORY'
352 | if(check) FREEMEMORY(space, check);
| ^~~~~~~~~~
libs/pigeon.c:352:3: note: some parts of macro expansion are not guarded by this 'if' clause
352 | if(check) FREEMEMORY(space, check);
| ^~
Building... library for source build/queryalign.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/queryalign.o libs/queryalign.c
Building... library for source build/debug.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/debug.o libs/debug.c
Building... library for source build/gzidx.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/gzidx.o libs/gzidx.c
Building... library for source build/alignment.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/alignment.o libs/alignment.c
Building... library for source build/sufarray.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/sufarray.o libs/sufarray.c
Building... library for source build/filebuffer.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/filebuffer.o libs/filebuffer.c
In file included from include/mathematics.h:117,
from libs/alignment.c:38:
libs/alignment.c: In function 'wrapAlignment':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/alignment.c:97:18: note: in expansion of macro 'FREEMEMORY'
97 | if(al->rmvseq) FREEMEMORY(NULL, al->v);
| ^~~~~~~~~~
libs/alignment.c:97:3: note: some parts of macro expansion are not guarded by this 'if' clause
97 | if(al->rmvseq) FREEMEMORY(NULL, al->v);
| ^~
In file included from include/mathematics.h:117,
from libs/alignment.c:38:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/alignment.c:98:18: note: in expansion of macro 'FREEMEMORY'
98 | if(al->rmuseq) FREEMEMORY(NULL, al->u);
| ^~~~~~~~~~
libs/alignment.c:98:3: note: some parts of macro expansion are not guarded by this 'if' clause
98 | if(al->rmuseq) FREEMEMORY(NULL, al->u);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
libs/sufarray.c: In function 'destructSufArr':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:613:5: note: in expansion of macro 'FREEMEMORY'
613 | FREEMEMORY(space, arr->lcpctab);
| ^~~~~~~~~~
libs/sufarray.c:612:3: note: some parts of macro expansion are not guarded by this 'if' clause
612 | if (arr->lcpctab != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:615:5: note: in expansion of macro 'FREEMEMORY'
615 | FREEMEMORY(space, arr->inv_suftab);
| ^~~~~~~~~~
libs/sufarray.c:614:3: note: some parts of macro expansion are not guarded by this 'if' clause
614 | if (arr->inv_suftab != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:619:5: note: in expansion of macro 'FREEMEMORY'
619 | FREEMEMORY(space, arr->idvtab);
| ^~~~~~~~~~
libs/sufarray.c:618:3: note: some parts of macro expansion are not guarded by this 'if' clause
618 | if (arr->idvtab != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:624:5: note: in expansion of macro 'FREEMEMORY'
624 | FREEMEMORY(space, arr->suflink);
| ^~~~~~~~~~
libs/sufarray.c:620:3: note: some parts of macro expansion are not guarded by this 'if' clause
620 | if (arr->suflink != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:627:5: note: in expansion of macro 'FREEMEMORY'
627 | FREEMEMORY(space, arr->chldtab);
| ^~~~~~~~~~
libs/sufarray.c:626:3: note: some parts of macro expansion are not guarded by this 'if' clause
626 | if (arr->chldtab != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:629:5: note: in expansion of macro 'FREEMEMORY'
629 | FREEMEMORY(space, arr->mdfive);
| ^~~~~~~~~~
libs/sufarray.c:628:3: note: some parts of macro expansion are not guarded by this 'if' clause
628 | if (arr->mdfive)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:631:5: note: in expansion of macro 'FREEMEMORY'
631 | FREEMEMORY(space, arr->llvtab);
| ^~~~~~~~~~
libs/sufarray.c:630:3: note: some parts of macro expansion are not guarded by this 'if' clause
630 | if(arr->llvtab != NULL)
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/sufarray.h:45,
from libs/sufarray.c:39:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/sufarray.c:636:5: note: in expansion of macro 'FREEMEMORY'
636 | FREEMEMORY(space, arr->id);
| ^~~~~~~~~~
libs/sufarray.c:632:3: note: some parts of macro expansion are not guarded by this 'if' clause
632 | if(arr->id != NULL)
| ^~
Building... library for source build/container.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/container.o libs/container.c
