I: pbuilder: network access will be disabled during build
I: Current time: Fri Jul 29 22:17:23 -12 2022
I: pbuilder-time-stamp: 1659176243
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz]
I: copying local configuration
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: using eatmydata during job
I: Copying source file
I: copying [igor_1.4.0+dfsg-2.dsc]
I: copying [./igor_1.4.0+dfsg.orig.tar.xz]
I: copying [./igor_1.4.0+dfsg-2.debian.tar.xz]
I: Extracting source
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.YMpaX43w/trustedkeys.kbx': General error
gpgv: Signature made Wed Aug 5 04:53:54 2020 -12
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./igor_1.4.0+dfsg-2.dsc
dpkg-source: info: extracting igor in igor-1.4.0+dfsg
dpkg-source: info: unpacking igor_1.4.0+dfsg.orig.tar.xz
dpkg-source: info: unpacking igor_1.4.0+dfsg-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying get_autoreconf_to_work.patch
dpkg-source: info: applying inline_fix.patch
dpkg-source: info: applying fix-gcc-10.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/55146/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='i386'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=18'
DISTRIBUTION=''
HOME='/root'
HOST_ARCH='i386'
IFS='
'
INVOCATION_ID='8f0f360811de4121857d9005c46578bd'
LANG='C'
LANGUAGE='en_US:en'
LC_ALL='C'
LD_LIBRARY_PATH='/usr/lib/libeatmydata'
LD_PRELOAD='libeatmydata.so'
MAIL='/var/mail/root'
OPTIND='1'
PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
PBCURRENTCOMMANDLINEOPERATION='build'
PBUILDER_OPERATION='build'
PBUILDER_PKGDATADIR='/usr/share/pbuilder'
PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
PBUILDER_SYSCONFDIR='/etc'
PPID='55146'
PS1='# '
PS2='> '
PS4='+ '
PWD='/'
SHELL='/bin/bash'
SHLVL='2'
SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.gEi3yYQcpA/pbuilderrc_H8ge --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.gEi3yYQcpA/b1 --logfile b1/build.log igor_1.4.0+dfsg-2.dsc'
SUDO_GID='112'
SUDO_UID='107'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://85.184.249.68:3128'
I: uname -a
Linux ionos6-i386 4.19.0-17-amd64 #1 SMP Debian 4.19.194-1 (2021-06-10) x86_64 GNU/Linux
I: ls -l /bin
total 5776
-rwxr-xr-x 1 root root 1367848 Jun 21 2021 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 Feb 7 2021 dmesg
lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname
lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname
-rwxr-xr-x 1 root root 34664 Sep 22 2020 echo
-rwxr-xr-x 1 root root 28 Nov 9 2020 egrep
-rwxr-xr-x 1 root root 34664 Sep 22 2020 false
-rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep
-rwxr-xr-x 1 root root 71928 Feb 7 2021 findmnt
-rwsr-xr-x 1 root root 30112 Feb 26 2021 fusermount
-rwxr-xr-x 1 root root 210488 Nov 9 2020 grep
-rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip
-rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe
-rwxr-xr-x 1 root root 100952 Mar 2 2021 gzip
-rwxr-xr-x 1 root root 21916 Nov 6 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 Feb 7 2021 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 Feb 7 2021 more
-rwsr-xr-x 1 root root 50720 Feb 7 2021 mount
-rwxr-xr-x 1 root root 13856 Feb 7 2021 mountpoint
-rwxr-xr-x 1 root root 157996 Sep 22 2020 mv
lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname
lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5
-rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd
lrwxrwxrwx 1 root root 4 Jun 21 2021 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 4 Jul 28 03:48 sh -> dash
-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 Feb 7 2021 su
-rwxr-xr-x 1 root root 34696 Sep 22 2020 sync
-rwxr-xr-x 1 root root 602584 Feb 16 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 Feb 7 2021 umount
-rwxr-xr-x 1 root root 34664 Sep 22 2020 uname
-rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress
-rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir
-rwxr-xr-x 1 root root 63024 Feb 7 2021 wdctl
lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname
-rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat
-rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp
-rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff
-rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep
-rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep
-rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce
-rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep
-rwxr-xr-x 1 root root 2206 Mar 2 2021 zless
-rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore
-rwxr-xr-x 1 root root 4553 Mar 2 2021 znew
I: user script /srv/workspace/pbuilder/55146/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 (= 13), libjemalloc-dev, libgsl-dev, libblas-dev | libblas.so
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19675 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on libjemalloc-dev; however:
Package libjemalloc-dev is not installed.
