sbuild (Debian sbuild) 0.78.1 (09 February 2019) on mjolnir +==============================================================================+ | crac 2.5.2+dfsg-5 (amd64) Sat, 13 Nov 2021 03:01:33 +0000 | +==============================================================================+ Package: crac Version: 2.5.2+dfsg-5 Source Version: 2.5.2+dfsg-5 Distribution: unstable Machine Architecture: arm64 Host Architecture: amd64 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/crossqa-sid-25f0678d-dac6-4463-a85f-81857660d792' with '<>' I: NOTICE: Log filtering will replace 'build/crac-3wxeaR/resolver-woUVkY' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://mirror.einval.org/debian sid InRelease [165 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:2 http://mirror.einval.org/debian sid/main Sources.diff/Index [63.6 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:4 http://mirror.einval.org/debian sid/main amd64 Packages [8831 kB] Get:5 http://mirror.einval.org/debian sid/main Sources [9361 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 Packages [8695 kB] Fetched 27.1 MB in 7s (3792 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libdebconfclient0 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 50.7 kB of archives. After this operation, 0 B of additional disk space will be used. Get:1 http://mirror.einval.org/debian sid/main arm64 libdebconfclient0 arm64 0.261 [50.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 50.7 kB in 0s (2018 kB/s) (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 ... 12318 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.261_arm64.deb ... Unpacking libdebconfclient0:arm64 (0.261) over (0.260) ... Setting up libdebconfclient0:arm64 (0.261) ... Processing triggers for libc-bin (2.32-4) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'crac' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/crac.git Please use: git clone https://salsa.debian.org/med-team/crac.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 675 kB of source archives. Get:1 http://mirror.einval.org/debian sid/main crac 2.5.2+dfsg-5 (dsc) [2081 B] Get:2 http://mirror.einval.org/debian sid/main crac 2.5.2+dfsg-5 (tar) [658 kB] Get:3 http://mirror.einval.org/debian sid/main crac 2.5.2+dfsg-5 (diff) [15.1 kB] Fetched 675 kB in 0s (9157 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/crac-3wxeaR/crac-2.5.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/crac-3wxeaR' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), zlib1g-dev, libhts-dev, libjellyfish-2.0-dev, libgzstream-dev, libgkarrays-dev, pkg-config, rsync, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 Filtered Build-Depends: debhelper-compat (= 13), zlib1g-dev, libhts-dev, libjellyfish-2.0-dev, libgzstream-dev, libgkarrays-dev, pkg-config, rsync, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [454 B] Get:5 copy:/<>/apt_archive ./ Packages [540 B] Fetched 1951 B in 0s (46.2 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils cpp-11-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-11-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-11-base:amd64 gcc-11-cross-base gcc-11-x86-64-linux-gnu gcc-11-x86-64-linux-gnu-base gcc-x86-64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan6:amd64 libasan6-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libbrotli1:amd64 libbz2-1.0:amd64 libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libcurl3-gnutls:amd64 libcurl4-gnutls-dev:amd64 libdb5.3:amd64 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:amd64 libdeflate0:amd64 libelf1 libffi8:amd64 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-11-dev:amd64 libgcc-11-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgkarrays-dev:amd64 libgkarrays1:amd64 libglib2.0-0 libgmp10:amd64 libgnutls30:amd64 libgomp1:amd64 libgomp1-amd64-cross libgssapi-krb5-2:amd64 libgzstream-dev:amd64 libgzstream0:amd64 libhogweed6:amd64 libhts-dev:amd64 libhts3:amd64 libhtscodecs2:amd64 libicu67 libidn2-0:amd64 libio-string-perl libitm1:amd64 libitm1-amd64-cross libjellyfish-2.0-2:amd64 libjellyfish-2.0-dev:amd64 libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 libldap-2.4-2:amd64 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross liblzma-dev:amd64 liblzma5:amd64 libmagic-mgc libmagic1 libnettle8:amd64 libnghttp2-14:amd64 libnsl-dev:amd64 libnsl2:amd64 libp11-kit0:amd64 libpipeline1 libpopt0 libpsl5:amd64 libquadmath0:amd64 libquadmath0-amd64-cross librtmp1:amd64 libsasl2-2:amd64 libsasl2-modules-db:amd64 libsigsegv2 libssh2-1:amd64 libssl1.1:amd64 libstdc++-11-dev:amd64 libstdc++-11-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libtasn1-6:amd64 libtirpc-dev:amd64 libtirpc3:amd64 libtool libtsan0:amd64 libtsan0-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libunistring2:amd64 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db pkg-config po-debconf rsync sensible-utils ucf zlib1g:amd64 zlib1g-dev:amd64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc gcc-11-locales cpp-doc dh-make binutils-multiarch g++-11-multilib-x86-64-linux-gnu gcc-11-doc gcc-11-multilib-x86-64-linux-gnu manpages-dev flex bison gdb-x86-64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:amd64 libc-l10n:amd64 locales:amd64 libnss-nis:amd64 libnss-nisplus:amd64 manpages-dev:amd64 libcurl4-doc:amd64 libgnutls28-dev:amd64 libidn11-dev:amd64 libkrb5-dev:amd64 libldap2-dev:amd64 librtmp-dev:amd64 libssh2-1-dev:amd64 gnutls-bin:amd64 krb5-doc:amd64 krb5-user:amd64 liblzma-doc:amd64 libstdc++-11-doc:amd64 libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl openssh-client openssh-server python3 Recommended packages: curl | wget | lynx ca-certificates:amd64 libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales:amd64 libldap-common:amd64 publicsuffix:amd64 libsasl2-modules:amd64 libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils cpp-11-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-11-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-11-base:amd64 gcc-11-cross-base gcc-11-x86-64-linux-gnu gcc-11-x86-64-linux-gnu-base gcc-x86-64-linux-gnu gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasan6:amd64 libasan6-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libbrotli1:amd64 libbz2-1.0:amd64 libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libcurl3-gnutls:amd64 libcurl4-gnutls-dev:amd64 libdb5.3:amd64 libdebhelper-perl libdebian-dpkgcross-perl libdeflate-dev:amd64 libdeflate0:amd64 libelf1 libffi8:amd64 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-11-dev:amd64 libgcc-11-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgkarrays-dev:amd64 libgkarrays1:amd64 libglib2.0-0 libgmp10:amd64 libgnutls30:amd64 libgomp1:amd64 libgomp1-amd64-cross libgssapi-krb5-2:amd64 libgzstream-dev:amd64 libgzstream0:amd64 libhogweed6:amd64 libhts-dev:amd64 libhts3:amd64 libhtscodecs2:amd64 libicu67 libidn2-0:amd64 libio-string-perl libitm1:amd64 libitm1-amd64-cross libjellyfish-2.0-2:amd64 libjellyfish-2.0-dev:amd64 libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 libldap-2.4-2:amd64 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross liblzma-dev:amd64 liblzma5:amd64 libmagic-mgc libmagic1 libnettle8:amd64 libnghttp2-14:amd64 libnsl-dev:amd64 libnsl2:amd64 libp11-kit0:amd64 libpipeline1 libpopt0 libpsl5:amd64 libquadmath0:amd64 libquadmath0-amd64-cross librtmp1:amd64 libsasl2-2:amd64 libsasl2-modules-db:amd64 libsigsegv2 libssh2-1:amd64 libssl1.1:amd64 libstdc++-11-dev:amd64 libstdc++-11-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libtasn1-6:amd64 libtirpc-dev:amd64 libtirpc3:amd64 libtool libtsan0:amd64 libtsan0-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libunistring2:amd64 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db pkg-config po-debconf rsync sbuild-build-depends-main-dummy:amd64 sensible-utils ucf zlib1g:amd64 zlib1g-dev:amd64 0 upgraded, 142 newly installed, 0 to remove and 0 not upgraded. Need to get 227 MB of archives. After this operation, 812 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [968 B] Get:2 http://mirror.einval.org/debian sid/main arm64 bsdextrautils arm64 2.37.2-4 [143 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 groff-base arm64 1.22.4-7 [883 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 libpipeline1 arm64 1.5.4-1 [34.6 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 liblocale-gettext-perl arm64 1.07-4+b1 [18.9 kB] Get:8 http://mirror.einval.org/debian sid/main arm64 libpopt0 arm64 1.18-3 [48.9 kB] Get:9 http://mirror.einval.org/debian sid/main arm64 rsync arm64 3.2.3-8 [380 kB] Get:10 http://mirror.einval.org/debian sid/main amd64 gcc-11-base amd64 11.2.0-10 [206 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 sensible-utils all 0.0.17 [21.5 kB] Get:12 http://mirror.einval.org/debian sid/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get:13 http://mirror.einval.org/debian sid/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get:14 http://mirror.einval.org/debian sid/main