Building... library for source build/segemehl_helper.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/segemehl_helper.o libs/segemehl_helper.c
Building... library for source build/charsequence.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/charsequence.o libs/charsequence.c
In file included from libs/charsequence.c:26:
libs/charsequence.c: In function 'destructSequence':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/charsequence.c:467:4: note: in expansion of macro 'FREEMEMORY'
467 | FREEMEMORY(space, sequence->sequence);
| ^~~~~~~~~~
libs/charsequence.c:466:3: note: some parts of macro expansion are not guarded by this 'if' clause
466 | if (sequence->sequence != NULL)
| ^~
In file included from libs/charsequence.c:26:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/charsequence.c:470:5: note: in expansion of macro 'FREEMEMORY'
470 | FREEMEMORY(space, sequence->alphabetname);
| ^~~~~~~~~~
libs/charsequence.c:469:2: note: some parts of macro expansion are not guarded by this 'if' clause
469 | if (sequence->alphabetname != NULL)
| ^~
In file included from libs/charsequence.c:26:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/charsequence.c:472:2: note: in expansion of macro 'FREEMEMORY'
472 | FREEMEMORY(space, sequence->url);
| ^~~~~~~~~~
libs/charsequence.c:471:5: note: some parts of macro expansion are not guarded by this 'if' clause
471 | if (sequence->url != NULL)
| ^~
In file included from libs/charsequence.c:26:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/charsequence.c:474:2: note: in expansion of macro 'FREEMEMORY'
474 | FREEMEMORY(space, sequence->info);
| ^~~~~~~~~~
libs/charsequence.c:473:5: note: some parts of macro expansion are not guarded by this 'if' clause
473 | if (sequence->info != NULL)
| ^~
Building... library for source build/intervaltree.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/intervaltree.o libs/intervaltree.c
Building... library for source build/junctions.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/junctions.o libs/junctions.c
In file included from include/mathematics.h:117,
from libs/intervaltree.c:27:
libs/intervaltree.c: In function 'bl_intervaltreeDestruct':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/intervaltree.c:443:19: note: in expansion of macro 'FREEMEMORY'
443 | if(root->ncoll) FREEMEMORY(NULL, root->collisions);
| ^~~~~~~~~~
libs/intervaltree.c:443:3: note: some parts of macro expansion are not guarded by this 'if' clause
443 | if(root->ncoll) FREEMEMORY(NULL, root->collisions);
| ^~
Building... library for source build/annotation.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/annotation.o libs/annotation.c
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
libs/annotation.c: In function 'bl_annotationitemDestruct':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:149:23: note: in expansion of macro 'FREEMEMORY'
149 | if(item->chromname) FREEMEMORY(space, item->chromname);
| ^~~~~~~~~~
libs/annotation.c:149:3: note: some parts of macro expansion are not guarded by this 'if' clause
149 | if(item->chromname) FREEMEMORY(space, item->chromname);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:150:18: note: in expansion of macro 'FREEMEMORY'
150 | if(item->name) FREEMEMORY(space, item->name);
| ^~~~~~~~~~
libs/annotation.c:150:3: note: some parts of macro expansion are not guarded by this 'if' clause
150 | if(item->name) FREEMEMORY(space, item->name);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:151:21: note: in expansion of macro 'FREEMEMORY'
151 | if(item->itemRgb) FREEMEMORY(space, item->itemRgb);
| ^~~~~~~~~~
libs/annotation.c:151:3: note: some parts of macro expansion are not guarded by this 'if' clause
151 | if(item->itemRgb) FREEMEMORY(space, item->itemRgb);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:152:24: note: in expansion of macro 'FREEMEMORY'
152 | if(item->blockSizes) FREEMEMORY(space, item->blockSizes);
| ^~~~~~~~~~
libs/annotation.c:152:3: note: some parts of macro expansion are not guarded by this 'if' clause
152 | if(item->blockSizes) FREEMEMORY(space, item->blockSizes);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:153:25: note: in expansion of macro 'FREEMEMORY'
