I: pbuilder: network access will be disabled during build
I: Current time: Sun Feb 23 09:25:44 -12 2025
I: pbuilder-time-stamp: 1740345944
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: Copying source file
I: copying [crac_2.5.2+dfsg-6.dsc]
I: copying [./crac_2.5.2+dfsg.orig.tar.xz]
I: copying [./crac_2.5.2+dfsg-6.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./crac_2.5.2+dfsg-6.dsc: unsupported subcommand
dpkg-source: info: extracting crac in crac-2.5.2+dfsg
dpkg-source: info: unpacking crac_2.5.2+dfsg.orig.tar.xz
dpkg-source: info: unpacking crac_2.5.2+dfsg-6.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_debian_packaged_libgzstream.patch
dpkg-source: info: applying use_debian_packaged_libjellyfish.patch
dpkg-source: info: applying skip_failed_test_bug-14958.patch
dpkg-source: info: applying use_debian_packages_libgtarrays.patch
dpkg-source: info: applying reproducible_build.patch
dpkg-source: info: applying cross.patch
dpkg-source: info: applying bashism.patch
dpkg-source: info: applying tempfile.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/693290/tmp/hooks/D02_print_environment starting
I: set
BUILDDIR='/build/reproducible-path'
BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
BUILDUSERNAME='pbuilder1'
BUILD_ARCH='arm64'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 '
DISTRIBUTION='unstable'
HOME='/root'
HOST_ARCH='arm64'
IFS='
'
INVOCATION_ID='6dbc852b50f44c3198bce9925c6b35d9'
LANG='C'
LANGUAGE='en_US:en'
LC_ALL='C'
MAIL='/var/mail/root'
OPTIND='1'
PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
PBCURRENTCOMMANDLINEOPERATION='build'
PBUILDER_OPERATION='build'
PBUILDER_PKGDATADIR='/usr/share/pbuilder'
PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
PBUILDER_SYSCONFDIR='/etc'
PPID='693290'
PS1='# '
PS2='> '
PS4='+ '
PWD='/'
SHELL='/bin/bash'
SHLVL='2'
SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.dBwWjqvo/pbuilderrc_aZRo --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.dBwWjqvo/b1 --logfile b1/build.log crac_2.5.2+dfsg-6.dsc'
SUDO_GID='109'
SUDO_UID='104'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://192.168.101.4:3128'
I: uname -a
Linux codethink04-arm64 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/693290/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: arm64
Maintainer: Debian Pbuilder Team <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), architecture-is-64-bit, zlib1g-dev, libhts-dev, libjellyfish-2.0-dev, libgzstream-dev, libgkarrays-dev, pkg-config, rsync
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19889 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 architecture-is-64-bit; however:
Package architecture-is-64-bit is not installed.
pbuilder-satisfydepends-dummy depends on zlib1g-dev; however:
Package zlib1g-dev is not installed.
pbuilder-satisfydepends-dummy depends on libhts-dev; however:
Package libhts-dev is not installed.
pbuilder-satisfydepends-dummy depends on libjellyfish-2.0-dev; however:
Package libjellyfish-2.0-dev is not installed.
pbuilder-satisfydepends-dummy depends on libgzstream-dev; however:
Package libgzstream-dev is not installed.
pbuilder-satisfydepends-dummy depends on libgkarrays-dev; however:
Package libgkarrays-dev is not installed.
pbuilder-satisfydepends-dummy depends on pkg-config; however:
Package pkg-config is not installed.
pbuilder-satisfydepends-dummy depends on rsync; however:
Package rsync 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:
architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} comerr-dev{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} krb5-multidev{a} libarchive-zip-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1t64{a} libevent-2.1-7t64{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgkarrays-dev{a} libgkarrays1t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgzstream-dev{a} libgzstream0{a} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libjellyfish-2.0-2{a} libjellyfish-2.0-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libldap-dev{a} libldap2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpipeline1{a} libpkgconf3{a} libpopt0{a} libpsl-dev{a} libpsl5t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libtasn1-6{a} libtasn1-6-dev{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} rsync{a} sensible-utils{a} zlib1g-dev{a}
The following packages are RECOMMENDED but will NOT be installed:
bzip2-doc ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libtasn1-doc lynx publicsuffix wget
0 packages upgraded, 103 newly installed, 0 to remove and 0 not upgraded.
Need to get 40.3 MB of archives. After unpacking 152 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main arm64 libpopt0 arm64 1.19+dfsg-2 [42.8 kB]
Get: 2 http://deb.debian.org/debian unstable/main arm64 rsync arm64 3.3.0+ds1-4 [408 kB]
Get: 3 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB]
Get: 4 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB]
Get: 5 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB]
Get: 6 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB]
Get: 7 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-1 [241 kB]
Get: 8 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB]
Get: 9 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-7 [1129 kB]
Get: 10 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.4-4 [92.1 kB]
Get: 11 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB]
Get: 12 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB]
Get: 13 http://deb.debian.org/debian unstable/main arm64 architecture-properties arm64 0.2.5 [2272 B]
Get: 14 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-5 [284 kB]
Get: 15 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB]
Get: 16 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB]
Get: 17 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-3 [862 kB]
Get: 18 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB]
Get: 19 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-1 [23.9 kB]
Get: 20 http://deb.debian.org/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.2-1 [55.9 kB]
Get: 21 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 22 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-3 [539 kB]
Get: 23 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB]
Get: 24 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 25 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 26 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 27 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB]
Get: 28 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB]
Get: 29 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-1 [449 kB]
Get: 30 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-6 [9239 kB]
Get: 31 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB]
Get: 32 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB]
Get: 33 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 34 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 35 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.1 [920 kB]
Get: 36 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-4 [32.2 kB]
Get: 37 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-4 [81.5 kB]
Get: 38 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B]
Get: 39 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-4 [308 kB]
Get: 40 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-4 [127 kB]
Get: 41 http://deb.debian.org/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-4 [56.9 kB]
Get: 42 http://deb.debian.org/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-4 [41.0 kB]
Get: 43 http://deb.debian.org/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-4 [41.0 kB]
Get: 44 http://deb.debian.org/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-4 [53.1 kB]
Get: 45 http://deb.debian.org/debian unstable/main arm64 krb5-multidev arm64 1.21.3-4 [126 kB]
Get: 46 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB]
Get: 47 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b6 [308 kB]
Get: 48 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB]
Get: 49 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.7-2+b1 [127 kB]
Get: 50 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.7-1 [21.2 kB]
Get: 51 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB]
Get: 52 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB]
Get: 53 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.9-2 [1374 kB]
Get: 54 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8+b1 [20.3 kB]
Get: 55 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8+b1 [55.7 kB]
Get: 56 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.9+dfsg-1 [179 kB]
Get: 57 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB]
Get: 58 http://deb.debian.org/debian unstable/main arm64 libnghttp3-9 arm64 1.6.0-2 [60.5 kB]
Get: 59 http://deb.debian.org/debian unstable/main arm64 libngtcp2-16 arm64 1.9.1-1 [109 kB]
Get: 60 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-gnutls8 arm64 1.9.1-1 [17.3 kB]
Get: 61 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB]
Get: 62 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB]
Get: 63 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB]
Get: 64 http://deb.debian.org/debian unstable/main arm64 libcurl3t64-gnutls arm64 8.12.1-2 [336 kB]
Get: 65 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB]
Get: 66 http://deb.debian.org/debian unstable/main arm64 libunbound8 arm64 1.22.0-1+b1 [553 kB]
Get: 67 http://deb.debian.org/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.9-2 [452 kB]
Get: 68 http://deb.debian.org/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.9-2 [452 kB]
Get: 69 http://deb.debian.org/debian unstable/main arm64 libidn2-dev arm64 2.3.7-2+b1 [122 kB]
Get: 70 http://deb.debian.org/debian unstable/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB]
Get: 71 http://deb.debian.org/debian unstable/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB]
Get: 72 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB]
Get: 73 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB]
Get: 74 http://deb.debian.org/debian unstable/main arm64 nettle-dev arm64 3.10.1-1 [1325 kB]
Get: 75 http://deb.debian.org/debian unstable/main arm64 libgnutls28-dev arm64 3.8.9-2 [1419 kB]
Get: 76 http://deb.debian.org/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-4 [15.9 kB]
Get: 77 http://deb.debian.org/debian unstable/main arm64 libldap-dev arm64 2.6.9+dfsg-1 [305 kB]
Get: 78 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB]
Get: 79 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB]
Get: 80 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB]
Get: 81 http://deb.debian.org/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1 [112 kB]
Get: 82 http://deb.debian.org/debian unstable/main arm64 libnghttp3-dev arm64 1.6.0-2 [86.5 kB]
Get: 83 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-gnutls-dev arm64 1.9.1-1 [23.0 kB]
Get: 84 http://deb.debian.org/debian unstable/main arm64 libngtcp2-dev arm64 1.9.1-1 [162 kB]
Get: 85 http://deb.debian.org/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB]
Get: 86 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB]
Get: 87 http://deb.debian.org/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB]
Get: 88 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.4.1-1 [3232 kB]
Get: 89 http://deb.debian.org/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB]
Get: 90 http://deb.debian.org/debian unstable/main arm64 libzstd-dev arm64 1.5.6+dfsg-2 [329 kB]
Get: 91 http://deb.debian.org/debian unstable/main arm64 libcurl4-gnutls-dev arm64 8.12.1-2 [465 kB]
Get: 92 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-1+b1 [42.5 kB]
Get: 93 http://deb.debian.org/debian unstable/main arm64 libdeflate-dev arm64 1.23-1+b1 [51.4 kB]
Get: 94 http://deb.debian.org/debian unstable/main arm64 libgkarrays1t64 arm64 2.1.0+dfsg-4.2+b1 [54.4 kB]
Get: 95 http://deb.debian.org/debian unstable/main arm64 libgkarrays-dev arm64 2.1.0+dfsg-4.2+b1 [83.3 kB]
Get: 96 http://deb.debian.org/debian unstable/main arm64 libgzstream0 arm64 1.5+git20171107.9a20658-3 [7128 B]
Get: 97 http://deb.debian.org/debian unstable/main arm64 libgzstream-dev arm64 1.5+git20171107.9a20658-3 [7452 B]
Get: 98 http://deb.debian.org/debian unstable/main arm64 libhtscodecs2 arm64 1.6.1-2 [74.7 kB]
Get: 99 http://deb.debian.org/debian unstable/main arm64 libhts3t64 arm64 1.21+ds-1 [426 kB]
Get: 100 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.6.3-1+b1 [312 kB]
Get: 101 http://deb.debian.org/debian unstable/main arm64 libhts-dev arm64 1.21+ds-1 [1658 kB]
Get: 102 http://deb.debian.org/debian unstable/main arm64 libjellyfish-2.0-2 arm64 2.3.1-4 [61.6 kB]
Get: 103 http://deb.debian.org/debian unstable/main arm64 libjellyfish-2.0-dev arm64 2.3.1-4 [135 kB]
Fetched 40.3 MB in 0s (111 MB/s)
Preconfiguring packages ...
Selecting previously unselected package libpopt0:arm64.
(Reading database ...
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19889 files and directories currently installed.)
Preparing to unpack .../000-libpopt0_1.19+dfsg-2_arm64.deb ...
Unpacking libpopt0:arm64 (1.19+dfsg-2) ...
Selecting previously unselected package rsync.
Preparing to unpack .../001-rsync_3.3.0+ds1-4_arm64.deb ...
Unpacking rsync (3.3.0+ds1-4) ...
Selecting previously unselected package sensible-utils.
Preparing to unpack .../002-sensible-utils_0.0.24_all.deb ...
Unpacking sensible-utils (0.0.24) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../003-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ...
Unpacking libmagic-mgc (1:5.45-3+b1) ...
Selecting previously unselected package libmagic1t64:arm64.
Preparing to unpack .../004-libmagic1t64_1%3a5.45-3+b1_arm64.deb ...
Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ...
Selecting previously unselected package file.
Preparing to unpack .../005-file_1%3a5.45-3+b1_arm64.deb ...
Unpacking file (1:5.45-3+b1) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../006-gettext-base_0.23.1-1_arm64.deb ...
Unpacking gettext-base (0.23.1-1) ...
Selecting previously unselected package libuchardet0:arm64.
Preparing to unpack .../007-libuchardet0_0.0.8-1+b2_arm64.deb ...
Unpacking libuchardet0:arm64 (0.0.8-1+b2) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../008-groff-base_1.23.0-7_arm64.deb ...