pbuilder-satisfydepends-dummy depends on libgsl-dev; however:
Package libgsl-dev is not installed.
pbuilder-satisfydepends-dummy depends on libblas-dev | libblas.so; however:
Package libblas-dev is not installed.
Package libblas.so 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} libblas-dev{a} libblas3{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libgsl-dev{a} libgsl25{a} libgslcblas0{a} libicu67{a} libjemalloc-dev{a} libjemalloc2{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsigsegv2{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a}
The following packages are RECOMMENDED but will NOT be installed:
curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget
0 packages upgraded, 38 newly installed, 0 to remove and 0 not upgraded.
Need to get 21.7 MB of archives. After unpacking 82.7 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-7 [148 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 [273 kB]
Get: 8 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB]
Get: 9 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 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 1.11.0-1 [25.6 kB]
Get: 23 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.11.0-1 [15.3 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 67.1-6 [8776 kB]
Get: 27 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [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 libblas3 i386 3.9.0-3 [147 kB]
Get: 33 http://deb.debian.org/debian bullseye/main i386 libblas-dev i386 3.9.0-3 [157 kB]
Get: 34 http://deb.debian.org/debian bullseye/main i386 libgslcblas0 i386 2.6+dfsg-2 [99.2 kB]
Get: 35 http://deb.debian.org/debian bullseye/main i386 libgsl25 i386 2.6+dfsg-2 [911 kB]
Get: 36 http://deb.debian.org/debian bullseye/main i386 libgsl-dev i386 2.6+dfsg-2 [1146 kB]
Get: 37 http://deb.debian.org/debian bullseye/main i386 libjemalloc2 i386 5.2.1-3 [252 kB]
Get: 38 http://deb.debian.org/debian bullseye/main i386 libjemalloc-dev i386 5.2.1-3 [388 kB]
Fetched 21.7 MB in 0s (93.0 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package bsdextrautils.
(Reading database ...
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19675 files and directories currently installed.)
Preparing to unpack .../00-bsdextrautils_2.36.1-7_i386.deb ...
Unpacking bsdextrautils (2.36.1-7) ...
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_i386.deb ...
Unpacking libmagic-mgc (1:5.39-3) ...
Selecting previously unselected package libmagic1:i386.
Preparing to unpack .../07-libmagic1_1%3a5.39-3_i386.deb ...
Unpacking libmagic1:i386 (1:5.39-3) ...
Selecting previously unselected package file.
Preparing to unpack .../08-file_1%3a5.39-3_i386.deb ...
Unpacking file (1:5.39-3) ...
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.
Preparing to unpack .../14-automake_1%3a1.16.3-2_all.deb ...
Unpacking automake (1:1.16.3-2) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../15-autopoint_0.21-4_all.deb ...
Unpacking autopoint (0.21-4) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../16-libdebhelper-perl_13.3.4_all.deb ...
Unpacking libdebhelper-perl (13.3.4) ...
Selecting previously unselected package libtool.
Preparing to unpack .../17-libtool_2.4.6-15_all.deb ...
Unpacking libtool (2.4.6-15) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../18-dh-autoreconf_20_all.deb ...
Unpacking dh-autoreconf (20) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../19-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../20-libsub-override-perl_0.09-2_all.deb ...
Unpacking libsub-override-perl (0.09-2) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.11.0-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.11.0-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../22-dh-strip-nondeterminism_1.11.0-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.11.0-1) ...
Selecting previously unselected package libelf1:i386.