153 | if(item->blockStarts) FREEMEMORY(space, item->blockStarts);
| ^~~~~~~~~~
libs/annotation.c:153:3: note: some parts of macro expansion are not guarded by this 'if' clause
153 | if(item->blockStarts) FREEMEMORY(space, item->blockStarts);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:154:26: note: in expansion of macro 'FREEMEMORY'
154 | if(item->blockRefseqs) FREEMEMORY(space, item->blockRefseqs);
| ^~~~~~~~~~
libs/annotation.c:154:3: note: some parts of macro expansion are not guarded by this 'if' clause
154 | if(item->blockRefseqs) FREEMEMORY(space, item->blockRefseqs);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:155:26: note: in expansion of macro 'FREEMEMORY'
155 | if(item->blockStrands) FREEMEMORY(space, item->blockStrands);
| ^~~~~~~~~~
libs/annotation.c:155:3: note: some parts of macro expansion are not guarded by this 'if' clause
155 | if(item->blockStrands) FREEMEMORY(space, item->blockStrands);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:156:20: note: in expansion of macro 'FREEMEMORY'
156 | if(item->source) FREEMEMORY(space, item->source);
| ^~~~~~~~~~
libs/annotation.c:156:3: note: some parts of macro expansion are not guarded by this 'if' clause
156 | if(item->source) FREEMEMORY(space, item->source);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
libs/annotation.c: In function 'bl_annotationtrackDestruct':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:409:24: note: in expansion of macro 'FREEMEMORY'
409 | if(track->trackname) FREEMEMORY(space, track->trackname);
| ^~~~~~~~~~
libs/annotation.c:409:3: note: some parts of macro expansion are not guarded by this 'if' clause
409 | if(track->trackname) FREEMEMORY(space, track->trackname);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:410:23: note: in expansion of macro 'FREEMEMORY'
410 | if(track->filename) FREEMEMORY(space, track->filename);
| ^~~~~~~~~~
libs/annotation.c:410:3: note: some parts of macro expansion are not guarded by this 'if' clause
410 | if(track->filename) FREEMEMORY(space, track->filename);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:411:26: note: in expansion of macro 'FREEMEMORY'
411 | if(track->description) FREEMEMORY(space, track->description);
| ^~~~~~~~~~
libs/annotation.c:411:3: note: some parts of macro expansion are not guarded by this 'if' clause
411 | if(track->description) FREEMEMORY(space, track->description);
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:418:20: note: in expansion of macro 'FREEMEMORY'
418 | if(track->items) FREEMEMORY(space, track->items) ;
| ^~~~~~~~~~
libs/annotation.c:418:3: note: some parts of macro expansion are not guarded by this 'if' clause
418 | if(track->items) FREEMEMORY(space, track->items) ;
| ^~
In file included from include/stringutils.h:27,
from libs/annotation.c:29:
libs/annotation.c: In function 'bl_annotationmultitrackDestruct':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/annotation.c:455:20: note: in expansion of macro 'FREEMEMORY'
455 | if(track->items) FREEMEMORY(space, track->items) ;
| ^~~~~~~~~~
libs/annotation.c:455:3: note: some parts of macro expansion are not guarded by this 'if' clause
455 | if(track->items) FREEMEMORY(space, track->items) ;
| ^~
Building... library for source build/bgzip.o
Building... library for source build/haarz.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/bgzip.o libs/bgzip.c
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/haarz.o libs/haarz.c
Building... library for source build/mathematics.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/mathematics.o libs/mathematics.c
In file included from include/mathematics.h:117,
from libs/mathematics.c:38:
libs/mathematics.c: In function 'destructVector':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/mathematics.c:251:23: note: in expansion of macro 'FREEMEMORY'
251 | if (v->elements) FREEMEMORY(space, v->elements);
| ^~~~~~~~~~
libs/mathematics.c:251:6: note: some parts of macro expansion are not guarded by this 'if' clause
251 | if (v->elements) FREEMEMORY(space, v->elements);
| ^~
Building... library for source build/mapfrag.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/mapfrag.o libs/mapfrag.c
Building... library for source build/fileBins.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/fileBins.o libs/fileBins.c