Unpacking groff-base (1.23.0-7) ...
Selecting previously unselected package bsdextrautils.
Preparing to unpack .../009-bsdextrautils_2.40.4-4_arm64.deb ...
Unpacking bsdextrautils (2.40.4-4) ...
Selecting previously unselected package libpipeline1:arm64.
Preparing to unpack .../010-libpipeline1_1.5.8-1_arm64.deb ...
Unpacking libpipeline1:arm64 (1.5.8-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../011-man-db_2.13.0-1_arm64.deb ...
Unpacking man-db (2.13.0-1) ...
Selecting previously unselected package architecture-properties:arm64.
Preparing to unpack .../012-architecture-properties_0.2.5_arm64.deb ...
Unpacking architecture-properties:arm64 (0.2.5) ...
Selecting previously unselected package m4.
Preparing to unpack .../013-m4_1.4.19-5_arm64.deb ...
Unpacking m4 (1.4.19-5) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../014-autoconf_2.72-3_all.deb ...
Unpacking autoconf (2.72-3) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../015-autotools-dev_20220109.1_all.deb ...
Unpacking autotools-dev (20220109.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../016-automake_1%3a1.17-3_all.deb ...
Unpacking automake (1:1.17-3) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../017-autopoint_0.23.1-1_all.deb ...
Unpacking autopoint (0.23.1-1) ...
Selecting previously unselected package libcom-err2:arm64.
Preparing to unpack .../018-libcom-err2_1.47.2-1_arm64.deb ...
Unpacking libcom-err2:arm64 (1.47.2-1) ...
Selecting previously unselected package comerr-dev:arm64.
Preparing to unpack .../019-comerr-dev_2.1-1.47.2-1_arm64.deb ...
Unpacking comerr-dev:arm64 (2.1-1.47.2-1) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../020-libdebhelper-perl_13.24.1_all.deb ...
Unpacking libdebhelper-perl (13.24.1) ...
Selecting previously unselected package libtool.
Preparing to unpack .../021-libtool_2.5.4-3_all.deb ...
Unpacking libtool (2.5.4-3) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../022-dh-autoreconf_20_all.deb ...
Unpacking dh-autoreconf (20) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../023-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../024-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../025-dh-strip-nondeterminism_1.14.1-2_all.deb ...
Unpacking dh-strip-nondeterminism (1.14.1-2) ...
Selecting previously unselected package libelf1t64:arm64.
Preparing to unpack .../026-libelf1t64_0.192-4_arm64.deb ...
Unpacking libelf1t64:arm64 (0.192-4) ...
Selecting previously unselected package dwz.
Preparing to unpack .../027-dwz_0.15-1+b1_arm64.deb ...
Unpacking dwz (0.15-1+b1) ...
Selecting previously unselected package libunistring5:arm64.
Preparing to unpack .../028-libunistring5_1.3-1_arm64.deb ...
Unpacking libunistring5:arm64 (1.3-1) ...
Selecting previously unselected package libicu72:arm64.
Preparing to unpack .../029-libicu72_72.1-6_arm64.deb ...
Unpacking libicu72:arm64 (72.1-6) ...
Selecting previously unselected package libxml2:arm64.
Preparing to unpack .../030-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_arm64.deb ...
Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../031-gettext_0.23.1-1_arm64.deb ...
Unpacking gettext (0.23.1-1) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../032-intltool-debian_0.35.0+20060710.6_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.6) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../033-po-debconf_1.0.21+nmu1_all.deb ...
Unpacking po-debconf (1.0.21+nmu1) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../034-debhelper_13.24.1_all.deb ...
Unpacking debhelper (13.24.1) ...
Selecting previously unselected package libkrb5support0:arm64.
Preparing to unpack .../035-libkrb5support0_1.21.3-4_arm64.deb ...
Unpacking libkrb5support0:arm64 (1.21.3-4) ...
Selecting previously unselected package libk5crypto3:arm64.
Preparing to unpack .../036-libk5crypto3_1.21.3-4_arm64.deb ...
Unpacking libk5crypto3:arm64 (1.21.3-4) ...
Selecting previously unselected package libkeyutils1:arm64.
Preparing to unpack .../037-libkeyutils1_1.6.3-4_arm64.deb ...
Unpacking libkeyutils1:arm64 (1.6.3-4) ...
Selecting previously unselected package libkrb5-3:arm64.
Preparing to unpack .../038-libkrb5-3_1.21.3-4_arm64.deb ...
Unpacking libkrb5-3:arm64 (1.21.3-4) ...
Selecting previously unselected package libgssapi-krb5-2:arm64.
Preparing to unpack .../039-libgssapi-krb5-2_1.21.3-4_arm64.deb ...
Unpacking libgssapi-krb5-2:arm64 (1.21.3-4) ...
Selecting previously unselected package libgssrpc4t64:arm64.
Preparing to unpack .../040-libgssrpc4t64_1.21.3-4_arm64.deb ...
Unpacking libgssrpc4t64:arm64 (1.21.3-4) ...
Selecting previously unselected package libkadm5clnt-mit12:arm64.
Preparing to unpack .../041-libkadm5clnt-mit12_1.21.3-4_arm64.deb ...
Unpacking libkadm5clnt-mit12:arm64 (1.21.3-4) ...
Selecting previously unselected package libkdb5-10t64:arm64.
Preparing to unpack .../042-libkdb5-10t64_1.21.3-4_arm64.deb ...
Unpacking libkdb5-10t64:arm64 (1.21.3-4) ...
Selecting previously unselected package libkadm5srv-mit12:arm64.
Preparing to unpack .../043-libkadm5srv-mit12_1.21.3-4_arm64.deb ...
Unpacking libkadm5srv-mit12:arm64 (1.21.3-4) ...
Selecting previously unselected package krb5-multidev:arm64.
Preparing to unpack .../044-krb5-multidev_1.21.3-4_arm64.deb ...
Unpacking krb5-multidev:arm64 (1.21.3-4) ...
Selecting previously unselected package libbrotli1:arm64.
Preparing to unpack .../045-libbrotli1_1.1.0-2+b6_arm64.deb ...
Unpacking libbrotli1:arm64 (1.1.0-2+b6) ...
Selecting previously unselected package libbrotli-dev:arm64.
Preparing to unpack .../046-libbrotli-dev_1.1.0-2+b6_arm64.deb ...
Unpacking libbrotli-dev:arm64 (1.1.0-2+b6) ...
Selecting previously unselected package libbz2-dev:arm64.
Preparing to unpack .../047-libbz2-dev_1.0.8-6_arm64.deb ...
Unpacking libbz2-dev:arm64 (1.0.8-6) ...
Selecting previously unselected package libidn2-0:arm64.
Preparing to unpack .../048-libidn2-0_2.3.7-2+b1_arm64.deb ...
Unpacking libidn2-0:arm64 (2.3.7-2+b1) ...
Selecting previously unselected package libffi8:arm64.
Preparing to unpack .../049-libffi8_3.4.7-1_arm64.deb ...
Unpacking libffi8:arm64 (3.4.7-1) ...
Selecting previously unselected package libp11-kit0:arm64.
Preparing to unpack .../050-libp11-kit0_0.25.5-3_arm64.deb ...
Unpacking libp11-kit0:arm64 (0.25.5-3) ...
Selecting previously unselected package libtasn1-6:arm64.
Preparing to unpack .../051-libtasn1-6_4.20.0-2_arm64.deb ...
Unpacking libtasn1-6:arm64 (4.20.0-2) ...
Selecting previously unselected package libgnutls30t64:arm64.
Preparing to unpack .../052-libgnutls30t64_3.8.9-2_arm64.deb ...
Unpacking libgnutls30t64:arm64 (3.8.9-2) ...
Selecting previously unselected package libsasl2-modules-db:arm64.
Preparing to unpack .../053-libsasl2-modules-db_2.1.28+dfsg1-8+b1_arm64.deb ...
Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg1-8+b1) ...
Selecting previously unselected package libsasl2-2:arm64.
Preparing to unpack .../054-libsasl2-2_2.1.28+dfsg1-8+b1_arm64.deb ...
Unpacking libsasl2-2:arm64 (2.1.28+dfsg1-8+b1) ...
Selecting previously unselected package libldap2:arm64.
Preparing to unpack .../055-libldap2_2.6.9+dfsg-1_arm64.deb ...
Unpacking libldap2:arm64 (2.6.9+dfsg-1) ...
Selecting previously unselected package libnghttp2-14:arm64.
Preparing to unpack .../056-libnghttp2-14_1.64.0-1_arm64.deb ...
Unpacking libnghttp2-14:arm64 (1.64.0-1) ...
Selecting previously unselected package libnghttp3-9:arm64.
Preparing to unpack .../057-libnghttp3-9_1.6.0-2_arm64.deb ...
Unpacking libnghttp3-9:arm64 (1.6.0-2) ...
Selecting previously unselected package libngtcp2-16:arm64.
Preparing to unpack .../058-libngtcp2-16_1.9.1-1_arm64.deb ...
Unpacking libngtcp2-16:arm64 (1.9.1-1) ...
Selecting previously unselected package libngtcp2-crypto-gnutls8:arm64.
Preparing to unpack .../059-libngtcp2-crypto-gnutls8_1.9.1-1_arm64.deb ...
Unpacking libngtcp2-crypto-gnutls8:arm64 (1.9.1-1) ...
Selecting previously unselected package libpsl5t64:arm64.
Preparing to unpack .../060-libpsl5t64_0.21.2-1.1+b1_arm64.deb ...
Unpacking libpsl5t64:arm64 (0.21.2-1.1+b1) ...
Selecting previously unselected package librtmp1:arm64.
Preparing to unpack .../061-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_arm64.deb ...
Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Selecting previously unselected package libssh2-1t64:arm64.
Preparing to unpack .../062-libssh2-1t64_1.11.1-1_arm64.deb ...
Unpacking libssh2-1t64:arm64 (1.11.1-1) ...
Selecting previously unselected package libcurl3t64-gnutls:arm64.
Preparing to unpack .../063-libcurl3t64-gnutls_8.12.1-2_arm64.deb ...
Unpacking libcurl3t64-gnutls:arm64 (8.12.1-2) ...
Selecting previously unselected package libevent-2.1-7t64:arm64.
Preparing to unpack .../064-libevent-2.1-7t64_2.1.12-stable-10+b1_arm64.deb ...
Unpacking libevent-2.1-7t64:arm64 (2.1.12-stable-10+b1) ...
Selecting previously unselected package libunbound8:arm64.
Preparing to unpack .../065-libunbound8_1.22.0-1+b1_arm64.deb ...
Unpacking libunbound8:arm64 (1.22.0-1+b1) ...
Selecting previously unselected package libgnutls-dane0t64:arm64.
Preparing to unpack .../066-libgnutls-dane0t64_3.8.9-2_arm64.deb ...
Unpacking libgnutls-dane0t64:arm64 (3.8.9-2) ...
Selecting previously unselected package libgnutls-openssl27t64:arm64.
Preparing to unpack .../067-libgnutls-openssl27t64_3.8.9-2_arm64.deb ...
Unpacking libgnutls-openssl27t64:arm64 (3.8.9-2) ...
Selecting previously unselected package libidn2-dev:arm64.
Preparing to unpack .../068-libidn2-dev_2.3.7-2+b1_arm64.deb ...
Unpacking libidn2-dev:arm64 (2.3.7-2+b1) ...
Selecting previously unselected package libp11-kit-dev:arm64.
Preparing to unpack .../069-libp11-kit-dev_0.25.5-3_arm64.deb ...
Unpacking libp11-kit-dev:arm64 (0.25.5-3) ...
Selecting previously unselected package libtasn1-6-dev:arm64.
Preparing to unpack .../070-libtasn1-6-dev_4.20.0-2_arm64.deb ...
Unpacking libtasn1-6-dev:arm64 (4.20.0-2) ...
Selecting previously unselected package libgmpxx4ldbl:arm64.
Preparing to unpack .../071-libgmpxx4ldbl_2%3a6.3.0+dfsg-3_arm64.deb ...
Unpacking libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-3) ...
Selecting previously unselected package libgmp-dev:arm64.
Preparing to unpack .../072-libgmp-dev_2%3a6.3.0+dfsg-3_arm64.deb ...
Unpacking libgmp-dev:arm64 (2:6.3.0+dfsg-3) ...
Selecting previously unselected package nettle-dev:arm64.