arm64 file arm64 1:5.39-3 [69.1 kB] Get:15 http://mirror.einval.org/debian sid/main arm64 gettext-base arm64 0.21-4 [173 kB] Get:16 http://mirror.einval.org/debian sid/main arm64 ucf all 3.0043 [74.0 kB] Get:17 http://mirror.einval.org/debian sid/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB] Get:18 http://mirror.einval.org/debian sid/main arm64 m4 arm64 1.4.18-5 [199 kB] Get:19 http://mirror.einval.org/debian sid/main arm64 autoconf all 2.71-2 [343 kB] Get:20 http://mirror.einval.org/debian sid/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get:21 http://mirror.einval.org/debian sid/main arm64 automake all 1:1.16.5-1 [823 kB] Get:22 http://mirror.einval.org/debian sid/main arm64 autopoint all 0.21-4 [510 kB] Get:23 http://mirror.einval.org/debian sid/main arm64 gcc-11-x86-64-linux-gnu-base arm64 11.2.0-9cross1 [205 kB] Get:24 http://mirror.einval.org/debian sid/main arm64 cpp-11-x86-64-linux-gnu arm64 11.2.0-9cross1 [48.2 MB] Get:25 http://mirror.einval.org/debian sid/main arm64 cpp-x86-64-linux-gnu arm64 4:11.2.0-2 [17.0 kB] Get:26 http://mirror.einval.org/debian sid/main arm64 cross-config all 2.6.18+nmu2 [31.7 kB] Get:27 http://mirror.einval.org/debian sid/main arm64 binutils-x86-64-linux-gnu arm64 2.37-8 [2046 kB] Get:28 http://mirror.einval.org/debian sid/main arm64 gcc-11-cross-base all 11.2.0-9cross1 [201 kB] Get:29 http://mirror.einval.org/debian sid/main arm64 libgcc-s1-amd64-cross all 11.2.0-9cross1 [42.0 kB] Get:30 http://mirror.einval.org/debian sid/main arm64 libgomp1-amd64-cross all 11.2.0-9cross1 [104 kB] Get:31 http://mirror.einval.org/debian sid/main arm64 libitm1-amd64-cross all 11.2.0-9cross1 [25.5 kB] Get:32 http://mirror.einval.org/debian sid/main arm64 libatomic1-amd64-cross all 11.2.0-9cross1 [8764 B] Get:33 http://mirror.einval.org/debian sid/main arm64 libasan6-amd64-cross all 11.2.0-9cross1 [2044 kB] Get:34 http://mirror.einval.org/debian sid/main arm64 liblsan0-amd64-cross all 11.2.0-9cross1 [885 kB] Get:35 http://mirror.einval.org/debian sid/main arm64 libtsan0-amd64-cross all 11.2.0-9cross1 [2010 kB] Get:36 http://mirror.einval.org/debian sid/main arm64 libc6-amd64-cross all 2.32-1cross4 [1570 kB] Get:37 http://mirror.einval.org/debian sid/main arm64 libstdc++6-amd64-cross all 11.2.0-9cross1 [535 kB] Get:38 http://mirror.einval.org/debian sid/main arm64 libubsan1-amd64-cross all 11.2.0-9cross1 [834 kB] Get:39 http://mirror.einval.org/debian sid/main arm64 libquadmath0-amd64-cross all 11.2.0-9cross1 [145 kB] Get:40 http://mirror.einval.org/debian sid/main arm64 libgcc-11-dev-amd64-cross all 11.2.0-9cross1 [2357 kB] Get:41 http://mirror.einval.org/debian sid/main arm64 gcc-11-x86-64-linux-gnu arm64 11.2.0-9cross1 [54.7 MB] Get:42 http://mirror.einval.org/debian sid/main arm64 gcc-x86-64-linux-gnu arm64 4:11.2.0-2 [1460 B] Get:43 http://mirror.einval.org/debian sid/main arm64 linux-libc-dev-amd64-cross all 5.10.46-4cross4 [1468 kB] Get:44 http://mirror.einval.org/debian sid/main arm64 libc6-dev-amd64-cross all 2.32-1cross4 [2248 kB] Get:45 http://mirror.einval.org/debian sid/main arm64 libstdc++-11-dev-amd64-cross all 11.2.0-9cross1 [1952 kB] Get:46 http://mirror.einval.org/debian sid/main arm64 g++-11-x86-64-linux-gnu arm64 11.2.0-9cross1 [52.2 MB] Get:47 http://mirror.einval.org/debian sid/main arm64 g++-x86-64-linux-gnu arm64 4:11.2.0-2 [1176 B] Get:48 http://mirror.einval.org/debian sid/main arm64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:49 http://mirror.einval.org/debian sid/main arm64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:50 http://mirror.einval.org/debian sid/main arm64 libicu67 arm64 67.1-7 [8467 kB] Get:51 http://mirror.einval.org/debian sid/main arm64 libxml2 arm64 2.9.12+dfsg-5 [632 kB] Get:52 http://mirror.einval.org/debian sid/main arm64 libxml-namespacesupport-perl all 1.12-1.1 [14.9 kB] Get:53 http://mirror.einval.org/debian sid/main arm64 libxml-sax-base-perl all 1.09-1.1 [20.7 kB] Get:54 http://mirror.einval.org/debian sid/main arm64 libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get:55 http://mirror.einval.org/debian sid/main arm64 libxml-libxml-perl arm64 2.0134+dfsg-2+b1 [326 kB] Get:56 http://mirror.einval.org/debian sid/main arm64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:57 http://mirror.einval.org/debian sid/main arm64 libyaml-perl all 1.30-1 [67.7 kB] Get:58 http://mirror.einval.org/debian sid/main arm64 libconfig-auto-perl all 0.44-1.1 [19.0 kB] Get:59 http://mirror.einval.org/debian sid/main arm64 libfile-which-perl all 1.23-1 [16.6 kB] Get:60 http://mirror.einval.org/debian sid/main arm64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:61 http://mirror.einval.org/debian sid/main arm64 libdebian-dpkgcross-perl all 2.6.18+nmu2 [30.6 kB] Get:62 http://mirror.einval.org/debian sid/main arm64 dpkg-cross all 2.6.18+nmu2 [40.9 kB] Get:63 http://mirror.einval.org/debian sid/main arm64 crossbuild-essential-amd64 all 12.9 [6708 B] Get:64 http://mirror.einval.org/debian sid/main arm64 libdebhelper-perl all 13.5.2 [192 kB] Get:65 http://mirror.einval.org/debian sid/main arm64 libtool all 2.4.6-15 [513 kB] Get:66 http://mirror.einval.org/debian sid/main arm64 dh-autoreconf all 20 [17.1 kB] Get:67 http://mirror.einval.org/debian sid/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get:68 http://mirror.einval.org/debian sid/main arm64 libsub-override-perl all 0.09-2 [10.2 kB] Get:69 http://mirror.einval.org/debian sid/main arm64 libfile-stripnondeterminism-perl all 1.12.0-2 [26.3 kB] Get:70 http://mirror.einval.org/debian sid/main arm64 dh-strip-nondeterminism all 1.12.0-2 [15.5 kB] Get:71 http://mirror.einval.org/debian sid/main arm64 libelf1 arm64 0.185-2 [171 kB] Get:72 http://mirror.einval.org/debian sid/main arm64 dwz arm64 0.14-1 [90.0 kB] Get:73 http://mirror.einval.org/debian sid/main arm64 gettext arm64 0.21-4 [1261 kB] Get:74 http://mirror.einval.org/debian sid/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:75 http://mirror.einval.org/debian sid/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:76 http://mirror.einval.org/debian sid/main arm64 debhelper all 13.5.2 [1056 kB] Get:77 http://mirror.einval.org/debian sid/main amd64 libgcc-s1 amd64 11.2.0-10 [42.0 kB] Get:78 http://mirror.einval.org/debian sid/main amd64 libc6 amd64 2.32-4 [2820 kB] Get:79 http://mirror.einval.org/debian sid/main amd64 libasan6 amd64 11.2.0-10 [2050 kB] Get:80 http://mirror.einval.org/debian sid/main amd64 libatomic1 amd64 11.2.0-10 [9052 B] Get:81 http://mirror.einval.org/debian sid/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:82 http://mirror.einval.org/debian sid/main amd64 libbz2-1.0 amd64 1.0.8-4 [45.8 kB] Get:83 http://mirror.einval.org/debian sid/main amd64 linux-libc-dev amd64 5.14.16-1 [1442 kB] Get:84 http://mirror.einval.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.26-1 [88.9 kB] Get:85 http://mirror.einval.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.26-1 [104 kB] Get:86 http://mirror.einval.org/debian sid/main amd64 libcom-err2 amd64 1.46.4-1 [75.2 kB] Get:87 http://mirror.einval.org/debian sid/main amd64 libkrb5support0 amd64 1.18.3-7 [65.4 kB] Get:88 http://mirror.einval.org/debian sid/main amd64 libk5crypto3 amd64 1.18.3-7 [113 kB] Get:89 http://mirror.einval.org/debian sid/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB] Get:90 http://mirror.einval.org/debian sid/main amd64 libssl1.1 amd64 1.1.1l-1 [1555 kB] Get:91 http://mirror.einval.org/debian sid/main amd64 libkrb5-3 amd64 1.18.3-7 [363 kB] Get:92 http://mirror.einval.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.18.3-7 [165 kB] Get:93 http://mirror.einval.org/debian sid/main amd64 libtirpc3 amd64 1.3.2-2 [83.9 kB] Get:94 http://mirror.einval.org/debian sid/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:95 http://mirror.einval.org/debian sid/main amd64 libtirpc-dev amd64 1.3.2-2 [190 kB] Get:96 http://mirror.einval.org/debian sid/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:97 http://mirror.einval.org/debian sid/main amd64 libc6-dev amd64 2.32-4 [2251 kB] Get:98 http://mirror.einval.org/debian sid/main amd64 libgmp10 amd64 2:6.2.1+dfsg-2 [561 kB] Get:99 http://mirror.einval.org/debian sid/main amd64 libnettle8 amd64 3.7.3-1 [270 kB] Get:100 http://mirror.einval.org/debian sid/main amd64 libhogweed6 amd64 3.7.3-1 [320 kB] Get:101 http://mirror.einval.org/debian sid/main amd64 libunistring2 amd64 0.9.10-6 [384 kB] Get:102 http://mirror.einval.org/debian sid/main amd64 libidn2-0 amd64 2.3.2-2 [95.3 kB] Get:103 http://mirror.einval.org/debian sid/main amd64 libffi8 amd64 3.4.2-3 [24.8 kB] Get:104 http://mirror.einval.org/debian sid/main amd64 libp11-kit0 amd64 0.24.0-5 [346 kB] Get:105 http://mirror.einval.org/debian sid/main amd64 libtasn1-6 amd64 4.17.0-2 [55.2 kB] Get:106 http://mirror.einval.org/debian sid/main amd64 libgnutls30 amd64 3.7.2-2 [1350 kB] Get:107 http://mirror.einval.org/debian sid/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.8 [687 kB] Get:108 http://mirror.einval.