In file included from libs/fileBins.c:51:
libs/fileBins.c: In function 'bl_fileBinsSortLine':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/fileBins.c:901:18: note: in expansion of macro 'FREEMEMORY'
901 | if(fileSort) FREEMEMORY(space, line);
| ^~~~~~~~~~
libs/fileBins.c:901:5: note: some parts of macro expansion are not guarded by this 'if' clause
901 | if(fileSort) FREEMEMORY(space, line);
| ^~
Building... library for source build/sort.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/sort.o libs/sort.c
Building... library for source build/iupac.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/iupac.o libs/iupac.c
Building... library for source build/bitvectoralg.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/bitvectoralg.o libs/bitvectoralg.c
Building... library for source build/vtprogressbar.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/vtprogressbar.o libs/vtprogressbar.c
Building... library for source build/splitalign.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/splitalign.o libs/splitalign.c
Building... library for source build/nw.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/nw.o libs/nw.c
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
libs/splitalign.c: In function 'bl_fixSplitAlignHoffmann':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1323:25: note: in expansion of macro 'FREEMEMORY'
1323 | if(leftseedno[0]) FREEMEMORY(space, leftseeds[0]);
| ^~~~~~~~~~
libs/splitalign.c:1323:7: note: some parts of macro expansion are not guarded by this 'if' clause
1323 | if(leftseedno[0]) FREEMEMORY(space, leftseeds[0]);
| ^~
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1324:25: note: in expansion of macro 'FREEMEMORY'
1324 | if(leftseedno[1]) FREEMEMORY(space, leftseeds[1]);
| ^~~~~~~~~~
libs/splitalign.c:1324:7: note: some parts of macro expansion are not guarded by this 'if' clause
1324 | if(leftseedno[1]) FREEMEMORY(space, leftseeds[1]);
| ^~
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1325:26: note: in expansion of macro 'FREEMEMORY'
1325 | if(rightseedno[0]) FREEMEMORY(space, rightseeds[0]);
| ^~~~~~~~~~
libs/splitalign.c:1325:7: note: some parts of macro expansion are not guarded by this 'if' clause
1325 | if(rightseedno[0]) FREEMEMORY(space, rightseeds[0]);
| ^~
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1326:26: note: in expansion of macro 'FREEMEMORY'
1326 | if(rightseedno[1]) FREEMEMORY(space, rightseeds[1]);
| ^~~~~~~~~~
libs/splitalign.c:1326:7: note: some parts of macro expansion are not guarded by this 'if' clause
1326 | if(rightseedno[1]) FREEMEMORY(space, rightseeds[1]);
| ^~
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
libs/splitalign.c: In function 'bl_fixSplitAlignBrendel':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1565:27: note: in expansion of macro 'FREEMEMORY'
1565 | if(leftseedno[0]) FREEMEMORY(space, leftseeds[0]);
| ^~~~~~~~~~
libs/splitalign.c:1565:9: note: some parts of macro expansion are not guarded by this 'if' clause
1565 | if(leftseedno[0]) FREEMEMORY(space, leftseeds[0]);
| ^~
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1566:27: note: in expansion of macro 'FREEMEMORY'
1566 | if(leftseedno[1]) FREEMEMORY(space, leftseeds[1]);
| ^~~~~~~~~~
libs/splitalign.c:1566:9: note: some parts of macro expansion are not guarded by this 'if' clause
1566 | if(leftseedno[1]) FREEMEMORY(space, leftseeds[1]);
| ^~
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1567:28: note: in expansion of macro 'FREEMEMORY'
1567 | if(rightseedno[0]) FREEMEMORY(space, rightseeds[0]);
| ^~~~~~~~~~
libs/splitalign.c:1567:9: note: some parts of macro expansion are not guarded by this 'if' clause
1567 | if(rightseedno[0]) FREEMEMORY(space, rightseeds[0]);
| ^~
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/bitvectoralg.h:32,
from include/splitalign.h:29,
from libs/splitalign.c:32:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/splitalign.c:1568:28: note: in expansion of macro 'FREEMEMORY'
1568 | if(rightseedno[1]) FREEMEMORY(space, rightseeds[1]);
| ^~~~~~~~~~
libs/splitalign.c:1568:9: note: some parts of macro expansion are not guarded by this 'if' clause
1568 | if(rightseedno[1]) FREEMEMORY(space, rightseeds[1]);