Preparing to unpack .../073-nettle-dev_3.10.1-1_arm64.deb ...
Unpacking nettle-dev:arm64 (3.10.1-1) ...
Selecting previously unselected package libgnutls28-dev:arm64.
Preparing to unpack .../074-libgnutls28-dev_3.8.9-2_arm64.deb ...
Unpacking libgnutls28-dev:arm64 (3.8.9-2) ...
Selecting previously unselected package libkrb5-dev:arm64.
Preparing to unpack .../075-libkrb5-dev_1.21.3-4_arm64.deb ...
Unpacking libkrb5-dev:arm64 (1.21.3-4) ...
Selecting previously unselected package libldap-dev:arm64.
Preparing to unpack .../076-libldap-dev_2.6.9+dfsg-1_arm64.deb ...
Unpacking libldap-dev:arm64 (2.6.9+dfsg-1) ...
Selecting previously unselected package libpkgconf3:arm64.
Preparing to unpack .../077-libpkgconf3_1.8.1-4_arm64.deb ...
Unpacking libpkgconf3:arm64 (1.8.1-4) ...
Selecting previously unselected package pkgconf-bin.
Preparing to unpack .../078-pkgconf-bin_1.8.1-4_arm64.deb ...
Unpacking pkgconf-bin (1.8.1-4) ...
Selecting previously unselected package pkgconf:arm64.
Preparing to unpack .../079-pkgconf_1.8.1-4_arm64.deb ...
Unpacking pkgconf:arm64 (1.8.1-4) ...
Selecting previously unselected package libnghttp2-dev:arm64.
Preparing to unpack .../080-libnghttp2-dev_1.64.0-1_arm64.deb ...
Unpacking libnghttp2-dev:arm64 (1.64.0-1) ...
Selecting previously unselected package libnghttp3-dev:arm64.
Preparing to unpack .../081-libnghttp3-dev_1.6.0-2_arm64.deb ...
Unpacking libnghttp3-dev:arm64 (1.6.0-2) ...
Selecting previously unselected package libngtcp2-crypto-gnutls-dev:arm64.
Preparing to unpack .../082-libngtcp2-crypto-gnutls-dev_1.9.1-1_arm64.deb ...
Unpacking libngtcp2-crypto-gnutls-dev:arm64 (1.9.1-1) ...
Selecting previously unselected package libngtcp2-dev:arm64.
Preparing to unpack .../083-libngtcp2-dev_1.9.1-1_arm64.deb ...
Unpacking libngtcp2-dev:arm64 (1.9.1-1) ...
Selecting previously unselected package libpsl-dev:arm64.
Preparing to unpack .../084-libpsl-dev_0.21.2-1.1+b1_arm64.deb ...
Unpacking libpsl-dev:arm64 (0.21.2-1.1+b1) ...
Selecting previously unselected package zlib1g-dev:arm64.
Preparing to unpack .../085-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_arm64.deb ...
Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ...
Selecting previously unselected package librtmp-dev:arm64.
Preparing to unpack .../086-librtmp-dev_2.4+20151223.gitfa8646d.1-2+b5_arm64.deb ...
Unpacking librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Selecting previously unselected package libssl-dev:arm64.
Preparing to unpack .../087-libssl-dev_3.4.1-1_arm64.deb ...
Unpacking libssl-dev:arm64 (3.4.1-1) ...
Selecting previously unselected package libssh2-1-dev:arm64.
Preparing to unpack .../088-libssh2-1-dev_1.11.1-1_arm64.deb ...
Unpacking libssh2-1-dev:arm64 (1.11.1-1) ...
Selecting previously unselected package libzstd-dev:arm64.
Preparing to unpack .../089-libzstd-dev_1.5.6+dfsg-2_arm64.deb ...
Unpacking libzstd-dev:arm64 (1.5.6+dfsg-2) ...
Selecting previously unselected package libcurl4-gnutls-dev:arm64.
Preparing to unpack .../090-libcurl4-gnutls-dev_8.12.1-2_arm64.deb ...
Unpacking libcurl4-gnutls-dev:arm64 (8.12.1-2) ...
Selecting previously unselected package libdeflate0:arm64.
Preparing to unpack .../091-libdeflate0_1.23-1+b1_arm64.deb ...
Unpacking libdeflate0:arm64 (1.23-1+b1) ...
Selecting previously unselected package libdeflate-dev:arm64.
Preparing to unpack .../092-libdeflate-dev_1.23-1+b1_arm64.deb ...
Unpacking libdeflate-dev:arm64 (1.23-1+b1) ...
Selecting previously unselected package libgkarrays1t64.
Preparing to unpack .../093-libgkarrays1t64_2.1.0+dfsg-4.2+b1_arm64.deb ...
Unpacking libgkarrays1t64 (2.1.0+dfsg-4.2+b1) ...
Selecting previously unselected package libgkarrays-dev.
Preparing to unpack .../094-libgkarrays-dev_2.1.0+dfsg-4.2+b1_arm64.deb ...
Unpacking libgkarrays-dev (2.1.0+dfsg-4.2+b1) ...
Selecting previously unselected package libgzstream0:arm64.
Preparing to unpack .../095-libgzstream0_1.5+git20171107.9a20658-3_arm64.deb ...
Unpacking libgzstream0:arm64 (1.5+git20171107.9a20658-3) ...
Selecting previously unselected package libgzstream-dev:arm64.
Preparing to unpack .../096-libgzstream-dev_1.5+git20171107.9a20658-3_arm64.deb ...
Unpacking libgzstream-dev:arm64 (1.5+git20171107.9a20658-3) ...
Selecting previously unselected package libhtscodecs2:arm64.
Preparing to unpack .../097-libhtscodecs2_1.6.1-2_arm64.deb ...
Unpacking libhtscodecs2:arm64 (1.6.1-2) ...
Selecting previously unselected package libhts3t64:arm64.
Preparing to unpack .../098-libhts3t64_1.21+ds-1_arm64.deb ...
Unpacking libhts3t64:arm64 (1.21+ds-1) ...
Selecting previously unselected package liblzma-dev:arm64.
Preparing to unpack .../099-liblzma-dev_5.6.3-1+b1_arm64.deb ...
Unpacking liblzma-dev:arm64 (5.6.3-1+b1) ...
Selecting previously unselected package libhts-dev:arm64.
Preparing to unpack .../100-libhts-dev_1.21+ds-1_arm64.deb ...
Unpacking libhts-dev:arm64 (1.21+ds-1) ...
Selecting previously unselected package libjellyfish-2.0-2:arm64.
Preparing to unpack .../101-libjellyfish-2.0-2_2.3.1-4_arm64.deb ...
Unpacking libjellyfish-2.0-2:arm64 (2.3.1-4) ...
Selecting previously unselected package libjellyfish-2.0-dev.
Preparing to unpack .../102-libjellyfish-2.0-dev_2.3.1-4_arm64.deb ...
Unpacking libjellyfish-2.0-dev (2.3.1-4) ...
Setting up libhtscodecs2:arm64 (1.6.1-2) ...
Setting up libpipeline1:arm64 (1.5.8-1) ...
Setting up libkeyutils1:arm64 (1.6.3-4) ...
Setting up libicu72:arm64 (72.1-6) ...
Setting up libzstd-dev:arm64 (1.5.6+dfsg-2) ...
Setting up bsdextrautils (2.40.4-4) ...
Setting up libmagic-mgc (1:5.45-3+b1) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up architecture-properties:arm64 (0.2.5) ...
Setting up libdebhelper-perl (13.24.1) ...
Setting up libbrotli1:arm64 (1.1.0-2+b6) ...
Setting up libmagic1t64:arm64 (1:5.45-3+b1) ...
Setting up libnghttp2-14:arm64 (1.64.0-1) ...
Setting up libdeflate0:arm64 (1.23-1+b1) ...
Setting up gettext-base (0.23.1-1) ...
Setting up m4 (1.4.19-5) ...
Setting up libgkarrays1t64 (2.1.0+dfsg-4.2+b1) ...
Setting up libevent-2.1-7t64:arm64 (2.1.12-stable-10+b1) ...
Setting up libcom-err2:arm64 (1.47.2-1) ...
Setting up file (1:5.45-3+b1) ...
Setting up libelf1t64:arm64 (0.192-4) ...
Setting up libkrb5support0:arm64 (1.21.3-4) ...
Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-8+b1) ...
Setting up libjellyfish-2.0-2:arm64 (2.3.1-4) ...
Setting up autotools-dev (20220109.1) ...
Setting up libunbound8:arm64 (1.22.0-1+b1) ...
Setting up libpkgconf3:arm64 (1.8.1-4) ...
Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-3) ...
Setting up comerr-dev:arm64 (2.1-1.47.2-1) ...
Setting up libunistring5:arm64 (1.3-1) ...
Setting up libssl-dev:arm64 (3.4.1-1) ...
Setting up autopoint (0.23.1-1) ...
Setting up pkgconf-bin (1.8.1-4) ...
Setting up libk5crypto3:arm64 (1.21.3-4) ...
Setting up libsasl2-2:arm64 (2.1.28+dfsg1-8+b1) ...
Setting up autoconf (2.72-3) ...
Setting up libnghttp3-9:arm64 (1.6.0-2) ...
Setting up libgzstream0:arm64 (1.5+git20171107.9a20658-3) ...
Setting up libnghttp3-dev:arm64 (1.6.0-2) ...
Setting up liblzma-dev:arm64 (5.6.3-1+b1) ...
Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ...
Setting up libffi8:arm64 (3.4.7-1) ...
Setting up dwz (0.15-1+b1) ...
Setting up sensible-utils (0.0.24) ...
Setting up libuchardet0:arm64 (0.0.8-1+b2) ...
Setting up libtasn1-6:arm64 (4.20.0-2) ...
Setting up libngtcp2-16:arm64 (1.9.1-1) ...
Setting up libkrb5-3:arm64 (1.21.3-4) ...
Setting up libssh2-1t64:arm64 (1.11.1-1) ...
Setting up libtasn1-6-dev:arm64 (4.20.0-2) ...
Setting up libdeflate-dev:arm64 (1.23-1+b1) ...
Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Setting up libldap2:arm64 (2.6.9+dfsg-1) ...
Setting up libbrotli-dev:arm64 (1.1.0-2+b6) ...
Setting up libpopt0:arm64 (1.19+dfsg-2) ...
Setting up libbz2-dev:arm64 (1.0.8-6) ...
Setting up automake (1:1.17-3) ...
update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode
Setting up libfile-stripnondeterminism-perl (1.14.1-2) ...
Setting up gettext (0.23.1-1) ...
Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ...
Setting up nettle-dev:arm64 (3.10.1-1) ...
Setting up libjellyfish-2.0-dev (2.3.1-4) ...
Setting up libgkarrays-dev (2.1.0+dfsg-4.2+b1) ...
Setting up libtool (2.5.4-3) ...
Setting up libidn2-0:arm64 (2.3.7-2+b1) ...
Setting up libngtcp2-dev:arm64 (1.9.1-1) ...
Setting up pkgconf:arm64 (1.8.1-4) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up libgzstream-dev:arm64 (1.5+git20171107.9a20658-3) ...
Setting up dh-autoreconf (20) ...
Setting up libldap-dev:arm64 (2.6.9+dfsg-1) ...
Setting up libp11-kit0:arm64 (0.25.5-3) ...
Setting up libgssapi-krb5-2:arm64 (1.21.3-4) ...
Setting up libssh2-1-dev:arm64 (1.11.1-1) ...
Setting up libidn2-dev:arm64 (2.3.7-2+b1) ...
Setting up dh-strip-nondeterminism (1.14.1-2) ...
Setting up groff-base (1.23.0-7) ...
Setting up libp11-kit-dev:arm64 (0.25.5-3) ...
Setting up rsync (3.3.0+ds1-4) ...
invoke-rc.d: could not determine current runlevel
invoke-rc.d: policy-rc.d denied execution of start.
Setting up libgnutls30t64:arm64 (3.8.9-2) ...
Setting up libgnutls-openssl27t64:arm64 (3.8.9-2) ...
Setting up libnghttp2-dev:arm64 (1.64.0-1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ...
Setting up man-db (2.13.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ...
Setting up libgnutls-dane0t64:arm64 (3.8.9-2) ...
Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Setting up libgssrpc4t64:arm64 (1.21.3-4) ...
Setting up libngtcp2-crypto-gnutls8:arm64 (1.9.1-1) ...
Setting up libkadm5clnt-mit12:arm64 (1.21.3-4) ...