Preparing to unpack .../23-libelf1_0.183-1_i386.deb ...
Unpacking libelf1:i386 (0.183-1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../24-dwz_0.13+20210201-1_i386.deb ...
Unpacking dwz (0.13+20210201-1) ...
Selecting previously unselected package libicu67:i386.
Preparing to unpack .../25-libicu67_67.1-6_i386.deb ...
Unpacking libicu67:i386 (67.1-6) ...
Selecting previously unselected package libxml2:i386.
Preparing to unpack .../26-libxml2_2.9.10+dfsg-6.7_i386.deb ...
Unpacking libxml2:i386 (2.9.10+dfsg-6.7) ...
Selecting previously unselected package gettext.
Preparing to unpack .../27-gettext_0.21-4_i386.deb ...
Unpacking gettext (0.21-4) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../28-intltool-debian_0.35.0+20060710.5_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.5) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../29-po-debconf_1.0.21+nmu1_all.deb ...
Unpacking po-debconf (1.0.21+nmu1) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../30-debhelper_13.3.4_all.deb ...
Unpacking debhelper (13.3.4) ...
Selecting previously unselected package libblas3:i386.
Preparing to unpack .../31-libblas3_3.9.0-3_i386.deb ...
Unpacking libblas3:i386 (3.9.0-3) ...
Selecting previously unselected package libblas-dev:i386.
Preparing to unpack .../32-libblas-dev_3.9.0-3_i386.deb ...
Unpacking libblas-dev:i386 (3.9.0-3) ...
Selecting previously unselected package libgslcblas0:i386.
Preparing to unpack .../33-libgslcblas0_2.6+dfsg-2_i386.deb ...
Unpacking libgslcblas0:i386 (2.6+dfsg-2) ...
Selecting previously unselected package libgsl25:i386.
Preparing to unpack .../34-libgsl25_2.6+dfsg-2_i386.deb ...
Unpacking libgsl25:i386 (2.6+dfsg-2) ...
Selecting previously unselected package libgsl-dev.
Preparing to unpack .../35-libgsl-dev_2.6+dfsg-2_i386.deb ...
Unpacking libgsl-dev (2.6+dfsg-2) ...
Selecting previously unselected package libjemalloc2:i386.
Preparing to unpack .../36-libjemalloc2_5.2.1-3_i386.deb ...
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I: Building the package
I: Running cd /build/igor-1.4.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b
dpkg-buildpackage: info: source package igor
dpkg-buildpackage: info: source version 1.4.0+dfsg-2
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture i386
debian/rules clean
dh clean
debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/igor-1.4.0+dfsg'
dh_auto_clean
rm -rf docs/latex
rm -rf docs/html
rm -rf config.guess config.sub
make[1]: Leaving directory '/build/igor-1.4.0+dfsg'
dh_clean
debian/rules binary
dh binary
dh_update_autotools_config
dh_autoreconf
libtoolize: putting auxiliary files in '.'.
libtoolize: copying file './ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'.