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.3 [69.8 kB] Get:109 http://mirror.einval.org/debian sid/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.3 [106 kB] Get:110 http://mirror.einval.org/debian sid/main amd64 libldap-2.4-2 amd64 2.4.59+dfsg-1 [232 kB] Get:111 http://mirror.einval.org/debian sid/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get:112 http://mirror.einval.org/debian sid/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:113 http://mirror.einval.org/debian sid/main amd64 zlib1g amd64 1:1.2.11.dfsg-2 [90.4 kB] Get:114 http://mirror.einval.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:115 http://mirror.einval.org/debian sid/main amd64 libssh2-1 amd64 1.10.0-2 [178 kB] Get:116 http://mirror.einval.org/debian sid/main amd64 libcurl3-gnutls amd64 7.79.1-2 [355 kB] Get:117 http://mirror.einval.org/debian sid/main amd64 libcurl4-gnutls-dev amd64 7.79.1-2 [446 kB] Get:118 http://mirror.einval.org/debian sid/main amd64 libdeflate0 amd64 1.8-1 [53.1 kB] Get:119 http://mirror.einval.org/debian sid/main amd64 libdeflate-dev amd64 1.8-1 [46.7 kB] Get:120 http://mirror.einval.org/debian sid/main amd64 libgomp1 amd64 11.2.0-10 [106 kB] Get:121 http://mirror.einval.org/debian sid/main amd64 libitm1 amd64 11.2.0-10 [26.0 kB] Get:122 http://mirror.einval.org/debian sid/main amd64 liblsan0 amd64 11.2.0-10 [886 kB] Get:123 http://mirror.einval.org/debian sid/main amd64 libtsan0 amd64 11.2.0-10 [2019 kB] Get:124 http://mirror.einval.org/debian sid/main amd64 libstdc++6 amd64 11.2.0-10 [577 kB] Get:125 http://mirror.einval.org/debian sid/main amd64 libubsan1 amd64 11.2.0-10 [835 kB] Get:126 http://mirror.einval.org/debian sid/main amd64 libquadmath0 amd64 11.2.0-10 [145 kB] Get:127 http://mirror.einval.org/debian sid/main amd64 libgcc-11-dev amd64 11.2.0-10 [2357 kB] Get:128 http://mirror.einval.org/debian sid/main amd64 libgkarrays1 amd64 2.1.0+dfsg-4 [56.8 kB] Get:129 http://mirror.einval.org/debian sid/main amd64 libgkarrays-dev amd64 2.1.0+dfsg-4 [85.2 kB] Get:130 http://mirror.einval.org/debian sid/main arm64 libglib2.0-0 arm64 2.70.1-1 [1311 kB] Get:131 http://mirror.einval.org/debian sid/main amd64 libgzstream0 amd64 1.5+git20171107.9a20658-1+b1 [7236 B] Get:132 http://mirror.einval.org/debian sid/main amd64 libgzstream-dev amd64 1.5+git20171107.9a20658-1+b1 [7380 B] Get:133 http://mirror.einval.org/debian sid/main amd64 libhtscodecs2 amd64 1.1.1-3+b1 [50.1 kB] Get:134 http://mirror.einval.org/debian sid/main amd64 liblzma5 amd64 5.2.5-2 [168 kB] Get:135 http://mirror.einval.org/debian sid/main amd64 libhts3 amd64 1.13+ds-2 [395 kB] Get:136 http://mirror.einval.org/debian sid/main amd64 liblzma-dev amd64 5.2.5-2 [229 kB] Get:137 http://mirror.einval.org/debian sid/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get:138 http://mirror.einval.org/debian sid/main amd64 libhts-dev amd64 1.13+ds-2 [4086 kB] Get:139 http://mirror.einval.org/debian sid/main amd64 libjellyfish-2.0-2 amd64 2.3.0-12 [65.1 kB] Get:140 http://mirror.einval.org/debian sid/main amd64 libjellyfish-2.0-dev amd64 2.3.0-12 [137 kB] Get:141 http://mirror.einval.org/debian sid/main amd64 libstdc++-11-dev amd64 11.2.0-10 [1952 kB] Get:142 http://mirror.einval.org/debian sid/main arm64 pkg-config arm64 0.29.2-1 [63.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 227 MB in 3s (83.1 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 12318 files and directories currently installed.) Preparing to unpack .../000-bsdextrautils_2.37.2-4_arm64.deb ... Unpacking bsdextrautils (2.37.2-4) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../001-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../002-groff-base_1.22.4-7_arm64.deb ... Unpacking groff-base (1.22.4-7) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../003-libpipeline1_1.5.4-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.4-1) ... Selecting previously unselected package man-db. Preparing to unpack .../004-man-db_2.9.4-2_arm64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../005-liblocale-gettext-perl_1.07-4+b1_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-4+b1) ... Selecting previously unselected package libpopt0:arm64. Preparing to unpack .../006-libpopt0_1.18-3_arm64.deb ... Unpacking libpopt0:arm64 (1.18-3) ... Selecting previously unselected package rsync. Preparing to unpack .../007-rsync_3.2.3-8_arm64.deb ... Unpacking rsync (3.2.3-8) ... Selecting previously unselected package gcc-11-base:amd64. Preparing to unpack .../008-gcc-11-base_11.2.0-10_amd64.deb ... Unpacking gcc-11-base:amd64 (11.2.0-10) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../009-sensible-utils_0.0.17_all.deb ... Unpacking sensible-utils (0.0.17) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../010-libmagic-mgc_1%3a5.39-3_arm64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../011-libmagic1_1%3a5.39-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../012-file_1%3a5.39-3_arm64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../013-gettext-base_0.21-4_arm64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package ucf. Preparing to unpack .../014-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../015-libsigsegv2_2.13-1_arm64.deb ... Unpacking libsigsegv2:arm64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../016-m4_1.4.18-5_arm64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../017-autoconf_2.71-2_all.deb ... Unpacking autoconf (2.71-2) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../018-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../019-automake_1%3a1.16.5-1_all.deb ... Unpacking automake (1:1.16.5-1) ... Selecting previously unselected package autopoint. Preparing to unpack .../020-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package gcc-11-x86-64-linux-gnu-base:arm64. Preparing to unpack .../021-gcc-11-x86-64-linux-gnu-base_11.2.0-9cross1_arm64.deb ... Unpacking gcc-11-x86-64-linux-gnu-base:arm64 (11.2.0-9cross1) ... Selecting previously unselected package cpp-11-x86-64-linux-gnu. Preparing to unpack .../022-cpp-11-x86-64-linux-gnu_11.2.0-9cross1_arm64.deb ... Unpacking cpp-11-x86-64-linux-gnu (11.2.0-9cross1) ... Selecting previously unselected package cpp-x86-64-linux-gnu. Preparing to unpack .../023-cpp-x86-64-linux-gnu_4%3a11.2.0-2_arm64.deb ... Unpacking cpp-x86-64-linux-gnu (4:11.2.0-2) ... Selecting previously unselected package cross-config. Preparing to unpack .../024-cross-config_2.6.18+nmu2_all.deb ... Unpacking cross-config (2.6.18+nmu2) ... Selecting previously unselected package binutils-x86-64-linux-gnu. Preparing to unpack .../025-binutils-x86-64-linux-gnu_2.37-8_arm64.deb ... Unpacking binutils-x86-64-linux-gnu (2.37-8) ... Selecting previously unselected package gcc-11-cross-base. Preparing to unpack .../026-gcc-11-cross-base_11.2.0-9cross1_all.deb ... Unpacking gcc-11-cross-base (11.2.0-9cross1) ... Selecting previously unselected package libgcc-s1-amd64-cross. Preparing to unpack .../027-libgcc-s1-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libgcc-s1-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libgomp1-amd64-cross. Preparing to unpack .../028-libgomp1-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libgomp1-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libitm1-amd64-cross. Preparing to unpack .../029-libitm1-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libitm1-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libatomic1-amd64-cross. Preparing to unpack .../030-libatomic1-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libatomic1-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libasan6-amd64-cross. Preparing to unpack .../031-libasan6-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libasan6-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package liblsan0-amd64-cross. Preparing to unpack .../032-liblsan0-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking liblsan0-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libtsan0-amd64-cross. Preparing to unpack .../033-libtsan0-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libtsan0-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libc6-amd64-cross. Preparing to unpack .../034-libc6-amd64-cross_2.32-1cross4_all.deb ... Unpacking libc6-amd64-cross (2.32-1cross4) ... Selecting previously unselected package libstdc++6-amd64-cross. Preparing to unpack .../035-libstdc++6-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libstdc++6-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libubsan1-amd64-cross. Preparing to unpack .../036-libubsan1-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libubsan1-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libquadmath0-amd64-cross. Preparing to unpack .../037-libquadmath0-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libquadmath0-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package libgcc-11-dev-amd64-cross. Preparing to unpack .../038-libgcc-11-dev-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libgcc-11-dev-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package gcc-11-x86-64-linux-gnu. Preparing to unpack .../039-gcc-11-x86-64-linux-gnu_11.2.0-9cross1_arm64.deb ... Unpacking gcc-11-x86-64-linux-gnu (11.2.0-9cross1) ... Selecting previously unselected package gcc-x86-64-linux-gnu. Preparing to unpack .../040-gcc-x86-64-linux-gnu_4%3a11.2.0-2_arm64.deb ... Unpacking gcc-x86-64-linux-gnu (4:11.2.0-2) ... Selecting previously unselected package linux-libc-dev-amd64-cross. Preparing to unpack .../041-linux-libc-dev-amd64-cross_5.10.46-4cross4_all.deb ... Unpacking linux-libc-dev-amd64-cross (5.10.46-4cross4) ... Selecting previously unselected package libc6-dev-amd64-cross. Preparing to unpack .../042-libc6-dev-amd64-cross_2.32-1cross4_all.deb ... Unpacking libc6-dev-amd64-cross (2.32-1cross4) ... Selecting previously unselected package libstdc++-11-dev-amd64-cross. Preparing to unpack .../043-libstdc++-11-dev-amd64-cross_11.2.0-9cross1_all.deb ... Unpacking libstdc++-11-dev-amd64-cross (11.2.0-9cross1) ... Selecting previously unselected package g++-11-x86-64-linux-gnu. Preparing to unpack .../044-g++-11-x86-64-linux-gnu_11.2.0-9cross1_arm64.deb ... Unpacking g++-11-x86-64-linux-gnu (11.2.0-9cross1) ... Selecting previously unselected package g++-x86-64-linux-gnu. Preparing to unpack .../045-g++-x86-64-linux-gnu_4%3a11.2.0-2_arm64.deb ... Unpacking g++-x86-64-linux-gnu (4:11.2.0-2) ... Selecting previously unselected package libconfig-inifiles-perl. Preparing to unpack .../046-libconfig-inifiles-perl_3.000003-1_all.deb ... Unpacking libconfig-inifiles-perl (3.000003-1) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../047-libio-string-perl_1.08-3.1_all.deb ... Unpacking libio-string-perl (1.08-3.1) ... Selecting previously unselected package libicu67:arm64. Preparing to unpack .../048-libicu67_67.1-7_arm64.deb ... Unpacking libicu67:arm64 (67.1-7) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../049-libxml2_2.9.12+dfsg-5_arm64.deb ... Unpacking libxml2:arm64 (2.9.12+dfsg-5) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../050-libxml-namespacesupport-perl_1.12-1.1_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-1.1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../051-libxml-sax-base-perl_1.09-1.1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1.1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../052-libxml-sax-perl_1.02+dfsg-3_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-3) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../053-libxml-libxml-perl_2.0134+dfsg-2+b1_arm64.deb ... Unpacking libxml-libxml-perl (2.0134+dfsg-2+b1) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../054-libxml-simple-perl_2.25-1_all.deb ... Unpacking libxml-simple-perl (2.25-1) ... Selecting previously unselected package libyaml-perl. Preparing to unpack .../055-libyaml-perl_1.30-1_all.deb ... Unpacking libyaml-perl (1.30-1) ... Selecting previously unselected package libconfig-auto-perl. Preparing to unpack .../056-libconfig-auto-perl_0.44-1.1_all.deb ... Unpacking libconfig-auto-perl (0.44-1.1) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../057-libfile-which-perl_1.23-1_all.deb ... Unpacking libfile-which-perl (1.23-1) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../058-libfile-homedir-perl_1.006-1_all.deb ... Unpacking libfile-homedir-perl (1.006-1) ... Selecting previously unselected package libdebian-dpkgcross-perl. Preparing to unpack .../059-libdebian-dpkgcross-perl_2.6.18+nmu2_all.deb ... Unpacking libdebian-dpkgcross-perl (2.6.18+nmu2) ... Selecting previously unselected package dpkg-cross. Preparing to unpack .../060-dpkg-cross_2.6.18+nmu2_all.deb ... Unpacking dpkg-cross (2.6.18+nmu2) ... Selecting previously unselected package crossbuild-essential-amd64. Preparing to unpack .../061-crossbuild-essential-amd64_12.9_all.deb ... Unpacking crossbuild-essential-amd64 (12.9) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../062-libdebhelper-perl_13.5.2_all.deb ... Unpacking libdebhelper-perl (13.5.2) ... Selecting previously unselected package libtool. Preparing to unpack .../063-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../064-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../065-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../066-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. 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Setting up libxml-libxml-perl (2.0134+dfsg-2+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libstdc++-11-dev-amd64-cross (11.2.0-9cross1) ... Setting up g++-11-x86-64-linux-gnu (11.2.0-9cross1) ... Setting up gcc-x86-64-linux-gnu (4:11.2.0-2) ... Setting up debhelper (13.5.2) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-x86-64-linux-gnu (4:11.2.0-2) ... Setting up libconfig-auto-perl (0.44-1.1) ... Setting up libdebian-dpkgcross-perl (2.6.18+nmu2) ... Setting up dpkg-cross (2.6.18+nmu2) ... Setting up crossbuild-essential-amd64 (12.9) ... Setting up libgcc-s1:amd64 (11.2.0-10) ... Setting up libc6:amd64 (2.32-4) ... Setting up libffi8:amd64 (3.4.2-3) ... 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Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.3) ... Setting up libjellyfish-2.0-2:amd64 (2.3.0-12) ... Setting up libnettle8:amd64 (3.7.3-1) ... Setting up libgmp10:amd64 (2:6.2.1+dfsg-2) ... Setting up libquadmath0:amd64 (11.2.0-10) ... Setting up libp11-kit0:amd64 (0.24.0-5) ... Setting up libatomic1:amd64 (11.2.0-10) ... Setting up libk5crypto3:amd64 (1.18.3-7) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.3) ... Setting up libgzstream0:amd64 (1.5+git20171107.9a20658-1+b1) ... Setting up liblzma-dev:amd64 (5.2.5-2) ... Setting up libubsan1:amd64 (11.2.0-10) ... Setting up libgcc-11-dev:amd64 (11.2.0-10) ... Setting up libcrypt-dev:amd64 (1:4.4.26-1) ... Setting up libssh2-1:amd64 (1.10.0-2) ... Setting up libkrb5-3:amd64 (1.18.3-7) ... Setting up libdeflate-dev:amd64 (1.8-1) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up libhogweed6:amd64 (3.7.3-1) ... Setting up libgkarrays1:amd64 (2.1.0+dfsg-4) ... Setting up libjellyfish-2.0-dev:amd64 (2.3.0-12) ... Setting up libgkarrays-dev:amd64 (2.1.0+dfsg-4) ... Setting up libgzstream-dev:amd64 (1.5+git20171107.9a20658-1+b1) ... Setting up libgnutls30:amd64 (3.7.2-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libgssapi-krb5-2:amd64 (1.18.3-7) ... Setting up libtirpc3:amd64 (1.3.2-2) ... Setting up libldap-2.4-2:amd64 (2.4.59+dfsg-1) ... Setting up libcurl3-gnutls:amd64 (7.79.1-2) ... Setting up libcurl4-gnutls-dev:amd64 (7.79.1-2) ... Setting up libtirpc-dev:amd64 (1.3.2-2) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libhts3:amd64 (1.13+ds-2) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libc6-dev:amd64 (2.32-4) ... Setting up libstdc++-11-dev:amd64 (11.2.0-10) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up libhts-dev:amd64 (1.13+ds-2) ... Setting up sbuild-build-depends-main-dummy:amd64 (0.invalid.0) ... Processing triggers for libc-bin (2.32-4) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.9.0-0.bpo.2-arm64 #1 SMP Debian 5.9.6-1~bpo10+1 (2020-11-19) arm64 (aarch64) Toolchain package versions: binutils_2.37-8 dpkg-dev_1.20.9 g++-11_11.2.0-10 gcc-11_11.2.0-10 libc6-dev_2.32-4 libstdc++-11-dev_11.2.0-10 libstdc++-11-dev-amd64-cross_11.2.0-9cross1 libstdc++6_11.2.0-10 libstdc++6-amd64-cross_11.2.0-9cross1 linux-libc-dev_5.14.16-1 Package versions: adduser_3.118 apt_2.3.11 autoconf_2.71-2 automake_1:1.16.5-1 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_12 base-passwd_3.5.52 bash_5.1-3.1 binutils_2.37-8 binutils-aarch64-linux-gnu_2.37-8 binutils-common_2.37-8 binutils-x86-64-linux-gnu_2.37-8 bsdextrautils_2.37.2-4 bsdutils_1:2.37.2-4 build-essential_12.9 bzip2_1.0.8-4 coreutils_8.32-4.1 cpp_4:11.2.0-2 cpp-11_11.2.0-10 cpp-11-x86-64-linux-gnu_11.2.0-9cross1 cpp-x86-64-linux-gnu_4:11.2.0-2 cross-config_2.6.18+nmu2 crossbuild-essential-amd64_12.9 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79 debhelper_13.5.2 debian-archive-keyring_2021.1.1 debianutils_5.5-1 dh-autoreconf_20 dh-strip-nondeterminism_1.12.0-2 diffutils_1:3.7-5 dpkg_1.20.9 dpkg-cross_2.6.18+nmu2 dpkg-dev_1.20.9 dwz_0.14-1 fakeroot_1.26-1 file_1:5.39-3 findutils_4.8.0-1 g++_4:11.2.0-2 g++-11_11.2.0-10 g++-11-x86-64-linux-gnu_11.2.0-9cross1 g++-x86-64-linux-gnu_4:11.2.0-2 gcc_4:11.2.0-2 gcc-10-base_10.3.0-12 gcc-11_11.2.0-10 gcc-11-base_11.2.0-10 gcc-11-cross-base_11.2.0-9cross1 gcc-11-x86-64-linux-gnu_11.2.0-9cross1 gcc-11-x86-64-linux-gnu-base_11.2.0-9cross1 gcc-x86-64-linux-gnu_4:11.2.0-2 gettext_0.21-4 gettext-base_0.21-4 gpgv_2.2.27-2 grep_3.7-1 groff-base_1.22.4-7 gzip_1.10-4 hostname_3.23 init-system-helpers_1.60 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libapt-pkg6.0_2.3.11 libarchive-zip-perl_1.68-1 libasan6_11.2.0-10 libasan6-amd64-cross_11.2.0-9cross1 libatomic1_11.2.0-10 libatomic1-amd64-cross_11.2.0-9cross1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.6-1 libaudit1_1:3.0.6-1 