| ^~
Building... library for source build/vqueue.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/vqueue.o libs/vqueue.c
Building... library for source build/bitArray.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/bitArray.o libs/bitArray.c
Building... library for source build/karlin.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/karlin.o libs/karlin.c
Building... library for source build/locus.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/locus.o libs/locus.c
Building... library for source build/seqclip.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/seqclip.o libs/seqclip.c
In file included from include/stringutils.h:27,
from include/biofiles.h:43,
from include/alignment.h:38,
from include/sw.h:38,
from libs/seqclip.c:44:
libs/seqclip.c: In function 'bl_Find3PrimeGreedy':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/seqclip.c:529:9: note: in expansion of macro 'FREEMEMORY'
529 | FREEMEMORY(space, adapter);
| ^~~~~~~~~~
libs/seqclip.c:528:7: note: some parts of macro expansion are not guarded by this 'if' clause
528 | if(adapter)
| ^~
Building... library for source build/stringutils.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/stringutils.o libs/stringutils.c
In file included from include/stringutils.h:27,
from libs/stringutils.c:39:
libs/stringutils.c: In function 'destructStringset':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/stringutils.c:274:9: note: in expansion of macro 'FREEMEMORY'
274 | FREEMEMORY(space, s->strings[i].str);
| ^~~~~~~~~~
libs/stringutils.c:273:7: note: some parts of macro expansion are not guarded by this 'if' clause
273 | if(s->strings[i].str != NULL)
| ^~
Building... library for source build/matealign.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/matealign.o libs/matealign.c
Building... library for source build/vstack.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/vstack.o libs/vstack.c
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/locus.h:41,
from include/mapfrag.h:39,
from libs/matealign.c:32:
libs/matealign.c: In function 'bl_matealign':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/matealign.c:313:15: note: in expansion of macro 'FREEMEMORY'
313 | if(npos[0]) FREEMEMORY(NULL, spos[0]);
| ^~~~~~~~~~
libs/matealign.c:313:3: note: some parts of macro expansion are not guarded by this 'if' clause
313 | if(npos[0]) FREEMEMORY(NULL, spos[0]);
| ^~
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/locus.h:41,
from include/mapfrag.h:39,
from libs/matealign.c:32:
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/matealign.c:314:15: note: in expansion of macro 'FREEMEMORY'
314 | if(npos[1]) FREEMEMORY(NULL, spos[1]);
| ^~~~~~~~~~
libs/matealign.c:314:3: note: some parts of macro expansion are not guarded by this 'if' clause
314 | if(npos[1]) FREEMEMORY(NULL, spos[1]);
| ^~
Building... library for source build/samheader.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/samheader.o libs/samheader.c
Building... library for source build/md5.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/md5.o libs/md5.c
Building... library for source build/fileio.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/fileio.o libs/fileio.c
Building... library for source build/bedfiles.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/bedfiles.o libs/bedfiles.c
Building... library for source build/biofiles.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/biofiles.o libs/biofiles.c
Building... library for source build/stack.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/stack.o libs/stack.c
Building... library for source build/manout.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/manout.o libs/manout.c
Building... library for source build/kdchain.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/kdchain.o libs/kdchain.c
Building... library for source build/bamio.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/bamio.o libs/bamio.c
Building... library for source build/radixsort.o
cc -g -O2 -fdebug-prefix-map=/build/reproducible-path/segemehl-0.3.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c99 -g -O3 -DSORTEDUNMAPPED -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -DDBGNFO -DSHOWALIGN -DDBGLEVEL=0 -DPROGNFO -Ilibs -Ilibs/sufarray -Isamtools `pkg-config --cflags htslib` -I include -c -o build/radixsort.o libs/radixsort.c