libtoolize: copying file 'm4/libtool.m4'
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libtoolize: copying file 'm4/lt~obsolete.m4'
configure.ac:14: installing './compile'
configure.ac:14: installing './config.guess'
configure.ac:14: installing './config.sub'
configure.ac:7: installing './install-sh'
configure.ac:7: installing './missing'
igor_src/Makefile.am: installing './depcomp'
dh_auto_configure
./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking
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configure: creating ./config.status
config.status: creating Makefile
config.status: creating igor_src/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
=== configuring in igor_src (/build/igor-1.4.0+dfsg/igor_src)
configure: WARNING: no configuration information is in igor_src
dh_auto_build
make -j18
make[1]: Entering directory '/build/igor-1.4.0+dfsg'
make all-recursive
make[2]: Entering directory '/build/igor-1.4.0+dfsg'
Making all in igor_src
make[3]: Entering directory '/build/igor-1.4.0+dfsg/igor_src'
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Aligner.o `test -f 'Aligner.cpp' || echo './'`Aligner.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Bestscenarioscounter.o `test -f 'Bestscenarioscounter.cpp' || echo './'`Bestscenarioscounter.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-CDR3SeqData.o `test -f 'CDR3SeqData.cpp' || echo './'`CDR3SeqData.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Counter.o `test -f 'Counter.cpp' || echo './'`Counter.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Coverageerrcounter.o `test -f 'Coverageerrcounter.cpp' || echo './'`Coverageerrcounter.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Deletion.o `test -f 'Deletion.cpp' || echo './'`Deletion.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Dinuclmarkov.o `test -f 'Dinuclmarkov.cpp' || echo './'`Dinuclmarkov.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Errorscounter.o `test -f 'Errorscounter.cpp' || echo './'`Errorscounter.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Errorrate.o `test -f 'Errorrate.cpp' || echo './'`Errorrate.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-ExtractFeatures.o `test -f 'ExtractFeatures.cpp' || echo './'`ExtractFeatures.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Genechoice.o `test -f 'Genechoice.cpp' || echo './'`Genechoice.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-GenModel.o `test -f 'GenModel.cpp' || echo './'`GenModel.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-HypermutationfullNmererrorrate.o `test -f 'HypermutationfullNmererrorrate.cpp' || echo './'`HypermutationfullNmererrorrate.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Hypermutationglobalerrorrate.o `test -f 'Hypermutationglobalerrorrate.cpp' || echo './'`Hypermutationglobalerrorrate.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Insertion.o `test -f 'Insertion.cpp' || echo './'`Insertion.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-IntStr.o `test -f 'IntStr.cpp' || echo './'`IntStr.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Model_marginals.o `test -f 'Model_marginals.cpp' || echo './'`Model_marginals.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Model_Parms.o `test -f 'Model_Parms.cpp' || echo './'`Model_Parms.cpp
Deletion.cpp:1590:23: warning: multi-character character constant [-Wmultichar]
1590 | else if ((*iter)=='14'){
| ^~~~
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Pgencounter.o `test -f 'Pgencounter.cpp' || echo './'`Pgencounter.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Rec_Event.o `test -f 'Rec_Event.cpp' || echo './'`Rec_Event.cpp