Setting up libgnutls28-dev:arm64 (3.8.9-2) ...
Setting up libkdb5-10t64:arm64 (1.21.3-4) ...
Setting up libcurl3t64-gnutls:arm64 (8.12.1-2) ...
Setting up debhelper (13.24.1) ...
Setting up libngtcp2-crypto-gnutls-dev:arm64 (1.9.1-1) ...
Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Setting up libkadm5srv-mit12:arm64 (1.21.3-4) ...
Setting up libhts3t64:arm64 (1.21+ds-1) ...
Setting up krb5-multidev:arm64 (1.21.3-4) ...
Setting up libkrb5-dev:arm64 (1.21.3-4) ...
Setting up libcurl4-gnutls-dev:arm64 (8.12.1-2) ...
Setting up libhts-dev:arm64 (1.21+ds-1) ...
Processing triggers for libc-bin (2.40-7) ...
Reading package lists...
Building dependency tree...
Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
Building tag database...
-> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/crac-2.5.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../crac_2.5.2+dfsg-6_source.changes
dpkg-buildpackage: info: source package crac
dpkg-buildpackage: info: source version 2.5.2+dfsg-6
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Michael R. Crusoe <crusoe@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
debian/rules clean
dh clean
dh_clean
debian/rules binary
dh binary
dh_update_autotools_config
dh_autoreconf
aclocal: warning: couldn't open directory 'config/m4': No such file or directory
libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'.
libtoolize: copying file 'config/ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'config/m4'.
libtoolize: copying file 'config/m4/libtool.m4'
libtoolize: copying file 'config/m4/ltoptions.m4'
libtoolize: copying file 'config/m4/ltsugar.m4'
libtoolize: copying file 'config/m4/ltversion.m4'
libtoolize: copying file 'config/m4/lt~obsolete.m4'
configure.ac:147: installing 'config/compile'
configure.ac:139: installing 'config/config.guess'
configure.ac:139: installing 'config/config.sub'
configure.ac:137: installing 'config/install-sh'
configure.ac:137: installing 'config/missing'
src/Makefile.am: installing 'config/depcomp'
test_f/Makefile.am:109: warning: shell find . -name "*.should_get": non-POSIX variable name
test_f/Makefile.am:109: (probably a GNU make extension)
test_f/Makefile.am:110: warning: shell find . -name "*.fasta" -o -name "*.fa": non-POSIX variable name
test_f/Makefile.am:110: (probably a GNU make extension)
test_f/Makefile.am:111: warning: shell find . -name "*.fastq" -o -name "*.fq": non-POSIX variable name
test_f/Makefile.am:111: (probably a GNU make extension)
parallel-tests: installing 'config/test-driver'
dh_auto_configure
./configure --build=aarch64-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/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking
checking for a BSD-compatible install... /usr/bin/install -c
checking whether sleep supports fractional seconds... yes
checking filesystem timestamp resolution... 0.01
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking xargs -n works... yes
checking build system type... aarch64-unknown-linux-gnu
checking host system type... aarch64-unknown-linux-gnu
checking for gawk... (cached) mawk
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether gcc understands -c and -o together... yes
checking whether make supports the include directive... yes (GNU style)
checking dependency style of gcc... none
checking for g++... g++
checking whether the compiler supports GNU C++... yes
checking whether g++ accepts -g... yes
checking for g++ option to enable C++11 features... none needed
checking dependency style of g++... none
checking how to run the C preprocessor... gcc -E
checking whether make sets $(MAKE)... (cached) yes
checking whether ln -s works... yes
checking how to print strings... printf
checking for a sed that does not truncate output... /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 1572864
checking how to convert aarch64-unknown-linux-gnu file names to aarch64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert aarch64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for file... file
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ranlib... ranlib
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /usr/bin/dd
checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
checking for mt... no
checking if : is a manifest tool... no
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... no
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for ld used by gcc... (cached) /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... (cached) yes
checking for dpkg... /usr/bin/dpkg
checking for rpmbuild... no
checking for sqrt in -lm... yes
checking for pthread_join in -lpthread... yes
checking for size_t... yes
checking for working alloca.h... yes
checking for alloca... yes
checking for sys/mkdev.h... no
checking for sys/sysmacros.h... yes
checking for fcntl.h... yes
checking for inttypes.h... (cached) yes
checking for libintl.h... yes
checking for limits.h... yes
checking for locale.h... yes
checking for memory.h... yes
checking for stdint.h... (cached) yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for strings.h... (cached) yes
checking for sys/file.h... yes
checking for sys/param.h... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking for utime.h... yes
checking for _Bool... no
checking for stdbool.h that conforms to C99 or later... yes
checking for inline... inline
checking for int64_t... yes
checking for off_t... yes
checking for size_t... (cached) yes
checking for struct stat.st_blksize... yes
checking for uint32_t... yes
checking for uint8_t... yes
checking for ptrdiff_t... yes
yes
checking for GNU libc compatible realloc... yes
checking for floor... yes
checking for gettimeofday... yes
checking for memchr... yes
checking for memmove... yes
checking for memset... yes
checking for mkfifo... yes
checking for pow... yes
checking for select... yes
checking for sqrt... yes
checking for strrchr... yes
checking for strstr... yes
checking for strtol... yes
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for libProgressBar... yes
checking for gzread in -lz... yes
checking for hts_hopen in -lhts... yes
checking for libGkArrays... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating control
config.status: creating crac.spec
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating scripts/Makefile
config.status: creating src/libReadsInfo/Makefile
config.status: creating src/libSSA/Makefile
config.status: creating src/libReadsReader/Makefile
config.status: creating src/libReadsReader/kseq/Makefile
config.status: creating man/Makefile
config.status: creating man/crac.1
config.status: creating scripts/crac-client
config.status: creating test_f/Makefile
config.status: creating test_f/bug/Makefile
config.status: creating test_f/causes/Makefile
config.status: creating test_f/cigar/Makefile
config.status: creating test_f/splices_adjust/Makefile
config.status: creating config/config.h
config.status: executing depfiles commands
config.status: executing libtool commands
dh_auto_build
make -j12
make[1]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
Making all in src
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
Making all in libReadsInfo
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-BioTagIndelInfo.o `test -f 'BioTagIndelInfo.cpp' || echo './'`BioTagIndelInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-BioUndeterminedInfo.o `test -f 'BioUndeterminedInfo.cpp' || echo './'`BioUndeterminedInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-cigarTypes.o `test -f 'cigarTypes.cpp' || echo './'`cigarTypes.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-Cigar.o `test -f 'Cigar.cpp' || echo './'`Cigar.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-DuplicationInfo.o `test -f 'DuplicationInfo.cpp' || echo './'`DuplicationInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-genericInfo.o `test -f 'genericInfo.cpp' || echo './'`genericInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-IndelInfo.o `test -f 'IndelInfo.cpp' || echo './'`IndelInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-repetitionInfo.o `test -f 'repetitionInfo.cpp' || echo './'`repetitionInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-SeqErrInfo.o `test -f 'SeqErrInfo.cpp' || echo './'`SeqErrInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-SNPInfo.o `test -f 'SNPInfo.cpp' || echo './'`SNPInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-SpliceInfo.o `test -f 'SpliceInfo.cpp' || echo './'`SpliceInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-SpliceInterInfo.o `test -f 'SpliceInterInfo.cpp' || echo './'`SpliceInterInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-SpliceIntraInfo.o `test -f 'SpliceIntraInfo.cpp' || echo './'`SpliceIntraInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-SpliceNoCoverInfo.o `test -f 'SpliceNoCoverInfo.cpp' || echo './'`SpliceNoCoverInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-SplicingInfo.o `test -f 'SplicingInfo.cpp' || echo './'`SplicingInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-samLine.o `test -f 'samLine.cpp' || echo './'`samLine.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-samHeader.o `test -f 'samHeader.cpp' || echo './'`samHeader.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-bamUtils.o `test -f 'bamUtils.cpp' || echo './'`bamUtils.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-tagInfo.o `test -f 'tagInfo.cpp' || echo './'`tagInfo.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsInfo_a-undeterminedErrorInfo.o `test -f 'undeterminedErrorInfo.cpp' || echo './'`undeterminedErrorInfo.cpp
samHeader.cpp: In member function 'bam_hdr_t* SamHeader::writeBamHeader(samFile*)':
samHeader.cpp:160:15: warning: ignoring return value of 'int sam_hdr_write(samFile*, const sam_hdr_t*)' declared with attribute 'warn_unused_result' [-Wunused-result]
160 | sam_hdr_write(out,h);
| ~~~~~~~~~~~~~^~~~~~~
In file included from ../libReadsReader/readsReader.h:57,
from ../Read.h:55,
from ../ReadIndex.h:52,
from ../Support.h:59,
from tagInfo.h:71,
from tagInfo.cpp:53:
../libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
../libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
../libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
samLine.cpp: In constructor 'OptionalField::OptionalField(const char*, char)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
60 | strncpy(tag,tag_name,2);
| ^
samLine.cpp: In constructor 'CharOptionalField::CharOptionalField(const char*, char)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In constructor 'IntOptionalField::IntOptionalField(const char*, int)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In constructor 'IntOptionalField::IntOptionalField(const char*, uint)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In constructor 'StringOptionalField::StringOptionalField(const char*, std::string)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In constructor 'StringOptionalField::StringOptionalField(const char*, char*)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In member function 'void SamLine::addOptionalField(const char*, char)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In member function 'void SamLine::addOptionalField(const char*, int)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In member function 'void SamLine::addOptionalField(const char*, uint)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In member function 'void SamLine::addOptionalField(const char*, const std::string&)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
samLine.cpp: In member function 'void SamLine::addOptionalField(const char*, const char*)':
samLine.cpp:60:10: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 2 equals destination size [-Wstringop-truncation]
rm -f libReadsInfo.a
ar cr libReadsInfo.a libReadsInfo_a-BioTagIndelInfo.o libReadsInfo_a-BioUndeterminedInfo.o libReadsInfo_a-cigarTypes.o libReadsInfo_a-Cigar.o libReadsInfo_a-DuplicationInfo.o libReadsInfo_a-genericInfo.o libReadsInfo_a-IndelInfo.o libReadsInfo_a-repetitionInfo.o libReadsInfo_a-SeqErrInfo.o libReadsInfo_a-SNPInfo.o libReadsInfo_a-SpliceInfo.o libReadsInfo_a-SpliceInterInfo.o libReadsInfo_a-SpliceIntraInfo.o libReadsInfo_a-SpliceNoCoverInfo.o libReadsInfo_a-SplicingInfo.o libReadsInfo_a-samLine.o libReadsInfo_a-samHeader.o libReadsInfo_a-bamUtils.o libReadsInfo_a-tagInfo.o libReadsInfo_a-undeterminedErrorInfo.o
ranlib libReadsInfo.a
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
Making all in libSSA
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o cracIndex.o cracIndex.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o bitarray.o bitarray.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o bitrankw32int.o bitrankw32int.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o chrPosition.o chrPosition.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o HuffAlphabetRank.o HuffAlphabetRank.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o Huffman_Codes.o Huffman_Codes.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o locateOnGenome.o locateOnGenome.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o locateTags.o locateTags.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o SSA.o SSA.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o utils.o utils.cpp
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o GenomeInfo.o GenomeInfo.cpp
cracIndex.cpp:85:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
85 | cerr << "\tCompiled on " <<__DATE__ << endl << endl;
| ^~~~~~~~
In file included from ./seqan/basic.h:64,
from ./seqan/sequence.h:27,
from /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10,
from cracIndex.cpp:67:
./seqan/basic/basic_holder.h: In function 'void seqan::setValue(Holder<TValue, Tristate2>&, TValue&)':
./seqan/basic/basic_holder.h:1001:66: warning: typedef 'THolderType' locally defined but not used [-Wunused-local-typedefs]
1001 | typedef typename Value<Holder<TValue, Tristate2> >::Type THolderType;
| ^~~~~~~~~~~
./seqan/basic/basic_holder.h: In function 'typename seqan::Reference<seqan::Holder<TValue, seqan::Tristate2> >::Type seqan::value(Holder<TValue, Tristate2>&)':
./seqan/basic/basic_holder.h:1027:66: warning: typedef 'THolderType' locally defined but not used [-Wunused-local-typedefs]
1027 | typedef typename Value<Holder<TValue, Tristate2> >::Type THolderType;
| ^~~~~~~~~~~
./seqan/basic/basic_holder.h: In function 'void seqan::assignValue(Holder<TValue, Tristate2>&, const TSource&)':
./seqan/basic/basic_holder.h:1051:66: warning: typedef 'THostValue' locally defined but not used [-Wunused-local-typedefs]
1051 | typedef typename Value<Holder<TValue, Tristate2> >::Type THostValue;
| ^~~~~~~~~~
In file included from ./seqan/sequence.h:38:
./seqan/sequence/lexical.h: In function 'void seqan::compare_(Lexical<TSpec>&, TLeft&, TRight&)':
./seqan/sequence/lexical.h:239:45: warning: typedef 'TLeftValue' locally defined but not used [-Wunused-local-typedefs]