libbinutils_2.37-8 libblkid1_2.37.2-4 libbrotli1_1.0.9-2+b2 libbz2-1.0_1.0.8-4 libc-bin_2.32-4 libc-dev-bin_2.32-4 libc6_2.32-4 libc6-amd64-cross_2.32-1cross4 libc6-dev_2.32-4 libc6-dev-amd64-cross_2.32-1cross4 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-10 libcom-err2_1.46.4-1 libconfig-auto-perl_0.44-1.1 libconfig-inifiles-perl_3.000003-1 libcrypt-dev_1:4.4.26-1 libcrypt1_1:4.4.26-1 libctf-nobfd0_2.37-8 libctf0_2.37-8 libcurl3-gnutls_7.79.1-2 libcurl4-gnutls-dev_7.79.1-2 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.261 libdebhelper-perl_13.5.2 libdebian-dpkgcross-perl_2.6.18+nmu2 libdeflate-dev_1.8-1 libdeflate0_1.8-1 libdpkg-perl_1.20.9 libelf1_0.185-2 libfakeroot_1.26-1 libffi8_3.4.2-3 libfile-homedir-perl_1.006-1 libfile-stripnondeterminism-perl_1.12.0-2 libfile-which-perl_1.23-1 libgcc-11-dev_11.2.0-10 libgcc-11-dev-amd64-cross_11.2.0-9cross1 libgcc-s1_11.2.0-10 libgcc-s1-amd64-cross_11.2.0-9cross1 libgcrypt20_1.9.4-3+b1 libgdbm-compat4_1.22-1 libgdbm6_1.22-1 libgkarrays-dev_2.1.0+dfsg-4 libgkarrays1_2.1.0+dfsg-4 libglib2.0-0_2.70.1-1 libgmp10_2:6.2.1+dfsg-2 libgnutls30_3.7.2-2 libgomp1_11.2.0-10 libgomp1-amd64-cross_11.2.0-9cross1 libgpg-error0_1.42-3 libgssapi-krb5-2_1.18.3-7 libgzstream-dev_1.5+git20171107.9a20658-1+b1 libgzstream0_1.5+git20171107.9a20658-1+b1 libhogweed6_3.7.3-1 libhts-dev_1.13+ds-2 libhts3_1.13+ds-2 libhtscodecs2_1.1.1-3+b1 libhwasan0_11.2.0-10 libicu67_67.1-7 libidn2-0_2.3.2-2 libio-string-perl_1.08-3.1 libisl23_0.24-2 libitm1_11.2.0-10 libitm1-amd64-cross_11.2.0-9cross1 libjellyfish-2.0-2_2.3.0-12 libjellyfish-2.0-dev_2.3.0-12 libk5crypto3_1.18.3-7 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-7 libkrb5support0_1.18.3-7 libldap-2.4-2_2.4.59+dfsg-1 liblocale-gettext-perl_1.07-4+b1 liblsan0_11.2.0-10 liblsan0-amd64-cross_11.2.0-9cross1 liblz4-1_1.9.3-2 liblzma-dev_5.2.5-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.39-3 libmagic1_1:5.39-3 libmount1_2.37.2-4 libmpc3_1.2.1-1 libmpfr6_4.1.0-3 libnettle8_3.7.3-1 libnghttp2-14_1.43.0-1 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.0-5 libpam-modules_1.4.0-10 libpam-modules-bin_1.4.0-10 libpam-runtime_1.4.0-10 libpam0g_1.4.0-10 libpcre2-8-0_10.39-2 libpcre3_2:8.39-13 libperl5.32_5.32.1-6 libpipeline1_1.5.4-1 libpopt0_1.18-3 libpsl5_0.21.0-1.2 libquadmath0_11.2.0-10 libquadmath0-amd64-cross_11.2.0-9cross1 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.27+dfsg-2.3 libsasl2-modules-db_2.1.27+dfsg-2.3 libseccomp2_2.5.2-2 libselinux1_3.3-1 libsemanage-common_3.3-1 libsemanage2_3.3-1 libsepol2_3.3-1 libsigsegv2_2.13-1 libsmartcols1_2.37.2-4 libssh2-1_1.10.0-2 libssl1.1_1.1.1l-1 libstdc++-11-dev_11.2.0-10 libstdc++-11-dev-amd64-cross_11.2.0-9cross1 libstdc++6_11.2.0-10 libstdc++6-amd64-cross_11.2.0-9cross1 libsub-override-perl_0.09-2 libsystemd0_249.6-1 libtasn1-6_4.17.0-2 libtinfo6_6.2+20210905-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15 libtsan0_11.2.0-10 libtsan0-amd64-cross_11.2.0-9cross1 libubsan1_11.2.0-10 libubsan1-amd64-cross_11.2.0-9cross1 libuchardet0_0.0.7-1 libudev1_249.6-1 libunistring2_0.9.10-6 libuuid1_2.37.2-4 libxml-libxml-perl_2.0134+dfsg-2+b1 libxml-namespacesupport-perl_1.12-1.1 libxml-sax-base-perl_1.09-1.1 libxml-sax-perl_1.02+dfsg-3 libxml-simple-perl_2.25-1 libxml2_2.9.12+dfsg-5 libxxhash0_0.8.0-2 libyaml-perl_1.30-1 libzstd1_1.4.8+dfsg-3 linux-libc-dev_5.14.16-1 linux-libc-dev-amd64-cross_5.10.46-4cross4 login_1:4.8.1-2 lsb-base_11.1.0 m4_1.4.18-5 make_4.3-4.1 man-db_2.9.4-2 mawk_1.3.4.20200120-2 mount_2.37.2-4 ncurses-base_6.2+20210905-1 ncurses-bin_6.2+20210905-1 passwd_1:4.8.1-2 patch_2.7.6-7 perl_5.32.1-6 perl-base_5.32.1-6 perl-modules-5.32_5.32.1-6 pkg-config_0.29.2-1 po-debconf_1.0.21+nmu1 rpcsvc-proto_1.4.2-4 rsync_3.2.3-8 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.00-1 tar_1.34+dfsg-1 tzdata_2021e-1 ucf_3.0043 util-linux_2.37.2-4 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: crac Binary: crac Architecture: any Version: 2.5.2+dfsg-5 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Nilesh Patra Homepage: https://crac.gforge.inria.fr/ Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/crac Vcs-Git: https://salsa.debian.org/med-team/crac.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev, libhts-dev, libjellyfish-2.0-dev, libgzstream-dev, libgkarrays-dev, pkg-config, rsync Package-List: crac deb science optional arch=any Checksums-Sha1: 3a29c15452fb1337fc2d5336a0a00ff72512e21f 658188 crac_2.5.2+dfsg.orig.tar.xz f58c67f600cbece333557be64a2556a09b8fd509 15060 crac_2.5.2+dfsg-5.debian.tar.xz Checksums-Sha256: 66198b60f8bebb4d923a1230231949f8c7dc1adce92176b45f041726496c69fd 658188 crac_2.5.2+dfsg.orig.tar.xz 5acd56ec96ecffcefe04b31ec8a940565544b5e633db302e56ca8eb691e1957c 15060 crac_2.5.2+dfsg-5.debian.tar.xz Files: a58db6dc3a449b7dd4bea567bbb7233a 658188 crac_2.5.2+dfsg.orig.tar.xz 55b2051e000b1fe2ec859733b8b7f64b 15060 crac_2.5.2+dfsg-5.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmGIRjERHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEILg//Zi3ThK7zxGQ8eKs4PKS+n7jmpPrK40ZX xex16NyKXWTXFPMjIl4aisza1E5q9xEpxO8zqOzgzWlY6+ooneOIR3/XS6NOnNG/ 2QzoNA6R5e5UXrynVaDOTOg97YZNzuTG7KU1hdFAr0MYJ0S2Eaww67xN5aWqWMLD qmP7hvTMYXX1oVZ4kUzLSl/n6za8vcgLHzQ7uhh6C6SZJ5kiJgYsTr/v64WK2Rtt fRFTlscqype4m27L859mUHtUvPPSYc9kA4j5EAYO+pJajeLaLJ7F+EedLYMssgjn zCQGNQmdimFCOEdhzwvwPRRQG3NmpeFlZscc/vW8joUbuazlllw5oTrYzrqCBrHV A55xRAxG0/BO35HbLKNminu5cavwT0TPs8i6blFOUpsXe/CW9BVZdhvrjTyAyTDp iWw0p8wFYj5fclPmbDdyP0vYYyIvFcRMOyqZ60zT4dEXLd8lQ+PTl3ohR1LPePT3 5CB2aoJIu4FK/9NKED0I73Jwt2f8Tbd7i0bogrVAakOQhT8OlOtpASN7PXx88zRz tEHWrKF0DBOZHqAUZzdAPnl5DQPF0kF64+6f0uuIJEQ050ss6nidEdZ8Zh6yDtW6 Zqw4jFL6Tx5jifQlCti5tc+IEUrVVsM++Cszvo1dBckhwCIzMm4KD+cvzukleYYw CcH6lofYf8k= =woPT -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.rzmxElbr/trustedkeys.kbx': General error gpgv: Signature made Sun Nov 7 21:33:37 2021 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./crac_2.5.2+dfsg-5.dsc dpkg-source: info: extracting crac in /<> dpkg-source: info: unpacking crac_2.5.2+dfsg.orig.tar.xz dpkg-source: info: unpacking crac_2.5.2+dfsg-5.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 Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ ulimit -c --------- 0 I: Finished running 'ulimit -c'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.amd64 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmutg PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=crossqa-sid SCHROOT_CHROOT_NAME=crossqa-sid SCHROOT_COMMAND=env SCHROOT_GID=1002 SCHROOT_GROUP=helmutg SCHROOT_SESSION_ID=crossqa-sid-25f0678d-dac6-4463-a85f-81857660d792 SCHROOT_UID=1002 SCHROOT_USER=helmutg SHELL=/bin/sh USER=helmutg dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aamd64 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package crac dpkg-buildpackage: info: source version 2.5.2+dfsg-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type x86_64-linux-gnu does not match CC system type aarch64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a 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 -a ./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/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --host=x86_64-linux-gnu configure: loading site script /etc/dpkg-cross/cross-config.amd64 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for x86_64-linux-gnu-strip... x86_64-linux-gnu-strip checking for a race-free mkdir -p... /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 build system type... aarch64-unknown-linux-gnu checking host system type... x86_64-pc-linux-gnu checking for gawk... (cached) mawk checking for x86_64-linux-gnu-gcc... x86_64-linux-gnu-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... yes checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether x86_64-linux-gnu-gcc accepts -g... yes checking for x86_64-linux-gnu-gcc option to enable C11 features... none needed checking whether x86_64-linux-gnu-gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of x86_64-linux-gnu-gcc... none checking for x86_64-linux-gnu-g++... x86_64-linux-gnu-g++ checking whether the compiler supports GNU C++... yes checking whether x86_64-linux-gnu-g++ accepts -g... yes checking for x86_64-linux-gnu-g++ option to enable C++11 features... none needed checking dependency style of x86_64-linux-gnu-g++... none checking how to run the C preprocessor... x86_64-linux-gnu-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... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by x86_64-linux-gnu-gcc... /usr/x86_64-linux-gnu/bin/ld checking if the linker (/usr/x86_64-linux-gnu/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/x86_64-linux-gnu-nm -B checking the name lister (/usr/bin/x86_64-linux-gnu-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 x86_64-pc-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/x86_64-linux-gnu/bin/ld option to reload object files... -r checking for x86_64-linux-gnu-objdump... x86_64-linux-gnu-objdump checking how to recognize dependent libraries... pass_all checking for x86_64-linux-gnu-dlltool... no checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for x86_64-linux-gnu-ar... x86_64-linux-gnu-ar checking for archiver @FILE support... @ checking for x86_64-linux-gnu-strip... (cached) x86_64-linux-gnu-strip checking for x86_64-linux-gnu-ranlib... x86_64-linux-gnu-ranlib checking command to parse /usr/bin/x86_64-linux-gnu-nm -B output from x86_64-linux-gnu-gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for x86_64-linux-gnu-mt... no 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 x86_64-linux-gnu-gcc supports -fno-rtti -fno-exceptions... no checking for x86_64-linux-gnu-gcc option to produce PIC... -fPIC -DPIC checking if x86_64-linux-gnu-gcc PIC flag -fPIC -DPIC works... yes checking if x86_64-linux-gnu-gcc static flag -static works... yes checking if x86_64-linux-gnu-gcc supports -c -o file.o... yes checking if x86_64-linux-gnu-gcc supports -c -o file.o... (cached) yes checking whether the x86_64-linux-gnu-gcc linker (/usr/x86_64-linux-gnu/bin/ld -m elf_x86_64) 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... x86_64-linux-gnu-g++ -E checking for ld used by x86_64-linux-gnu-g++... /usr/x86_64-linux-gnu/bin/ld -m elf_x86_64 checking if the linker (/usr/x86_64-linux-gnu/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the x86_64-linux-gnu-g++ linker (/usr/x86_64-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes checking for x86_64-linux-gnu-g++ option to produce PIC... -fPIC -DPIC checking if x86_64-linux-gnu-g++ PIC flag -fPIC -DPIC works... yes checking if x86_64-linux-gnu-g++ static flag -static works... yes checking if x86_64-linux-gnu-g++ supports -c -o file.o... yes checking if x86_64-linux-gnu-g++ supports -c -o file.o... (cached) yes checking whether the x86_64-linux-gnu-g++ linker (/usr/x86_64-linux-gnu/bin/ld -m elf_x86_64) 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 x86_64-linux-gnu-gcc... (cached) /usr/x86_64-linux-gnu/bin/ld checking if the linker (/usr/x86_64-linux-gnu/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... 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 (cached) yes checking for GNU libc compatible realloc... (cached) 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 x86_64-linux-gnu-pkg-config... /usr/bin/x86_64-linux-gnu-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 -a make -j1 make[1]: Entering directory '/<>' Making all in src make[2]: Entering directory '/<>/src' Making all in libReadsInfo make[3]: Entering directory '/<>/src/libReadsInfo' x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-BioTagIndelInfo.o `test -f 'BioTagIndelInfo.cpp' || echo './'`BioTagIndelInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-BioUndeterminedInfo.o `test -f 'BioUndeterminedInfo.cpp' || echo './'`BioUndeterminedInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-cigarTypes.o `test -f 'cigarTypes.cpp' || echo './'`cigarTypes.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-Cigar.o `test -f 'Cigar.cpp' || echo './'`Cigar.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-DuplicationInfo.o `test -f 'DuplicationInfo.cpp' || echo './'`DuplicationInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-genericInfo.o `test -f 'genericInfo.cpp' || echo './'`genericInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-IndelInfo.o `test -f 'IndelInfo.cpp' || echo './'`IndelInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-repetitionInfo.o `test -f 'repetitionInfo.cpp' || echo './'`repetitionInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SeqErrInfo.o `test -f 'SeqErrInfo.cpp' || echo './'`SeqErrInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SNPInfo.o `test -f 'SNPInfo.cpp' || echo './'`SNPInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceInfo.o `test -f 'SpliceInfo.cpp' || echo './'`SpliceInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceInterInfo.o `test -f 'SpliceInterInfo.cpp' || echo './'`SpliceInterInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceIntraInfo.o `test -f 'SpliceIntraInfo.cpp' || echo './'`SpliceIntraInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceNoCoverInfo.o `test -f 'SpliceNoCoverInfo.cpp' || echo './'`SpliceNoCoverInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SplicingInfo.o `test -f 'SplicingInfo.cpp' || echo './'`SplicingInfo.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-samLine.o `test -f 'samLine.cpp' || echo './'`samLine.cpp In file included from /usr/x86_64-linux-gnu/include/string.h:519, from /usr/include/htslib/kstring.h:31, from /usr/include/htslib/hts.h:37, from /usr/include/htslib/sam.h:33, from samLine.h:59, from samLine.cpp:52: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘CharOptionalField::CharOptionalField(const char*, char)’ at samLine.cpp:91:34: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, int)’ at samLine.cpp:117:34: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, uint)’ at samLine.cpp:121:34: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘StringOptionalField::StringOptionalField(const char*, std::string)’ at samLine.cpp:147:34: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘StringOptionalField::StringOptionalField(const char*, char*)’ at samLine.cpp:150:34: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘CharOptionalField::CharOptionalField(const char*, char)’ at samLine.cpp:91:34, inlined from ‘void SamLine::addOptionalField(const char*, char)’ at samLine.cpp:476:68: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, int)’ at samLine.cpp:117:34, inlined from ‘void SamLine::addOptionalField(const char*, int)’ at samLine.cpp:485:67: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, uint)’ at samLine.cpp:121:34, inlined from ‘void SamLine::addOptionalField(const char*, uint)’ at samLine.cpp:494:67: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘StringOptionalField::StringOptionalField(const char*, std::string)’ at samLine.cpp:147:34, inlined from ‘void SamLine::addOptionalField(const char*, const string&)’ at samLine.cpp:503:70: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘StringOptionalField::StringOptionalField(const char*, std::string)’ at samLine.cpp:147:34, inlined from ‘void SamLine::addOptionalField(const char*, const char*)’ at samLine.cpp:512:70: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:91:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 91 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-samHeader.o `test -f 'samHeader.cpp' || echo './'`samHeader.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); | ~~~~~~~~~~~~~^~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-bamUtils.o `test -f 'bamUtils.cpp' || echo './'`bamUtils.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-tagInfo.o `test -f 'tagInfo.cpp' || echo './'`tagInfo.cpp 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -I/<>/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-undeterminedErrorInfo.o `test -f 'undeterminedErrorInfo.cpp' || echo './'`undeterminedErrorInfo.cpp rm -f libReadsInfo.a x86_64-linux-gnu-ar cru 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 x86_64-linux-gnu-ar: `u' modifier ignored since `D' is the default (see `U') x86_64-linux-gnu-ranlib libReadsInfo.a make[3]: Leaving directory '/<>/src/libReadsInfo' Making all in libSSA make[3]: Entering directory '/<>/src/libSSA' x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cracIndex.o cracIndex.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 /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/basic/basic_holder.h: In function ‘void seqan::setValue(seqan::Holder&, TValue&)’: ./seqan/basic/basic_holder.h:1001:66: warning: typedef ‘THolderType’ locally defined but not used [-Wunused-local-typedefs] 1001 | typedef typename Value >::Type THolderType; | ^~~~~~~~~~~ ./seqan/basic/basic_holder.h: In function ‘typename seqan::Reference >::Type seqan::value(seqan::Holder&)’: ./seqan/basic/basic_holder.h:1027:66: warning: typedef ‘THolderType’ locally defined but not used [-Wunused-local-typedefs] 1027 | typedef typename Value >::Type THolderType; | ^~~~~~~~~~~ ./seqan/basic/basic_holder.h: In function ‘void seqan::assignValue(seqan::Holder&, const TSource&)’: ./seqan/basic/basic_holder.h:1051:66: warning: typedef ‘THostValue’ locally defined but not used [-Wunused-local-typedefs] 1051 | typedef typename Value >::Type THostValue; | ^~~~~~~~~~ In file included from ./seqan/sequence.h:38, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/lexical.h: In function ‘void seqan::compare_(seqan::Lexical&, TLeft&, TRight&)’: ./seqan/sequence/lexical.h:239:45: warning: typedef ‘TLeftValue’ locally defined but not used [-Wunused-local-typedefs] 239 | typedef typename Value::Type TLeftValue; | ^~~~~~~~~~ In file included from ./seqan/sequence.h:51, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSource&, seqan::Tag)’: ./seqan/sequence/string_base.h:811:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 811 