Dinuclmarkov.cpp: In member function 'virtual void Dinucl_markov::iterate(double&, Downstream_scenario_proba_bound_map&, const string&, const Int_Str&, Index_map&, const std::unordered_map<std::__cxx11::basic_string<char>, std::vector<std::pair<std::shared_ptr<const Rec_Event>, int> > >&, std::shared_ptr<Rec_Event*>&, Marginal_array_p&, const Marginal_array_p&, const std::unordered_map<Gene_class, std::vector<Alignment_data> >&, Seq_type_str_p_map&, Seq_offsets_map&, std::shared_ptr<Error_rate>&, std::map<unsigned int, std::shared_ptr<Counter> >&, const std::unordered_map<std::tuple<Event_type, Gene_class, Seq_side>, std::shared_ptr<Rec_Event> >&, Safety_bool_map&, Mismatch_vectors_map&, double&, double&)':
Dinuclmarkov.cpp:147:81: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
147 | throw invalid_argument("Unknown gene class for DincuclMarkov model: " + this->event_class);
| ^~~~~~~~~~~
Dinuclmarkov.cpp:147:81: note: candidate 1: 'operator+(const char*, int)' (built-in)
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Dinuclmarkov.h:32,
from Dinuclmarkov.cpp:26:
Utils.h:68:13: note: candidate 2: 'std::string operator+(const string&, Gene_class)'
68 | std::string operator+(const std::string& , Gene_class );
| ^~~~~~~~
Dinuclmarkov.cpp: In member function 'virtual std::queue<int> Dinucl_markov::draw_random_realization(const Marginal_array_p&, std::unordered_map<std::__cxx11::basic_string<char>, int>&, const std::unordered_map<std::__cxx11::basic_string<char>, std::vector<std::pair<std::shared_ptr<const Rec_Event>, int> > >&, std::unordered_map<Seq_type, std::__cxx11::basic_string<char> >&, std::mt19937_64&) const':
Dinuclmarkov.cpp:211:81: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
211 | throw invalid_argument("Unknown gene class for DincuclMarkov model: " + this->event_class);
| ^~~~~~~~~~~
Dinuclmarkov.cpp:211:81: note: candidate 1: 'operator+(const char*, int)' (built-in)
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Dinuclmarkov.h:32,
from Dinuclmarkov.cpp:26:
Utils.h:68:13: note: candidate 2: 'std::string operator+(const string&, Gene_class)'
68 | std::string operator+(const std::string& , Gene_class );
| ^~~~~~~~
Genechoice.cpp: In member function 'virtual void Gene_choice::iterate(double&, Downstream_scenario_proba_bound_map&, const string&, const Int_Str&, Index_map&, const std::unordered_map<std::__cxx11::basic_string<char>, std::vector<std::pair<std::shared_ptr<const Rec_Event>, int> > >&, std::shared_ptr<Rec_Event*>&, Marginal_array_p&, const Marginal_array_p&, const std::unordered_map<Gene_class, std::vector<Alignment_data> >&, Seq_type_str_p_map&, Seq_offsets_map&, std::shared_ptr<Error_rate>&, std::map<unsigned int, std::shared_ptr<Counter> >&, const std::unordered_map<std::tuple<Event_type, Gene_class, Seq_side>, std::shared_ptr<Rec_Event> >&, Safety_bool_map&, Mismatch_vectors_map&, double&, double&)':
Genechoice.cpp:908:73: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
908 | throw invalid_argument("Unknown gene_class for GeneChoice: " + this->event_class);
| ^~~~~~~~~~~
Genechoice.cpp:908:73: note: candidate 1: 'operator+(const char*, int)' (built-in)
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Genechoice.h:29,
from Genechoice.cpp:26:
Utils.h:68:13: note: candidate 2: 'std::string operator+(const string&, Gene_class)'
68 | std::string operator+(const std::string& , Gene_class );
| ^~~~~~~~
Dinuclmarkov.cpp: In member function 'virtual void Dinucl_markov::iterate_initialize_Len_proba(Seq_type, std::map<int, double>&, std::queue<std::shared_ptr<Rec_Event> >&, double&, const Marginal_array_p&, Index_map&, Seq_type_str_p_map&, int&) const':
Dinuclmarkov.cpp:565:81: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
565 | throw invalid_argument("Unknown gene class for DincuclMarkov model: " + this->event_class);
| ^~~~~~~~~~~
Dinuclmarkov.cpp:565:81: note: candidate 1: 'operator+(const char*, int)' (built-in)
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Dinuclmarkov.h:32,
from Dinuclmarkov.cpp:26:
Utils.h:68:13: note: candidate 2: 'std::string operator+(const string&, Gene_class)'
68 | std::string operator+(const std::string& , Gene_class );