239 | typedef typename Value<TLeft>::Type TLeftValue;
| ^~~~~~~~~~
In file included from /usr/include/libGkArrays/readsReader.h:109,
from locateTags.h:60,
from locateTags.cpp:53:
/usr/include/libGkArrays/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
/usr/include/libGkArrays/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
/usr/include/libGkArrays/readsReader.h:111:1: note: in expansion of macro 'KSEQ_INIT'
111 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from ./seqan/sequence.h:51:
./seqan/sequence/string_base.h: In function 'void seqan::assign(String<TValue, TSpec>&, const TSource&, Tag<TUsage>)':
./seqan/sequence/string_base.h:811:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
811 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::assign(String<TValue, TSpec>&, const TSource&, TSize, Tag<TUsage>)':
./seqan/sequence/string_base.h:821:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
821 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::assign(String<TValue, TSpec>&, const TSourceValue*, Tag<TUsage>)':
./seqan/sequence/string_base.h:834:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
834 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::assign(String<TValue, TSpec>&, const TSourceValue*, TSize, Tag<TUsage>)':
./seqan/sequence/string_base.h:844:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
844 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::append(String<TValue, TSpec>&, const TSource&, Tag<TUsage>)':
./seqan/sequence/string_base.h:1044:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1044 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::append(String<TValue, TSpec>&, const TSource&, typename Size<String<TValue, TSpec> >::Type, Tag<TUsage>)':
./seqan/sequence/string_base.h:1056:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1056 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::append(String<TValue, TSpec>&, TSourceValue*, Tag<TUsage>)':
./seqan/sequence/string_base.h:1070:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1070 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::append(String<TValue, TSpec>&, TSourceValue*, typename Size<String<TValue, TSpec> >::Type, Tag<TUsage>)':
./seqan/sequence/string_base.h:1082:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1082 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::replace(String<TValue, TSpec>&, typename Size<String<TValue, TSpec> >::Type, typename Size<String<TValue, TSpec> >::Type, const TSource&, Tag<TUsage>)':
./seqan/sequence/string_base.h:1249:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1249 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::replace(String<TValue, TSpec>&, typename Size<String<TValue, TSpec> >::Type, typename Size<String<TValue, TSpec> >::Type, const TSource&, typename Size<String<TValue, TSpec> >::Type, Tag<TUsage>)':
./seqan/sequence/string_base.h:1263:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1263 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::replace(String<TValue, TSpec>&, typename Size<String<TValue, TSpec> >::Type, typename Size<String<TValue, TSpec> >::Type, const TSourceValue*, Tag<TUsage>)':
./seqan/sequence/string_base.h:1279:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1279 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
./seqan/sequence/string_base.h: In function 'void seqan::replace(String<TValue, TSpec>&, typename Size<String<TValue, TSpec> >::Type, typename Size<String<TValue, TSpec> >::Type, const TSourceValue*, typename Size<String<TValue, TSpec> >::Type, Tag<TUsage>)':
./seqan/sequence/string_base.h:1293:51: warning: typedef 'TTarget' locally defined but not used [-Wunused-local-typedefs]
1293 | typedef String<TTargetValue, TTargetSpec> TTarget;
| ^~~~~~~
In file included from ./seqan/sequence.h:53:
./seqan/sequence/string_alloc.h: In function 'typename seqan::Size<seqan::String<TValue, seqan::Alloc<TSpec> > >::Type seqan::reserve(String<TValue, Alloc<TSpec> >&, _TSize, Insist)':
./seqan/sequence/string_alloc.h:456:70: warning: typedef 'TSize' locally defined but not used [-Wunused-local-typedefs]
456 | typedef typename Size< String<TValue, Alloc<TSpec> > >::Type TSize;
| ^~~~~
In file included from ./seqan/sequence.h:57:
./seqan/sequence/string_packed.h: In static member function 'static typename seqan::Size<T>::Type seqan::_ClearSpace_String_Packed_<TExpand>::_clearSpace_(T&, typename seqan::Size<T>::Type, typename seqan::Size<T>::Type, typename seqan::Size<T>::Type, typename seqan::Size<T>::Type)':
./seqan/sequence/string_packed.h:594:62: warning: typedef 'TIterator' locally defined but not used [-Wunused-local-typedefs]
594 | typedef typename Iterator<T, Standard>::Type TIterator;
| ^~~~~~~~~
./seqan/sequence/string_packed.h: In function 'typename seqan::Size<seqan::String<TValue, seqan::Alloc<TSpec> > >::Type seqan::reserve(String<TValue, Packed<THostspec> >&, _TSize, Insist)':
./seqan/sequence/string_packed.h:758:70: warning: typedef 'TSize' locally defined but not used [-Wunused-local-typedefs]
758 | typedef typename Size< String<TValue, Alloc<TSpec> > >::Type TSize;
| ^~~~~
In file included from ./seqan/sequence.h:62:
./seqan/sequence/sequence_multiple.h: In function 'void seqan::subset(StringSet<TString, Dependent<const Tag<TagGenerous_> > >&, StringSet<TString, Dependent<const Tag<TagGenerous_> > >&, TIds, TLength)':
./seqan/sequence/sequence_multiple.h:1647:55: warning: typedef 'TId' locally defined but not used [-Wunused-local-typedefs]
1647 | typedef typename Id<TStringSet>::Type TId;
| ^~~
In file included from ./seqan/index.h:82,
from /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:11:
./seqan/index/shape_base.h: In function 'typename seqan::Value<seqan::Shape<TValue, seqan::FixedShape<0> > >::Type seqan::hash(Shape<TValue, FixedShape<0> >&, TIter)':
./seqan/index/shape_base.h:273:81: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
273 | typedef typename Value< Shape<TValue, SimpleShape> >::Type THValue;
| ^~~~~~~
./seqan/index/shape_base.h: In function 'typename seqan::Value<seqan::Shape<TValue, seqan::FixedShape<q> > >::Type seqan::hash(Shape<TValue, FixedShape<q> >&, TIter)':
./seqan/index/shape_base.h:309:81: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
309 | typedef typename Value< Shape<TValue, FixedShape<q> > >::Type THValue;
| ^~~~~~~
./seqan/index/shape_base.h:310:81: warning: typedef 'TSize' locally defined but not used [-Wunused-local-typedefs]
310 | typedef typename Size< Shape<TValue, FixedShape<q> > >::Type TSize;
| ^~~~~
./seqan/index/shape_base.h: In function 'typename seqan::Value<seqan::Shape<TValue, TSpec> >::Type seqan::hash(Shape<TValue, TSpec>&, TIter, TSize)':
./seqan/index/shape_base.h:322:73: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
322 | typedef typename Value< Shape<TValue, TSpec> >::Type THValue;
| ^~~~~~~
./seqan/index/shape_base.h: In function 'typename seqan::Value<seqan::Shape<TValue, TSpec> >::Type seqan::hashUpper(Shape<TValue, TSpec>&, TIter, TSize)':
./seqan/index/shape_base.h:424:73: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
424 | typedef typename Value< Shape<TValue, TSpec> >::Type THValue;
| ^~~~~~~
./seqan/index/shape_base.h: In function 'typename seqan::Value<seqan::Shape<TValue, TSpec> >::Type seqan::hash2(Shape<TValue, TSpec>&, TIter, TSize)':
./seqan/index/shape_base.h:492:73: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
492 | typedef typename Value< Shape<TValue, TSpec> >::Type THValue;
| ^~~~~~~
In file included from ./seqan/index.h:83:
./seqan/index/shape_gapped.h: In function 'typename seqan::Value<seqan::Shape<TValue, seqan::FixedGappedShape<const seqan::Tag<seqan::Default_> > > >::Type seqan::hash(Shape<TValue, FixedGappedShape<const Tag<Default_> > >&, TIter)':
./seqan/index/shape_gapped.h:370:81: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
370 | typedef typename Value< Shape<TValue, GappedShape> >::Type THValue;
| ^~~~~~~
./seqan/index/shape_gapped.h: In function 'typename seqan::Value<seqan::Shape<TValue, seqan::FixedGappedShape<TSpec> > >::Type seqan::hash(Shape<TValue, FixedGappedShape<TSpec> >&, TIter, TSize)':
./seqan/index/shape_gapped.h:387:89: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
387 | typedef typename Value< Shape<TValue, FixedGappedShape<TSpec> > >::Type THValue;
| ^~~~~~~
./seqan/index/shape_gapped.h: In function 'typename seqan::Value<seqan::Shape<TValue, seqan::FixedGappedShape<TSpec> > >::Type seqan::hashUpper(Shape<TValue, FixedGappedShape<TSpec> >&, TIter, TSize)':
./seqan/index/shape_gapped.h:415:89: warning: typedef 'THValue' locally defined but not used [-Wunused-local-typedefs]
415 | typedef typename Value< Shape<TValue, FixedGappedShape<TSpec> > >::Type THValue;
| ^~~~~~~
In file included from ./seqan/file.h:66,
from /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/multikey_qsort.h:6,
from /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:8,
from /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:13:
./seqan/file/file_format_fasta_align.h: In function 'void seqan::read(TFile&, Align<TSource, TSpec>&, FastaAlign)':
./seqan/file/file_format_fasta_align.h:138:44: warning: typedef 'TRow' locally defined but not used [-Wunused-local-typedefs]
138 | typedef typename Row<TAlign>::Type TRow;
| ^~~~
./seqan/file/file_format_fasta_align.h: In function 'void seqan::_write_impl(TFile&, Align<TSource, TSpec>&, TStringContainer&, FastaAlign)':
./seqan/file/file_format_fasta_align.h:252:49: warning: typedef 'TPosition' locally defined but not used [-Wunused-local-typedefs]
252 | typedef typename Position<TAlign>::Type TPosition;
| ^~~~~~~~~
In file included from ./seqan/file.h:69:
./seqan/file/file_format_cgviz.h: In function 'void seqan::_write_impl(TFile&, Align<TSource, TSpec>&, TStringContainer&, CGViz)':
./seqan/file/file_format_cgviz.h:66:44: warning: typedef 'TRow' locally defined but not used [-Wunused-local-typedefs]
66 | typedef typename Row<TAlign>::Type TRow;
| ^~~~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h: In function 'void calcExhaustiveDC(T, bool, bool)':
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:156:41: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
156 | if(!diffs[d1]) diffCnt++; diffs[d1] = true;
| ^~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:156:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
156 | if(!diffs[d1]) diffCnt++; diffs[d1] = true;
| ^~~~~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:157:41: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
157 | if(!diffs[d2]) diffCnt++; diffs[d2] = true;
| ^~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:157:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
157 | if(!diffs[d2]) diffCnt++; diffs[d2] = true;
| ^~~~~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h: In destructor 'KarkkainenBlockwiseSA<TStr>::~KarkkainenBlockwiseSA()':
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:206:17: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
206 | if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample
| ^~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:206:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
206 | if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample
| ^~~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h: In member function 'void KarkkainenBlockwiseSA<TStr>::buildSamples()':
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:380:44: warning: typedef 'TAlphabet' locally defined but not used [-Wunused-local-typedefs]
380 | typedef typename Value<TStr>::Type TAlphabet;
| ^~~~~~~~~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h: In member function 'virtual void KarkkainenBlockwiseSA<TStr>::nextBlock()':
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:745:44: warning: typedef 'TAlphabet' locally defined but not used [-Wunused-local-typedefs]
745 | typedef typename Value<TStr>::Type TAlphabet;
| ^~~~~~~~~
./seqan/sequence/string_packed.h: In instantiation of 'struct seqan::_PackedConsts<const seqan::String<seqan::SimpleType<unsigned char, seqan::_Dna>, seqan::Packed<> > >':
./seqan/sequence/string_packed.h:906:72: required from 'typename seqan::Position<const seqan::Iter<TContainer, seqan::Packed<THostspec> > >::Type seqan::position(const Iter<TContainer, Packed<THostspec> >&) [with TContainer = const String<SimpleType<unsigned char, _Dna>, Packed<> >; THostspec = Alloc<void>; typename Position<const Iter<TContainer, Packed<THostspec> > >::Type = long unsigned int]'
906 | return (hostIterator(me) - begin(host_)) * _PackedConsts<TContainer>::VALUES_PER_WORD + _bitpos(me) / _PackedConsts<TContainer>::BITS_PER_VALUE;
| ^~~~~~~~~~~~~~~
./seqan/sequence/string_packed.h:1237:17: required from 'typename seqan::Difference<seqan::Iter<TContainer, seqan::Packed<THostspec> > >::Type seqan::operator-(const Iter<TContainer, Packed<THostspec> >&, const Iter<TContainer, Packed<THostspec> >&) [with TContainer = const String<SimpleType<unsigned char, _Dna>, Packed<> >; THostspec = Alloc<void>; typename Difference<Iter<TContainer, Packed<THostspec> > >::Type = long int]'
1237 | return position(left) - position(right);
| ~~~~~~~~^~~~~~
./seqan/sequence/string_base.h:181:29: required from 'typename seqan::Size<const seqan::String<TValue, TSpec> >::Type seqan::length(const String<TValue, TSpec>&) [with TValue = SimpleType<unsigned char, _Dna>; TSpec = Packed<>; typename Size<const String<TValue, TSpec> >::Type = long unsigned int]'
181 | return end(me, Standard()) - begin(me, Standard());
| ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:354:30: required from here
354 | uint32_t len = seqan::length(t);
| ~~~~~~~~~~~~~^~~
./seqan/sequence/string_packed.h:294:51: warning: comparison between 'enum seqan::BitsPerValue<seqan::SimpleType<unsigned char, seqan::_Dna> >::<unnamed>' and 'enum seqan::BitsPerValue<unsigned int>::<unnamed>' [-Wenum-compare]
294 | VALUES_PER_WORD = (BITS_PER_VALUE > BITS_PER_HOST_VALUE) ? 1 : (BITS_PER_HOST_VALUE / BITS_PER_VALUE),
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
./seqan/sequence/string_packed.h: In instantiation of 'struct seqan::_PackedConsts<seqan::String<seqan::SimpleType<unsigned char, seqan::_Dna>, seqan::Packed<> > >':
./seqan/sequence/string_packed.h:958:79: required from 'typename seqan::GetValue<const seqan::Iter<TContainer, seqan::Packed<THostspec> > >::Type seqan::getValue(const Iter<TContainer, Packed<THostspec> >&) [with TContainer = String<SimpleType<unsigned char, _Dna>, Packed<> >; THostspec = Alloc<void>; typename GetValue<const Iter<TContainer, Packed<THostspec> > >::Type = SimpleType<unsigned char, _Dna>]'
958 | return (value(hostIterator(me)) >> _bitpos(me)) & _PackedConsts<TContainer>::VALUE_MASK;
| ^~~~~~~~~~