In file included from include/stringutils.h:27,
from include/charsequence.h:43,
from include/multicharseq.h:43,
from include/samio.h:23,
from include/bamio.h:21,
from libs/bamio.c:32:
libs/bamio.c: In function 'bl_bamCrossSectionDestruct':
include/memory.h:32:27: warning: macro expands to multiple statements [-Wmultistatement-macros]
32 | #define FREEMEMORY(X,PTR) free(PTR); PTR=NULL
| ^~~~
libs/bamio.c:468:20: note: in expansion of macro 'FREEMEMORY'
468 | if(cs->x[k].n) FREEMEMORY(NULL, cs->x[k].d);
| ^~~~~~~~~~
libs/bamio.c:468:5: note: some parts of macro expansion are not guarded by this 'if' clause
468 | if(cs->x[k].n) FREEMEMORY(NULL, cs->x[k].d);
| ^~
Linking segemehl
cc build/info.o build/match.o build/sw.o build/merge.o build/bitVector.o build/gzip.o build/manopt.o build/samio.o build/memory.o build/aluruSort.o build/multicharseq.o build/portable_endian.o build/kdseed.o build/mappingqual.o build/brendel.o build/pigeon.o build/queryalign.o build/debug.o build/gzidx.o build/alignment.o build/sufarray.o build/filebuffer.o build/container.o build/segemehl_helper.o build/charsequence.o build/intervaltree.o build/junctions.o build/annotation.o build/bgzip.o build/mathematics.o build/mapfrag.o build/fileBins.o build/sort.o build/iupac.o build/bitvectoralg.o build/vtprogressbar.o build/splitalign.o build/nw.o build/vqueue.o build/bitArray.o build/karlin.o build/locus.o build/seqclip.o build/stringutils.o build/matealign.o build/vstack.o build/samheader.o build/md5.o build/fileio.o build/bedfiles.o build/biofiles.o build/stack.o build/manout.o build/kdchain.o build/bamio.o build/radixsort.o build/segemehl.o -o ./segemehl.x -lm -lpthread -lz -lncurses -L libs -lform -lmenu -L/usr/local/lib/ `pkg-config --libs htslib` -Wl,-z,relro -Wl,-z,now
Linking haarz
cc build/info.o build/match.o build/sw.o build/merge.o build/bitVector.o build/gzip.o build/manopt.o build/samio.o build/memory.o build/aluruSort.o build/multicharseq.o build/portable_endian.o build/kdseed.o build/mappingqual.o build/brendel.o build/pigeon.o build/queryalign.o build/debug.o build/gzidx.o build/alignment.o build/sufarray.o build/filebuffer.o build/container.o build/segemehl_helper.o build/charsequence.o build/intervaltree.o build/junctions.o build/annotation.o build/bgzip.o build/mathematics.o build/mapfrag.o build/fileBins.o build/sort.o build/iupac.o build/bitvectoralg.o build/vtprogressbar.o build/splitalign.o build/nw.o build/vqueue.o build/bitArray.o build/karlin.o build/locus.o build/seqclip.o build/stringutils.o build/matealign.o build/vstack.o build/samheader.o build/md5.o build/fileio.o build/bedfiles.o build/biofiles.o build/stack.o build/manout.o build/kdchain.o build/bamio.o build/radixsort.o build/haarz.o -o ./haarz.x -lm -lpthread -lz -lncurses -L libs -lform -lmenu -L/usr/local/lib/ `pkg-config --libs htslib` -Wl,-z,relro -Wl,-z,now
make[2]: Leaving directory '/build/reproducible-path/segemehl-0.3.4'
make[1]: Leaving directory '/build/reproducible-path/segemehl-0.3.4'
dh_auto_test
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary
dh binary
dh_testroot
dh_prep
dh_auto_install
debian/rules override_dh_install
make[1]: Entering directory '/build/reproducible-path/segemehl-0.3.4'
mv segemehl.x segemehl
mv haarz.x haarz
find . -name "*.x"
dh_install
make[1]: Leaving directory '/build/reproducible-path/segemehl-0.3.4'
dh_installdocs
dh_installchangelogs
dh_installman
dh_perl
dh_link
dh_strip_nondeterminism
dh_compress
dh_fixperms
dh_missing
dh_dwz
dh_strip
dh_makeshlibs
dh_shlibdeps
dh_installdeb
dh_gencontrol
dh_md5sums
dh_builddeb
dpkg-deb: building package 'segemehl' in '../segemehl_0.3.4-3_i386.deb'.
dpkg-deb: building package 'segemehl-dbgsym' in '../segemehl-dbgsym_0.3.4-3_i386.deb'.
dpkg-genbuildinfo --build=binary
dpkg-genchanges --build=binary >../segemehl_0.3.4-3_i386.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: user script /srv/workspace/pbuilder/18159/tmp/hooks/B01_cleanup starting
I: user script /srv/workspace/pbuilder/18159/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/18159 and its subdirectories
I: Current time: Mon Jan 15 07:01:19 +14 2024
I: pbuilder-time-stamp: 1705251679