| ^~~~~~~~
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Singleerrorrate.o `test -f 'Singleerrorrate.cpp' || echo './'`Singleerrorrate.cpp
Deletion.cpp: In member function 'virtual void Deletion::iterate(double&, Downstream_scenario_proba_bound_map&, const string&, const Int_Str&, Index_map&, const std::unordered_map<std::__cxx11::basic_string<char>, std::vector<std::pair<std::shared_ptr<const Rec_Event>, int> > >&, std::shared_ptr<Rec_Event*>&, Marginal_array_p&, const Marginal_array_p&, const std::unordered_map<Gene_class, std::vector<Alignment_data> >&, Seq_type_str_p_map&, Seq_offsets_map&, std::shared_ptr<Error_rate>&, std::map<unsigned int, std::shared_ptr<Counter> >&, const std::unordered_map<std::tuple<Event_type, Gene_class, Seq_side>, std::shared_ptr<Rec_Event> >&, Safety_bool_map&, Mismatch_vectors_map&, double&, double&)':
Deletion.cpp:909:70: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
909 | throw invalid_argument("Unknown side for D deletion: " + (*this).event_side); //TODO explicitly throw the side used
| ^~~~~~~~~~
Deletion.cpp:909:70: note: candidate 1: 'operator+(const char*, int)' (built-in)
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Deletion.h:29,
from Deletion.cpp:26:
Utils.h:69:13: note: candidate 2: 'std::string operator+(const string&, Seq_side)'
69 | std::string operator+(const std::string& , Seq_side );
| ^~~~~~~~
Deletion.cpp:1173:67: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
1173 | throw invalid_argument("Unknown gene for deletions : " + this->event_class);
| ^~~~~~~~~~~
Deletion.cpp:1173:67: note: candidate 1: 'operator+(const char*, int)' (built-in)
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Deletion.h:29,
from Deletion.cpp:26:
Utils.h:68:13: note: candidate 2: 'std::string operator+(const string&, Gene_class)'
68 | std::string operator+(const std::string& , Gene_class );
| ^~~~~~~~
Insertion.cpp: In member function 'virtual void Insertion::iterate(double&, Downstream_scenario_proba_bound_map&, const string&, const Int_Str&, Index_map&, const std::unordered_map<std::__cxx11::basic_string<char>, std::vector<std::pair<std::shared_ptr<const Rec_Event>, int> > >&, std::shared_ptr<Rec_Event*>&, Marginal_array_p&, const Marginal_array_p&, const std::unordered_map<Gene_class, std::vector<Alignment_data> >&, Seq_type_str_p_map&, Seq_offsets_map&, std::shared_ptr<Error_rate>&, std::map<unsigned int, std::shared_ptr<Counter> >&, const std::unordered_map<std::tuple<Event_type, Gene_class, Seq_side>, std::shared_ptr<Rec_Event> >&, Safety_bool_map&, Mismatch_vectors_map&, double&, double&)':
Insertion.cpp:244:72: warning: ISO C++ says that these are ambiguous, even though the worst conversion for the first is better than the worst conversion for the second:
244 | throw invalid_argument("Unknown gene_class for Insertion: " + this->event_class);
| ^~~~~~~~~~~
Insertion.cpp:244:72: note: candidate 1: 'operator+(const char*, int)' (built-in)
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Insertion.h:30,
from Insertion.cpp:27:
Utils.h:68:13: note: candidate 2: 'std::string operator+(const string&, Gene_class)'
68 | std::string operator+(const std::string& , Gene_class );
| ^~~~~~~~
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Dinuclmarkov.h:32,
from Dinuclmarkov.cpp:26:
Utils.h: In member function 'Matrix<T>& Matrix<T>::operator=(const Matrix<T>&) [with T = double]':
Utils.h:142:2: warning: control reaches end of non-void function [-Wreturn-type]
142 | }
| ^
In file included from Errorrate.h:29,
from Hypermutationglobalerrorrate.h:30,
from Hypermutationglobalerrorrate.cpp:27:
Utils.h: In member function 'Matrix<T>& Matrix<T>::operator=(const Matrix<T>&) [with T = double]':
Utils.h:142:2: warning: control reaches end of non-void function [-Wreturn-type]
142 | }
| ^
In file included from Errorrate.h:29,
from HypermutationfullNmererrorrate.h:30,