./seqan/basic/basic_proxy.h:242:17: required from 'typename seqan::GetValue<const seqan::Proxy<TTargetSpec> >::Type seqan::getValue(const Proxy<TTargetSpec>&) [with TSpec = IteratorProxy<Iter<String<SimpleType<unsigned char, _Dna>, Packed<> >, Packed<> > >; typename GetValue<const Proxy<TTargetSpec> >::Type = SimpleType<unsigned char, _Dna>]'
242 | return getValue(iter(me));
| ~~~~~~~~^~~~~~~~~~
./seqan/basic/basic_proxy.h:272:34: required from 'typename seqan::Convert<TTarget, const seqan::Proxy<TSourceSpec> >::Type seqan::convertImpl(Convert<TTarget, T>, const Proxy<TSourceSpec>&) [with TTarget = char; T = Proxy<IteratorProxy<Iter<String<SimpleType<unsigned char, _Dna>, Packed<> >, Packed<> > > >; TSpec = IteratorProxy<Iter<String<SimpleType<unsigned char, _Dna>, Packed<> >, Packed<> > >; typename Convert<TTarget, const Proxy<TSourceSpec> >::Type = char]'
272 | return convert<TTarget>(getValue(source));
| ~~~~~~~~^~~~~~~~
./seqan/basic/basic_converter.h:111:20: required from 'typename seqan::Convert<TTarget, TSource>::Type seqan::convert(const TSource&) [with TTarget = char; TSource = Proxy<IteratorProxy<Iter<String<SimpleType<unsigned char, _Dna>, Packed<> >, Packed<> > > >; typename Convert<TTarget, TSource>::Type = char]'
111 | return convertImpl(Convert<TTarget, TSource>(), source);
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
cracIndex.cpp:224:29: required from here
224 | bwt[i] = convert<char>((*text)[current - 1]);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
./seqan/sequence/string_packed.h:294:51: warning: comparison between 'enum seqan::BitsPerValue<seqan::SimpleType<unsigned char, seqan::_Dna> >::<unnamed>' and 'enum seqan::BitsPerValue<unsigned int>::<unnamed>' [-Wenum-compare]
294 | VALUES_PER_WORD = (BITS_PER_VALUE > BITS_PER_HOST_VALUE) ? 1 : (BITS_PER_HOST_VALUE / BITS_PER_VALUE),
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~
In file included from ./seqan/basic.h:101:
./seqan/basic/basic_alphabet_trait_basic.h: In instantiation of 'void seqan::_arrayCopyForward_Pointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType<unsigned char, _Dna5>]':
./seqan/basic/basic_alphabet_trait_basic.h:226:27: required from 'void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = SimpleType<unsigned char, _Dna5>]'
226 | _arrayCopyForward_Pointer(source_begin, source_end, target_begin, typename IsSimple<TValue>::Type() );
| ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./seqan/basic/basic_alphabet_trait_basic.h:102:18: required from 'void seqan::_arrayConstructCopy_Pointer(TValue*, TValue*, TValue*, True) [with TValue = SimpleType<unsigned char, _Dna5>]'
102 | arrayCopyForward(source_begin, source_end, target_begin);
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./seqan/basic/basic_alphabet_trait_basic.h:121:29: required from 'void seqan::arrayConstructCopy(TValue*, TValue*, TValue*) [with TValue = SimpleType<unsigned char, _Dna5>]'
121 | _arrayConstructCopy_Pointer(source_begin, source_end, target_begin, typename IsSimple<TValue>::Type() );
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./seqan/sequence/string_alloc.h:421:21: required from 'typename seqan::Size<seqan::String<TValue, seqan::Alloc<TSpec> > >::Type seqan::reserve(String<TValue, Alloc<TSpec> >&, _TSize, Tag<TUsage>) [with TValue = SimpleType<unsigned char, _Dna5>; TSpec = void; _TSize = long unsigned int; TExpand = TagExact_; typename Size<String<TValue, Alloc<TSpec> > >::Type = long unsigned int]'
421 | arrayConstructCopy(old_array, old_array + seq_length, begin(seq, Standard()));
| ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./seqan/sequence/string_base.h:1433:33: required from 'static typename seqan::Size<T>::Type seqan::_Resize_String<TExpand>::resize_(T&, typename seqan::Size<T>::Type) [with T = seqan::String<seqan::SimpleType<unsigned char, seqan::_Dna5>, seqan::Alloc<void> >; TExpand = const seqan::Tag<seqan::TagExact_>; typename seqan::Size<T>::Type = long unsigned int]'
1433 | TSize new_capacity = reserve(me, new_length, TExpand());
| ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
./seqan/sequence/string_base.h:1459:52: required from 'typename seqan::Size<seqan::String<TValue, TSpec> >::Type seqan::resize(String<TValue, TSpec>&, TSize, Tag<TUsage>) [with TValue = SimpleType<unsigned char, _Dna5>; TSpec = Alloc<void>; TSize = long unsigned int; TExpand = TagExact_; typename Size<String<TValue, TSpec> >::Type = long unsigned int]'
1459 | return _Resize_String<Tag<TExpand> const>::resize_(me, new_length);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
./seqan/sequence/sequence_interface.h:1360:15: required from 'typename seqan::Size<T>::Type seqan::resize(T&, TSize) [with T = String<SimpleType<unsigned char, _Dna5>, Alloc<void> >; TSize = long unsigned int; typename Size<T>::Type = long unsigned int]'
1360 | return resize(me, new_length, typename DefaultOverflowExplicit<T>::Type());
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./seqan/file/file_format_fasta.h:269:8: required from 'void seqan::read(TFile&, TData&, TSize, Fasta) [with TFile = std::basic_ifstream<char>; TData = String<SimpleType<unsigned char, _Dna5>, Alloc<void> >; TSize = long unsigned int; Fasta = const Tag<TagFasta_>]'
269 | resize(data, count);
| ~~~~~~^~~~~~~~~~~~~
./seqan/file/file_format_fasta.h:309:6: required from 'void seqan::read(TFile&, TData&, Fasta) [with TFile = std::basic_ifstream<char>; TData = String<SimpleType<unsigned char, _Dna5>, Alloc<void> >; Fasta = const Tag<TagFasta_>]'
309 | read(file, data, supremumValue<TSize>(), tag);
| ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
cracIndex.cpp:142:13: required from here
142 | read(file, current_seq, Fasta());
| ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
./seqan/basic/basic_alphabet_trait_basic.h:207:16: warning: 'void* memmove(void*, const void*, size_t)' writing to an object of type 'struct seqan::SimpleType<unsigned char, seqan::_Dna5>' with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
207 | memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue));
| ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from ./seqan/basic.h:106:
./seqan/basic/basic_alphabet_simple.h:57:8: note: 'struct seqan::SimpleType<unsigned char, seqan::_Dna5>' declared here
57 | struct SimpleType
| ^~~~~~~~~~
rm -f libSSA.a
ar cr libSSA.a bitarray.o bitrankw32int.o chrPosition.o HuffAlphabetRank.o Huffman_Codes.o locateOnGenome.o locateTags.o SSA.o utils.o GenomeInfo.o
ranlib libSSA.a
In file included from ./seqan/basic.h:61:
In function 'void seqan::allocate(T&, TValue*&, TSize, Tag<TUsage>) [with T = String<unsigned int, Alloc<void> >; TValue = unsigned int; TSize = long unsigned int; TUsage = TagAllocateStorage_]',
inlined from 'seqan::Value<seqan::String<unsigned int, seqan::Alloc<void> >, 0>::Type* seqan::_allocateStorage(String<unsigned int, Alloc<void> >&, size_t)' at ./seqan/sequence/string_alloc.h:294:11,
inlined from 'typename seqan::Value<seqan::String<TValue, TSpec> >::Type* seqan::_reallocateStorage(String<TValue, TSpec>&, typename Size<String<TValue, TSpec> >::Type, Exact) [with TValue = unsigned int; TSpec = Alloc<void>]' at ./seqan/sequence/string_base.h:1353:26,
inlined from 'typename seqan::Size<seqan::String<TValue, seqan::Alloc<TSpec> > >::Type seqan::reserve(String<TValue, Alloc<TSpec> >&, _TSize, Tag<TUsage>) [with TValue = unsigned int; TSpec = void; _TSize = long unsigned int; TExpand = TagExact_]' at ./seqan/sequence/string_alloc.h:418:88,
inlined from 'static typename seqan::Size<T>::Type seqan::_Resize_String<TExpand>::resize_(T&, typename seqan::Size<T>::Type) [with T = seqan::String<unsigned int, seqan::Alloc<void> >; TExpand = const seqan::Tag<seqan::TagExact_>]' at ./seqan/sequence/string_base.h:1433:33,
inlined from 'typename seqan::Size<seqan::String<TValue, TSpec> >::Type seqan::resize(String<TValue, TSpec>&, TSize, Tag<TUsage>) [with TValue = unsigned int; TSpec = Alloc<void>; TSize = long unsigned int; TExpand = TagExact_]' at ./seqan/sequence/string_base.h:1459:52,
inlined from 'void DifferenceCoverSample<T>::build() [with TStr = seqan::String<seqan::SimpleType<unsigned char, seqan::_Dna>, seqan::Packed<> >]' at /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:781:9:
./seqan/basic/basic_allocator_interface.h:159:39: warning: argument 1 value '18446744073709551612' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]
159 | data = (TValue *) operator new(count * sizeof(TValue));
| ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/bits/new_allocator.h:34,
from /usr/include/aarch64-linux-gnu/c++/14/bits/c++allocator.h:33,
from /usr/include/c++/14/bits/allocator.h:46,
from /usr/include/c++/14/string:43,
from /usr/include/c++/14/bits/locale_classes.h:40,
from /usr/include/c++/14/bits/ios_base.h:41,
from /usr/include/c++/14/ios:44,
from /usr/include/c++/14/ostream:40,
from /usr/include/c++/14/iostream:41,
from cracIndex.cpp:52:
/usr/include/c++/14/new: In member function 'void DifferenceCoverSample<T>::build() [with TStr = seqan::String<seqan::SimpleType<unsigned char, seqan::_Dna>, seqan::Packed<> >]':
/usr/include/c++/14/new:131:26: note: in a call to allocation function 'void* operator new(std::size_t)' declared here
131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc)
| ^~~~~~~~
In function 'void seqan::allocate(T&, TValue*&, TSize, Tag<TUsage>) [with T = String<unsigned int, Alloc<void> >; TValue = unsigned int; TSize = long unsigned int; TUsage = TagAllocateStorage_]',
inlined from 'seqan::Value<seqan::String<unsigned int, seqan::Alloc<void> >, 0>::Type* seqan::_allocateStorage(String<unsigned int, Alloc<void> >&, size_t)' at ./seqan/sequence/string_alloc.h:294:11,
inlined from 'typename seqan::Value<seqan::String<TValue, TSpec> >::Type* seqan::_reallocateStorage(String<TValue, TSpec>&, typename Size<String<TValue, TSpec> >::Type, Exact) [with TValue = unsigned int; TSpec = Alloc<void>]' at ./seqan/sequence/string_base.h:1353:26,
inlined from 'typename seqan::Size<seqan::String<TValue, seqan::Alloc<TSpec> > >::Type seqan::reserve(String<TValue, Alloc<TSpec> >&, _TSize, Tag<TUsage>) [with TValue = unsigned int; TSpec = void; _TSize = long unsigned int; TExpand = TagExact_]' at ./seqan/sequence/string_alloc.h:418:88,
inlined from 'static typename seqan::Size<T>::Type seqan::_Resize_String<TExpand>::resize_(T&, typename seqan::Size<T>::Type) [with T = seqan::String<unsigned int, seqan::Alloc<void> >; TExpand = const seqan::Tag<seqan::TagExact_>]' at ./seqan/sequence/string_base.h:1433:33,
inlined from 'typename seqan::Size<seqan::String<TValue, TSpec> >::Type seqan::resize(String<TValue, TSpec>&, TSize, Tag<TUsage>) [with TValue = unsigned int; TSpec = Alloc<void>; TSize = long unsigned int; TExpand = TagExact_]' at ./seqan/sequence/string_base.h:1459:52,
inlined from 'typename seqan::Size<T>::Type seqan::resize(T&, TSize) [with T = String<unsigned int, Alloc<void> >; TSize = long unsigned int]' at ./seqan/sequence/sequence_interface.h:1360:15,
inlined from 'void DifferenceCoverSample<T>::build() [with TStr = seqan::String<seqan::SimpleType<unsigned char, seqan::_Dna>, seqan::Packed<> >]' at /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:857:8:
./seqan/basic/basic_allocator_interface.h:159:39: warning: argument 1 value '18446744073709551612' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]
159 | data = (TValue *) operator new(count * sizeof(TValue));
| ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/14/new: In member function 'void DifferenceCoverSample<T>::build() [with TStr = seqan::String<seqan::SimpleType<unsigned char, seqan::_Dna>, seqan::Packed<> >]':
/usr/include/c++/14/new:131:26: note: in a call to allocation function 'void* operator new(std::size_t)' declared here
131 | _GLIBCXX_NODISCARD void* operator new(std::size_t) _GLIBCXX_THROW (std::bad_alloc)
| ^~~~~~~~
/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -lm -lpthread -lSSA -L/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/ -Wl,-z,relro -Wl,-z,now -o crac-index cracIndex.o libSSA.a -lhts -lz -lpthread -lm
libtool: link: g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-z -Wl,now -o crac-index cracIndex.o -lSSA -L/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/ libSSA.a -lhts -lz -lpthread -lm
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
Making all in libReadsReader
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
Making all in kseq
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
g++ -DHAVE_CONFIG_H -I. -I../../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o libReadsReader_a-readsReader.o `test -f 'readsReader.cpp' || echo './'`readsReader.cpp
rm -f libReadsReader.a
ar cr libReadsReader.a libReadsReader_a-readsReader.o
ranlib libReadsReader.a
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o Classifier.o Classifier.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o classifyTags.o classifyTags.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o GkReadIndex.o GkReadIndex.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o JellyReadIndex.o JellyReadIndex.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o crac.o crac.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o Parameters.o Parameters.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o SupportBreak.o SupportBreak.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o BreakList.o BreakList.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o CandidatBreak.o CandidatBreak.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o Support.o Support.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o locateServer.o locateServer.cpp
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o utils.o utils.cpp
classifyTags.cpp:421:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
421 | headerTemplate << "#Created on " <<__DATE__ << endl << "#" << endl;
| ^~~~~~~~
crac.cpp:213:34: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
213 | printf("\tCompiled on %s.\n\n",__DATE__);
| ^~~~~~~~
In file included from /usr/include/libGkArrays/bitvector.hxx:104,
from /usr/include/libGkArrays/solArray.h:106,
from /usr/include/libGkArrays/gkArrays.h:112,
from GkReadIndex.h:60,
from GkReadIndex.cpp:55:
/usr/include/libGkArrays/largebinvect.hxx:119:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
119 | LargeBinVect(const CountWordSize length = 0, const bool value = 0) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:120:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
120 | LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:121:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
121 | LargeBinVect(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:127:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
127 | inline LargeBinVect<CountWordSize> &operator=(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:155:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