from HypermutationfullNmererrorrate.cpp:27:
Utils.h: In member function 'Matrix<T>& Matrix<T>::operator=(const Matrix<T>&) [with T = double]':
Utils.h:142:2: warning: control reaches end of non-void function [-Wreturn-type]
142 | }
| ^
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-Utils.o `test -f 'Utils.cpp' || echo './'`Utils.cpp
Deletion.cpp: In member function 'virtual bool Deletion::has_effect_on(Seq_type) const':
Deletion.cpp:1705:2: warning: control reaches end of non-void function [-Wreturn-type]
1705 | }
| ^
g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o igor-main.o `test -f 'main.cpp' || echo './'`main.cpp
In file included from Errorrate.h:29,
from Singleerrorrate.h:30,
from Singleerrorrate.cpp:27:
Utils.h: In member function 'Matrix<T>& Matrix<T>::operator=(const Matrix<T>&) [with T = double]':
Utils.h:142:2: warning: control reaches end of non-void function [-Wreturn-type]
142 | }
| ^
main.cpp: In function 'int main(int, char**)':
main.cpp:257:10: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
257 | system(&("man igor")[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~
main.cpp:289:11: warning: ignoring return value of 'FILE* freopen(const char*, const char*, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
289 | freopen(argv[++carg_i],"a+",stdout);
| ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
main.cpp:1565:9: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
1565 | system(&("mkdir " + cl_path )[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
main.cpp:1716:9: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
1716 | system(&("mkdir " + cl_path + "run_demo")[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
main.cpp:1750:10: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
1750 | system(&("mkdir " + cl_path + "aligns")[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
main.cpp:2058:10: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
2058 | system(&("mkdir " + cl_path + batchname + "output")[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
main.cpp:2062:11: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
2062 | system(&("mkdir " + cl_path + batchname + "inference")[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
main.cpp:2068:11: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
2068 | system(&("mkdir " + cl_path + batchname + "evaluate")[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
main.cpp:2078:10: warning: ignoring return value of 'int system(const char*)' declared with attribute 'warn_unused_result' [-Wunused-result]
2078 | system(&("mkdir " + cl_path + batchname + "generated")[0]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from Errorrate.h:29,
from Rec_Event.h:38,
from Deletion.h:29,
from main.cpp:28:
Utils.h: In member function 'Matrix<T>& Matrix<T>::operator=(const Matrix<T>&) [with T = double]':
Utils.h:142:2: warning: control reaches end of non-void function [-Wreturn-type]
142 | }
| ^
/bin/bash ../libtool --tag=CXX --mode=link g++ -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o igor igor-Aligner.o igor-Bestscenarioscounter.o igor-CDR3SeqData.o igor-Counter.o igor-Coverageerrcounter.o igor-Deletion.o igor-Dinuclmarkov.o igor-Errorscounter.o igor-Errorrate.o igor-ExtractFeatures.o igor-Genechoice.o igor-GenModel.o igor-HypermutationfullNmererrorrate.o igor-Hypermutationglobalerrorrate.o igor-Insertion.o igor-IntStr.o igor-Model_marginals.o igor-Model_Parms.o igor-Pgencounter.o igor-Rec_Event.o igor-Singleerrorrate.o igor-Utils.o igor-main.o -lgsl -lblas -ljemalloc -lpthread -ldl
libtool: link: g++ -I/usr/include/jemalloc -I/usr/include/gsl -fopenmp -DIGOR_DATA_DIR=\"/usr/share/igor\" -g -O2 -fdebug-prefix-map=/build/igor-1.4.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o igor igor-Aligner.o igor-Bestscenarioscounter.o igor-CDR3SeqData.o igor-Counter.o igor-Coverageerrcounter.o igor-Deletion.o igor-Dinuclmarkov.o igor-Errorscounter.o igor-Errorrate.o igor-ExtractFeatures.o igor-Genechoice.o igor-GenModel.o igor-HypermutationfullNmererrorrate.o igor-Hypermutationglobalerrorrate.o igor-Insertion.o igor-IntStr.o igor-Model_marginals.o igor-Model_Parms.o igor-Pgencounter.o igor-Rec_Event.o igor-Singleerrorrate.o igor-Utils.o igor-main.o -lgsl -lblas -ljemalloc -lpthread -ldl -fopenmp
make[3]: Leaving directory '/build/igor-1.4.0+dfsg/igor_src'
make[3]: Entering directory '/build/igor-1.4.0+dfsg'
make[3]: Leaving directory '/build/igor-1.4.0+dfsg'
make[2]: Leaving directory '/build/igor-1.4.0+dfsg'
make[1]: Leaving directory '/build/igor-1.4.0+dfsg'
dh_auto_test
make -j18 check VERBOSE=1
make[1]: Entering directory '/build/igor-1.4.0+dfsg'
Making check in igor_src
make[2]: Entering directory '/build/igor-1.4.0+dfsg/igor_src'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/build/igor-1.4.0+dfsg/igor_src'
make[2]: Entering directory '/build/igor-1.4.0+dfsg'
make[2]: Leaving directory '/build/igor-1.4.0+dfsg'
make[1]: Leaving directory '/build/igor-1.4.0+dfsg'
create-stamp debian/debhelper-build-stamp
dh_prep
dh_installdirs
dh_auto_install
make -j1 install DESTDIR=/build/igor-1.4.0\+dfsg/debian/igor AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/build/igor-1.4.0+dfsg'
Making install in igor_src
make[2]: Entering directory '/build/igor-1.4.0+dfsg/igor_src'
make[3]: Entering directory '/build/igor-1.4.0+dfsg/igor_src'
/bin/mkdir -p '/build/igor-1.4.0+dfsg/debian/igor/usr/bin'
/bin/bash ../libtool --mode=install /usr/bin/install -c igor '/build/igor-1.4.0+dfsg/debian/igor/usr/bin'
libtool: install: /usr/bin/install -c igor /build/igor-1.4.0+dfsg/debian/igor/usr/bin/igor
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/build/igor-1.4.0+dfsg/igor_src'
make[2]: Leaving directory '/build/igor-1.4.0+dfsg/igor_src'
make[2]: Entering directory '/build/igor-1.4.0+dfsg'
make[3]: Entering directory '/build/igor-1.4.0+dfsg'
/bin/mkdir -p '/build/igor-1.4.0+dfsg/debian/igor/usr/bin'
/usr/bin/install -c scripts/igor-compute_pgen '/build/igor-1.4.0+dfsg/debian/igor/usr/bin'
mkdir -p /build/igor-1.4.0+dfsg/debian/igor/usr/share/igor/models
cp -r models/* /build/igor-1.4.0+dfsg/debian/igor/usr/share/igor/models
/bin/mkdir -p '/build/igor-1.4.0+dfsg/debian/igor/usr/share/igor/demo'
/usr/bin/install -c -m 644 demo/genomicVs_with_primers.fasta demo/genomicDs.fasta demo/genomicJs_all_curated.fasta demo/murugan_naive1_noncoding_demo_seqs.txt '/build/igor-1.4.0+dfsg/debian/igor/usr/share/igor/demo'
make[3]: Leaving directory '/build/igor-1.4.0+dfsg'
make[2]: Leaving directory '/build/igor-1.4.0+dfsg'
make[1]: Leaving directory '/build/igor-1.4.0+dfsg'
dh_installdocs
dh_installchangelogs
dh_installexamples
debian/rules override_dh_installman
make[1]: Entering directory '/build/igor-1.4.0+dfsg'
mv debian/igor1 debian/igor.1
dh_installman
make[1]: Leaving directory '/build/igor-1.4.0+dfsg'
dh_perl
dh_link
dh_strip_nondeterminism
dh_compress
debian/rules override_dh_fixperms
make[1]: Entering directory '/build/igor-1.4.0+dfsg'
dh_fixperms
find debian -name "*.fasta" -exec chmod -x \{\} \;
make[1]: Leaving directory '/build/igor-1.4.0+dfsg'
dh_missing
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/igor/usr/bin/igor was not linked against libblas.so.3 (it uses none of the library's symbols)
dh_installdeb
dh_gencontrol
dh_md5sums
dh_builddeb
dpkg-deb: building package 'igor' in '../igor_1.4.0+dfsg-2_i386.deb'.
dpkg-deb: building package 'igor-dbgsym' in '../igor-dbgsym_1.4.0+dfsg-2_i386.deb'.
dpkg-genbuildinfo --build=binary
dpkg-genchanges --build=binary >../igor_1.4.0+dfsg-2_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)
I: copying local configuration
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env
I: removing directory /srv/workspace/pbuilder/55146 and its subdirectories
I: Current time: Fri Jul 29 22:18:12 -12 2022
I: pbuilder-time-stamp: 1659176292