155 | inline LargeBinVect<CountWordSize> operator()(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:158:116: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
158 | inline unsigned long int GetValue(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:161:55: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
161 | inline bool operator[](const CountWordSize i) const throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:177:51: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
177 | inline bool GetBit(const CountWordSize i) const throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:179:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
179 | inline LargeBinVect<CountWordSize> &SetBit(const CountWordSize i, const bool value) throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:182:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
182 | inline LargeBinVect<CountWordSize> &SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:191:96: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
191 | inline LargeBinVect<CountWordSize> &Resize(const CountWordSize length, const bool value = 0) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:194:64: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
194 | inline LargeBinVect<CountWordSize> &Append(const bool value) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:197:65: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
197 | inline LargeBinVect<CountWordSize> &Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:200:88: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
200 | inline LargeBinVect<CountWordSize> &operator+=(const LargeBinVect<CountWordSize> &v) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:203:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
203 | inline LargeBinVect<CountWordSize> &operator++() throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:205:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
205 | inline LargeBinVect<CountWordSize> operator++(int) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:208:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
208 | inline LargeBinVect<CountWordSize> &operator--() throw (BinVectOverflow);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:210:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
210 | inline LargeBinVect<CountWordSize> operator--(int) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:214:67: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
214 | inline LargeBinVect<CountWordSize> Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc);
| ^~~~~
In file included from /usr/include/libGkArrays/largebinvect.hxx:241:
/usr/include/libGkArrays/largebinvect.cxx:121:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
121 | unsigned char *MyCalloc(const CountWordSize w, const int value = -1) throw (std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:136:89: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
136 | LargeBinVect<CountWordSize>::LargeBinVect(const CountWordSize length, const bool value) throw (std::bad_alloc)
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:147:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
147 | LargeBinVect<CountWordSize>::LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:167:81: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
167 | LargeBinVect<CountWordSize>::LargeBinVect(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc)
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:184:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
184 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator=(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:339:123: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
339 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::operator()(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:363:110: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
363 | unsigned long int LargeBinVect<CountWordSize>::GetValue(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:397:75: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
397 | bool LargeBinVect<CountWordSize>::operator[](const CountWordSize i) const throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:478:71: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
478 | bool LargeBinVect<CountWordSize>::GetBit(const CountWordSize i) const throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:493:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
493 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::SetBit(const CountWordSize i, const bool value) throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:513:148: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
513 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:619:112: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
619 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::Resize(const CountWordSize length, const bool value) throw (std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:653:84: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
653 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::Append(const bool value) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:661:85: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
661 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:673:108: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
673 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator+=(const LargeBinVect<CountWordSize> &v) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:711:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
711 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator++() throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:727:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
727 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::operator++(int) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:734:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
734 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator--() throw (BinVectOverflow) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:750:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
750 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::operator--(int) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:757:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
757 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/solArray.h:160:58: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
160 | SolArray(void *ptr, array_type t, uintSA nbElements) throw (invalid_argument);
| ^~~~~
/usr/include/libGkArrays/solArray.h:202:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
202 | void realloc(uintSA nbElements) throw (logic_error);
| ^~~~~
In file included from libReadsReader/readsReader.h:57,
from Read.h:55,
from ReadIndex.h:52,
from GkReadIndex.h:59:
libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
g++ -DHAVE_CONFIG_H -I. -I../config -I/build/reproducible-path/crac-2.5.2+dfsg -I/build/reproducible-path/crac-2.5.2+dfsg/src -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -I/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c -o Bitset.o Bitset.cpp
ln -s -f /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/crac-index crac-index
In file included from libReadsReader/readsReader.h:57,
from Read.h:55,
from ReadIndex.h:52,
from classifyTags.h:53,
from classifyTags.cpp:52:
libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
locateServer.cpp: In function 'void* launchSubServer(void*)':
locateServer.cpp:464:8: warning: unused variable 'threshold' [-Wunused-variable]
464 | uint threshold = indexTags->getFactorLength();
| ^~~~~~~~~
locateServer.cpp:466:9: warning: variable 'dontCare' set but not used [-Wunused-but-set-variable]
466 | char *dontCare, *variable, *tag_length, *factor;
| ^~~~~~~~
locateServer.cpp: In function 'void locateServer(ClassifyTags*, const char*, const char*)':
locateServer.cpp:717:9: warning: variable 'dontCare' set but not used [-Wunused-but-set-variable]
717 | char *dontCare;
| ^~~~~~~~
In file included from libReadsReader/readsReader.h:57,
from Read.h:55,
from ReadIndex.h:52,
from Support.h:59,
from SupportBreak.cpp:55:
libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from /usr/include/libGkArrays/bitvector.hxx:104,
from /usr/include/libGkArrays/solArray.h:106,
from /usr/include/libGkArrays/gkArrays.h:112,
from crac.cpp:69:
/usr/include/libGkArrays/largebinvect.hxx:119:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
119 | LargeBinVect(const CountWordSize length = 0, const bool value = 0) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:120:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
120 | LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:121:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
121 | LargeBinVect(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:127:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
127 | inline LargeBinVect<CountWordSize> &operator=(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:155:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
155 | inline LargeBinVect<CountWordSize> operator()(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:158:116: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
158 | inline unsigned long int GetValue(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:161:55: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
161 | inline bool operator[](const CountWordSize i) const throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:177:51: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
177 | inline bool GetBit(const CountWordSize i) const throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:179:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
179 | inline LargeBinVect<CountWordSize> &SetBit(const CountWordSize i, const bool value) throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:182:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
182 | inline LargeBinVect<CountWordSize> &SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:191:96: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
191 | inline LargeBinVect<CountWordSize> &Resize(const CountWordSize length, const bool value = 0) throw (std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:194:64: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
194 | inline LargeBinVect<CountWordSize> &Append(const bool value) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:197:65: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
197 | inline LargeBinVect<CountWordSize> &Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:200:88: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
200 | inline LargeBinVect<CountWordSize> &operator+=(const LargeBinVect<CountWordSize> &v) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:203:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
203 | inline LargeBinVect<CountWordSize> &operator++() throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:205:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
205 | inline LargeBinVect<CountWordSize> operator++(int) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:208:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
208 | inline LargeBinVect<CountWordSize> &operator--() throw (BinVectOverflow);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:210:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
210 | inline LargeBinVect<CountWordSize> operator--(int) throw (BinVectOverflow, std::bad_alloc);
| ^~~~~
/usr/include/libGkArrays/largebinvect.hxx:214:67: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
214 | inline LargeBinVect<CountWordSize> Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc);
| ^~~~~
In file included from /usr/include/libGkArrays/largebinvect.hxx:241:
/usr/include/libGkArrays/largebinvect.cxx:121:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
121 | unsigned char *MyCalloc(const CountWordSize w, const int value = -1) throw (std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:136:89: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
136 | LargeBinVect<CountWordSize>::LargeBinVect(const CountWordSize length, const bool value) throw (std::bad_alloc)
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:147:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
147 | LargeBinVect<CountWordSize>::LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:167:81: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
167 | LargeBinVect<CountWordSize>::LargeBinVect(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc)
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:184:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
184 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator=(const LargeBinVect<CountWordSize> &v) throw (std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:339:123: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
339 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::operator()(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:363:110: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
363 | unsigned long int LargeBinVect<CountWordSize>::GetValue(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) {
| ^~~~~
In file included from libReadsReader/readsReader.h:57,
from Read.h:55,
from ReadIndex.h:52,
from classifyTags.h:53,
from locateServer.cpp:59:
libReadsReader/readsReader.h: At global scope:
libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
/usr/include/libGkArrays/largebinvect.cxx:397:75: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
397 | bool LargeBinVect<CountWordSize>::operator[](const CountWordSize i) const throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:478:71: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
478 | bool LargeBinVect<CountWordSize>::GetBit(const CountWordSize i) const throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:493:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
493 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::SetBit(const CountWordSize i, const bool value) throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:513:148: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
513 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:619:112: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
619 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::Resize(const CountWordSize length, const bool value) throw (std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:653:84: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
653 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::Append(const bool value) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:661:85: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
661 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:673:108: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
673 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator+=(const LargeBinVect<CountWordSize> &v) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:711:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
711 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator++() throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:727:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
727 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::operator++(int) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:734:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
734 | LargeBinVect<CountWordSize> &LargeBinVect<CountWordSize>::operator--() throw (BinVectOverflow) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:750:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
750 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::operator--(int) throw (BinVectOverflow, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/largebinvect.cxx:757:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
757 | LargeBinVect<CountWordSize> LargeBinVect<CountWordSize>::Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc) {
| ^~~~~
/usr/include/libGkArrays/solArray.h:160:58: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
160 | SolArray(void *ptr, array_type t, uintSA nbElements) throw (invalid_argument);
| ^~~~~
/usr/include/libGkArrays/solArray.h:202:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated]
202 | void realloc(uintSA nbElements) throw (logic_error);
| ^~~~~
In file included from ./libReadsReader/readsReader.h:57,
from ./Read.h:55,
from ./ReadIndex.h:52,
from ./Classifier.h:56,
from Classifier.cpp:52:
./libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
./libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
./libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from libReadsReader/readsReader.h:57,
from Read.h:55,
from ReadIndex.h:52,
from Support.h:59,
from Support.cpp:57:
libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from libReadsReader/readsReader.h:57,
from Read.h:55,
from ReadIndex.h:52,
from JellyReadIndex.h:59,
from JellyReadIndex.cpp:55:
libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
crac.cpp: In function 'int main(int, char**)':
crac.cpp:1009:26: warning: catching polymorphic type 'class std::bad_alloc' by value [-Wcatch-value=]
1009 | } catch (bad_alloc e) {
| ^
In file included from libReadsReader/readsReader.h:57,
from Read.h:55,
from ReadIndex.h:52,
from classifyTags.h:53,
from crac.cpp:66:
libReadsReader/readsReader.h: At global scope:
libReadsReader/kseq/kseq.h:169:14: warning: 'int kseq_read(kseq_t*)' defined but not used [-Wunused-function]
169 | static int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro '__KSEQ_READ'
227 | __KSEQ_READ
| ^~~~~~~~~~~
libReadsReader/readsReader.h:59:1: note: in expansion of macro 'KSEQ_INIT'
59 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
Classifier.cpp: In member function 'virtual void SingleReadClassifier::classify()':
Classifier.cpp:203:40: warning: 'bioundetermined_type' may be used uninitialized [-Wmaybe-uninitialized]
203 | taginfo->addBioUndetermined(suppoBreak->getLocationStartBreak(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
204 | suppoBreak->getPositionStartBreak(),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
205 | bioundetermined_type,
| ~~~~~~~~~~~~~~~~~~~~~
206 | message.c_str());
| ~~~~~~~~~~~~~~~~
Classifier.cpp:187:33: note: 'bioundetermined_type' was declared here
187 | BioUndeterminedInfo::Type bioundetermined_type;
| ^~~~~~~~~~~~~~~~~~~~
In member function 'ChrPosition* Support::getLocation(uint)',
inlined from 'void Support::checkPairedConnection()' at Support.cpp:1085:38:
Support.cpp:470:20: warning: 'best_candidate1' may be used uninitialized [-Wmaybe-uninitialized]
470 | return locations[i];
| ^
Support.cpp: In member function 'void Support::checkPairedConnection()':
Support.cpp:1030:8: note: 'best_candidate1' was declared here
1030 | uint best_candidate1, best_candidate2;
| ^~~~~~~~~~~~~~~
In member function 'ChrPosition* Support::getLocation(uint)',
inlined from 'void Support::checkPairedConnection()' at Support.cpp:1084:20:
Support.cpp:470:20: warning: 'best_candidate2' may be used uninitialized [-Wmaybe-uninitialized]
470 | return locations[i];
| ^
Support.cpp: In member function 'void Support::checkPairedConnection()':
Support.cpp:1030:25: note: 'best_candidate2' was declared here
1030 | uint best_candidate1, best_candidate2;
| ^~~~~~~~~~~~~~~
/bin/bash ../libtool --tag=CXX --mode=link g++ -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -lGkArrays -ljellyfish-2.0 -lm -lpthread -lhts -lSSA -lReadsInfo -lReadsReader -lgzstream -L/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -L/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo -L/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader -ljellyfish-2.0 -lGkArrays -lProgressBar -Wl,-z,relro -Wl,-z,now -o crac Classifier.o classifyTags.o GkReadIndex.o JellyReadIndex.o crac.o Parameters.o SupportBreak.o BreakList.o CandidatBreak.o Support.o locateServer.o utils.o Bitset.o /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/libSSA.a /build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo/libReadsInfo.a /build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/libReadsReader.a -lhts -lz -lpthread -lm
libtool: link: g++ -std=c++0x -g -O2 -ffile-prefix-map=/build/reproducible-path/crac-2.5.2+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wl,-z -Wl,relro -Wl,-z -Wl,now -o crac Classifier.o classifyTags.o GkReadIndex.o JellyReadIndex.o crac.o Parameters.o SupportBreak.o BreakList.o CandidatBreak.o Support.o locateServer.o utils.o Bitset.o -lSSA -lReadsInfo -lReadsReader -lgzstream -L/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA -L/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo -L/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader /usr/lib/aarch64-linux-gnu/libjellyfish-2.0.so -lGkArrays -lProgressBar /build/reproducible-path/crac-2.5.2+dfsg/src/libSSA/libSSA.a /build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo/libReadsInfo.a /build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/libReadsReader.a -lhts -lz -lpthread -lm
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
Making all in man
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
make[2]: Nothing to be done for 'all'.
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
Making all in scripts
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
make[2]: Nothing to be done for 'all'.
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
Making all in test_f
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
Making all in causes
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
Making all in bug
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
Making all in cigar
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
Making all in splices_adjust
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[3]: Nothing to be done for 'all-am'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[2]: Nothing to be done for 'all-am'.
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[1]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
debian/rules override_dh_auto_test
make[1]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
# Sequence of tests is important so parallel execution is no option
dh_auto_test --no-parallel
make -j1 check "TESTSUITEFLAGS=-j1 --verbose" VERBOSE=1
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
Making check in src
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
Making check in libReadsInfo
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
Making check in libSSA
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
Making check in libReadsReader
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
Making check in kseq
make[5]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[5]: Nothing to be done for 'check'.
make[5]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[5]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[5]: Nothing to be done for 'check-am'.
make[5]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
make[4]: Nothing to be done for 'check-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
Making check in man
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
make[3]: Nothing to be done for 'check'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
Making check in scripts
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
make[3]: Nothing to be done for 'check'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
Making check in test_f
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
Making check in causes
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
Making check in bug
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
Making check in cigar
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
Making check in splices_adjust
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make check-TESTS
make[5]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[6]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
PASS: index_genomes.sh
PASS: launch_sg.sh
PASS: test_index.sh
============================================================================
Testsuite summary for crac 2.5.2
============================================================================
# TOTAL: 3
# PASS: 3
# SKIP: 0
# XFAIL: 0
# FAIL: 0
# XPASS: 0
# ERROR: 0
============================================================================
make[6]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[5]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[3]: Nothing to be done for 'check-am'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
find test_f -type f \( -name '*~' -o -name '*.tap' -o -name '*.ssa' -o -name '*.conf' -o -name '*.sam' -o -name '*.valgrind' -o -name '*.log' \) -delete
make[1]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
create-stamp debian/debhelper-build-stamp
dh_prep
dh_auto_install --destdir=debian/crac/
make -j1 install DESTDIR=/build/reproducible-path/crac-2.5.2\+dfsg/debian/crac AM_UPDATE_INFO_DIR=no
make[1]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
Making install in src
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
Making install in libReadsInfo
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsInfo'
Making install in libSSA
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
/usr/bin/mkdir -p '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin'
/bin/bash ../../libtool --mode=install /usr/bin/install -c crac-index '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin'
libtool: install: /usr/bin/install -c crac-index /build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin/crac-index
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libSSA'
Making install in libReadsReader
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
Making install in kseq
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[5]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[5]: Nothing to be done for 'install-exec-am'.
/usr/bin/mkdir -p '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/include/crac-2.5.2/kseq'
/usr/bin/install -c -m 644 kseq.h '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/include/crac-2.5.2/kseq'
make[5]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader/kseq'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[5]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[5]: Nothing to be done for 'install-exec-am'.
make[5]: Nothing to be done for 'install-data-am'.
make[5]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src/libReadsReader'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
/usr/bin/mkdir -p '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin'
/bin/bash ../libtool --mode=install /usr/bin/install -c crac '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin'
libtool: install: /usr/bin/install -c crac /build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin/crac
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/src'
Making install in man
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
make[3]: Nothing to be done for 'install-exec-am'.
/usr/bin/mkdir -p '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/share/man/man1'
/usr/bin/install -c -m 644 crac.1 '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/share/man/man1'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/man'
Making install in scripts
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
/usr/bin/mkdir -p '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin'
/usr/bin/install -c crac-client '/build/reproducible-path/crac-2.5.2+dfsg/debian/crac/usr/bin'
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/scripts'
Making install in test_f
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
Making install in causes
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/causes'
Making install in bug
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/bug'
Making install in cigar
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/cigar'
Making install in splices_adjust
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f/splices_adjust'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[4]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg/test_f'
make[2]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[3]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[2]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
make[1]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
dh_installdocs
dh_installchangelogs
debian/rules override_dh_installexamples
make[1]: Entering directory '/build/reproducible-path/crac-2.5.2+dfsg'
mkdir debian/crac/usr/share/doc/crac/examples
rsync -a --exclude=Makefile* test_f debian/crac/usr/share/doc/crac/examples
sed -i 's+${abs_top_builddir:-\.\./\.\.}/src/crac+crac+' `grep -wRl crac debian/crac/usr/share/doc/crac/examples/*`
sed -i 's+$abs_top_builddir/src/crac-index+crac-index+' `grep -wRl crac-index debian/crac/usr/share/doc/crac/examples/*`
make[1]: Leaving directory '/build/reproducible-path/crac-2.5.2+dfsg'
dh_installman
dh_lintian
dh_perl
dh_link
dh_strip_nondeterminism
dh_compress
dh_fixperms
dh_missing
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 from: /lib/ld-linux-aarch64.so.1
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged
dh_installdeb
dh_gencontrol
dh_md5sums
dh_builddeb
dpkg-deb: building package 'crac-dbgsym' in '../crac-dbgsym_2.5.2+dfsg-6_arm64.deb'.
dpkg-deb: building package 'crac' in '../crac_2.5.2+dfsg-6_arm64.deb'.
dpkg-genbuildinfo --build=binary -O../crac_2.5.2+dfsg-6_arm64.buildinfo
dpkg-genchanges --build=binary -O../crac_2.5.2+dfsg-6_arm64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env
I: removing directory /srv/workspace/pbuilder/693290 and its subdirectories
I: Current time: Sun Feb 23 09:28:50 -12 2025
I: pbuilder-time-stamp: 1740346130