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSource&, TSize, seqan::Tag)’: ./seqan/sequence/string_base.h:821:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 821 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSourceValue*, seqan::Tag)’: ./seqan/sequence/string_base.h:834:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 834 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSourceValue*, TSize, seqan::Tag)’: ./seqan/sequence/string_base.h:844:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 844 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, const TSource&, seqan::Tag)’: ./seqan/sequence/string_base.h:1044:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1044 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, const TSource&, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1056:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1056 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, TSourceValue*, seqan::Tag)’: ./seqan/sequence/string_base.h:1070:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1070 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, TSourceValue*, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1082:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1082 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSource&, seqan::Tag)’: ./seqan/sequence/string_base.h:1249:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1249 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSource&, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1263:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1263 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSourceValue*, seqan::Tag)’: ./seqan/sequence/string_base.h:1279:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1279 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSourceValue*, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1293:51: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1293 | typedef String TTarget; | ^~~~~~~ In file included from ./seqan/sequence.h:53, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_alloc.h: In function ‘typename seqan::Size > >::Type seqan::reserve(seqan::String >&, _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 > >::Type TSize; | ^~~~~ In file included from ./seqan/sequence.h:57, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_packed.h: In static member function ‘static typename seqan::Size::Type seqan::_ClearSpace_String_Packed_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type)’: ./seqan/sequence/string_packed.h:594:62: warning: typedef ‘TIterator’ locally defined but not used [-Wunused-local-typedefs] 594 | typedef typename Iterator::Type TIterator; | ^~~~~~~~~ ./seqan/sequence/string_packed.h: In function ‘typename seqan::Size > >::Type seqan::reserve(seqan::String >&, _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 > >::Type TSize; | ^~~~~ In file included from ./seqan/sequence.h:62, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/sequence_multiple.h: In function ‘void seqan::subset(seqan::StringSet > >&, seqan::StringSet > >&, TIds, TLength)’: ./seqan/sequence/sequence_multiple.h:1647:55: warning: typedef ‘TId’ locally defined but not used [-Wunused-local-typedefs] 1647 | typedef typename Id::Type TId; | ^~~ In file included from ./seqan/index.h:82, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:11, from cracIndex.cpp:67: ./seqan/index/shape_base.h: In function ‘typename seqan::Value > >::Type seqan::hash(seqan::Shape >&, TIter)’: ./seqan/index/shape_base.h:273:81: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 273 | typedef typename Value< Shape >::Type THValue; | ^~~~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value > >::Type seqan::hash(seqan::Shape >&, TIter)’: ./seqan/index/shape_base.h:309:81: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 309 | typedef typename Value< Shape > >::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 > >::Type TSize; | ^~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value >::Type seqan::hash(seqan::Shape&, 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 >::Type THValue; | ^~~~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value >::Type seqan::hashUpper(seqan::Shape&, 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 >::Type THValue; | ^~~~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value >::Type seqan::hash2(seqan::Shape&, 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 >::Type THValue; | ^~~~~~~ In file included from ./seqan/index.h:83, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:11, from cracIndex.cpp:67: ./seqan/index/shape_gapped.h: In function ‘typename seqan::Value > > >::Type seqan::hash(seqan::Shape > >&, TIter)’: ./seqan/index/shape_gapped.h:370:81: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 370 | typedef typename Value< Shape >::Type THValue; | ^~~~~~~ ./seqan/index/shape_gapped.h: In function ‘typename seqan::Value > >::Type seqan::hash(seqan::Shape >&, 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 > >::Type THValue; | ^~~~~~~ ./seqan/index/shape_gapped.h: In function ‘typename seqan::Value > >::Type seqan::hashUpper(seqan::Shape >&, 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 > >::Type THValue; | ^~~~~~~ In file included from ./seqan/file.h:66, from /<>/src/libSSA/karkkainen_bwt/multikey_qsort.h:6, from /<>/src/libSSA/karkkainen_bwt/diff_sample.h:8, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:13, from cracIndex.cpp:67: ./seqan/file/file_format_fasta_align.h: In function ‘void seqan::read(TFile&, seqan::Align&, 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::Type TRow; | ^~~~ ./seqan/file/file_format_fasta_align.h: In function ‘void seqan::_write_impl(TFile&, seqan::Align&, 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::Type TPosition; | ^~~~~~~~~ In file included from ./seqan/file.h:69, from /<>/src/libSSA/karkkainen_bwt/multikey_qsort.h:6, from /<>/src/libSSA/karkkainen_bwt/diff_sample.h:8, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:13, from cracIndex.cpp:67: ./seqan/file/file_format_cgviz.h: In function ‘void seqan::_write_impl(TFile&, seqan::Align&, 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::Type TRow; | ^~~~ In file included from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:13, from cracIndex.cpp:67: /<>/src/libSSA/karkkainen_bwt/diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: /<>/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; | ^~ /<>/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; | ^~~~~ /<>/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; | ^~ /<>/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; | ^~~~~ In file included from cracIndex.cpp:67: /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: /<>/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 | ^~ /<>/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 | ^~~ /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::buildSamples()’: /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:380:44: warning: typedef ‘TAlphabet’ locally defined but not used [-Wunused-local-typedefs] 380 | typedef typename Value::Type TAlphabet; | ^~~~~~~~~ /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h: In member function ‘virtual void KarkkainenBlockwiseSA::nextBlock()’: /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:745:44: warning: typedef ‘TAlphabet’ locally defined but not used [-Wunused-local-typedefs] 745 | typedef typename Value::Type TAlphabet; | ^~~~~~~~~ In file included from ./seqan/sequence.h:57, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_packed.h: In instantiation of ‘struct seqan::_PackedConsts, seqan::Packed<> > >’: ./seqan/sequence/string_packed.h:906:72: required from ‘typename seqan::Position > >::Type seqan::position(const seqan::Iter >&) [with TContainer = const seqan::String, seqan::Packed<> >; THostspec = seqan::Alloc; typename seqan::Position > >::Type = long unsigned int]’ ./seqan/sequence/string_packed.h:1237:17: required from ‘typename seqan::Difference > >::Type seqan::operator-(const seqan::Iter >&, const seqan::Iter >&) [with TContainer = const seqan::String, seqan::Packed<> >; THostspec = seqan::Alloc; typename seqan::Difference > >::Type = long int]’ ./seqan/sequence/string_base.h:181:29: required from ‘typename seqan::Size >::Type seqan::length(const seqan::String&) [with TValue = seqan::SimpleType; TSpec = seqan::Packed<>; typename seqan::Size >::Type = long unsigned int]’ /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:354:30: required from here ./seqan/sequence/string_packed.h:294:51: warning: comparison between ‘enum seqan::BitsPerValue >::’ and ‘enum seqan::BitsPerValue::’ [-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::Packed<> > >’: ./seqan/sequence/string_packed.h:958:79: required from ‘typename seqan::GetValue > >::Type seqan::getValue(const seqan::Iter >&) [with TContainer = seqan::String, seqan::Packed<> >; THostspec = seqan::Alloc; typename seqan::GetValue > >::Type = seqan::SimpleType]’ ./seqan/basic/basic_proxy.h:242:17: required from ‘typename seqan::GetValue >::Type seqan::getValue(const seqan::Proxy&) [with TSpec = seqan::IteratorProxy, seqan::Packed<> >, seqan::Packed<> > >; typename seqan::GetValue >::Type = seqan::SimpleType]’ ./seqan/basic/basic_proxy.h:272:34: required from ‘typename seqan::Convert >::Type seqan::convertImpl(seqan::Convert, const seqan::Proxy&) [with TTarget = char; T = seqan::Proxy, seqan::Packed<> >, seqan::Packed<> > > >; TSpec = seqan::IteratorProxy, seqan::Packed<> >, seqan::Packed<> > >; typename seqan::Convert >::Type = char]’ ./seqan/basic/basic_converter.h:111:20: required from ‘typename seqan::Convert::Type seqan::convert(const TSource&) [with TTarget = char; TSource = seqan::Proxy, seqan::Packed<> >, seqan::Packed<> > > >; typename seqan::Convert::Type = char]’ cracIndex.cpp:224:29: required from here ./seqan/sequence/string_packed.h:294:51: warning: comparison between ‘enum seqan::BitsPerValue >::’ and ‘enum seqan::BitsPerValue::’ [-Wenum-compare] In file included from ./seqan/basic.h:101, from ./seqan/sequence.h:27, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/basic/basic_alphabet_trait_basic.h: In instantiation of ‘void seqan::_arrayCopyForward_Pointer(TValue*, TValue*, TValue*, seqan::True) [with TValue = seqan::SimpleType]’: ./seqan/basic/basic_alphabet_trait_basic.h:226:27: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = seqan::SimpleType]’ ./seqan/basic/basic_alphabet_trait_basic.h:102:18: required from ‘void seqan::_arrayConstructCopy_Pointer(TValue*, TValue*, TValue*, seqan::True) [with TValue = seqan::SimpleType]’ ./seqan/basic/basic_alphabet_trait_basic.h:121:29: required from ‘void seqan::arrayConstructCopy(TValue*, TValue*, TValue*) [with TValue = seqan::SimpleType]’ ./seqan/sequence/string_alloc.h:421:21: required from ‘typename seqan::Size > >::Type seqan::reserve(seqan::String >&, _TSize, seqan::Tag) [with TValue = seqan::SimpleType; TSpec = void; _TSize = long unsigned int; TExpand = seqan::TagExact_; typename seqan::Size > >::Type = long unsigned int]’ ./seqan/sequence/string_base.h:1433:33: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc >; TExpand = const seqan::Tag; typename seqan::Size::Type = long unsigned int]’ ./seqan/sequence/string_base.h:1459:52: required from ‘typename seqan::Size >::Type seqan::resize(seqan::String&, TSize, seqan::Tag) [with TValue = seqan::SimpleType; TSpec = seqan::Alloc; TSize = long unsigned int; TExpand = seqan::TagExact_; typename seqan::Size >::Type = long unsigned int]’ ./seqan/sequence/sequence_interface.h:1360:15: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = seqan::String, seqan::Alloc >; TSize = long unsigned int; typename seqan::Size::Type = long unsigned int]’ ./seqan/file/file_format_fasta.h:269:8: required from ‘void seqan::read(TFile&, TData&, TSize, Fasta) [with TFile = std::basic_ifstream; TData = seqan::String, seqan::Alloc >; TSize = long unsigned int; seqan::Fasta = const seqan::Tag]’ ./seqan/file/file_format_fasta.h:309:6: required from ‘void seqan::read(TFile&, TData&, Fasta) [with TFile = std::basic_ifstream; TData = seqan::String, seqan::Alloc >; seqan::Fasta = const seqan::Tag]’ cracIndex.cpp:142:13: required from here ./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’ 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, from ./seqan/sequence.h:27, from /<>/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/basic/basic_alphabet_simple.h:57:8: note: ‘struct seqan::SimpleType’ declared here 57 | struct SimpleType | ^~~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o bitarray.o bitarray.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o bitrankw32int.o bitrankw32int.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o chrPosition.o chrPosition.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o HuffAlphabetRank.o HuffAlphabetRank.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Huffman_Codes.o Huffman_Codes.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o locateOnGenome.o locateOnGenome.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o locateTags.o locateTags.cpp 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SSA.o SSA.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o utils.o utils.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GenomeInfo.o GenomeInfo.cpp rm -f libSSA.a x86_64-linux-gnu-ar cru libSSA.a bitarray.o bitrankw32int.o chrPosition.o HuffAlphabetRank.o Huffman_Codes.o locateOnGenome.o locateTags.o SSA.o utils.o GenomeInfo.o x86_64-linux-gnu-ar: `u' modifier ignored since `D' is the default (see `U') x86_64-linux-gnu-ranlib libSSA.a /bin/bash ../../libtool --tag=CXX --mode=link x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -lm -lpthread -lSSA -L/<>/src/libSSA/ -Wl,-z,relro -Wl,-z,now -o crac-index cracIndex.o libSSA.a -lhts -lz -lpthread -lm libtool: link: x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o crac-index cracIndex.o -lSSA -L/<>/src/libSSA/ libSSA.a -lhts -lz -lpthread -lm make[3]: Leaving directory '/<>/src/libSSA' Making all in libReadsReader make[3]: Entering directory '/<>/src/libReadsReader' Making all in kseq make[4]: Entering directory '/<>/src/libReadsReader/kseq' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/src/libReadsReader/kseq' make[4]: Entering directory '/<>/src/libReadsReader' x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../../config -I/<> -I/<>/src -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsReader_a-readsReader.o `test -f 'readsReader.cpp' || echo './'`readsReader.cpp rm -f libReadsReader.a x86_64-linux-gnu-ar cru libReadsReader.a libReadsReader_a-readsReader.o x86_64-linux-gnu-ar: `u' modifier ignored since `D' is the default (see `U') x86_64-linux-gnu-ranlib libReadsReader.a make[4]: Leaving directory '/<>/src/libReadsReader' make[3]: Leaving directory '/<>/src/libReadsReader' make[3]: Entering directory '/<>/src' x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Classifier.o Classifier.cpp 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) | ^~~~~~~~~ Classifier.cpp: In member function ‘virtual void SingleReadClassifier::classify()’: Classifier.cpp:203:40: warning: ‘bioundetermined_type’ may be used uninitialized in this function [-Wmaybe-uninitialized] 203 | taginfo->addBioUndetermined(suppoBreak->getLocationStartBreak(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 204 | suppoBreak->getPositionStartBreak(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 205 | bioundetermined_type, | ~~~~~~~~~~~~~~~~~~~~~ 206 | message.c_str()); | ~~~~~~~~~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o classifyTags.o classifyTags.cpp classifyTags.cpp:421:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 421 | headerTemplate << "#Created on " <<__DATE__ << endl << "#" << endl; | ^~~~~~~~ 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GkReadIndex.o GkReadIndex.cpp 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 &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 &operator=(const LargeBinVect &v) throw (std::bad_alloc); | ^~~~~ 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:155:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 155 | inline LargeBinVect 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 &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 &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 &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 &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 &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 &operator+=(const LargeBinVect &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 &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 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 &operator--() throw (BinVectOverflow); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:210:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 210 | inline LargeBinVect 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 Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc); | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, 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.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::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::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::LargeBinVect(const LargeBinVect &v) throw (std::bad_alloc) | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:184:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 184 | LargeBinVect &LargeBinVect::operator=(const LargeBinVect &v) throw (std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, 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.cxx:339:123: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 339 | LargeBinVect LargeBinVect::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::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::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::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::operator+=(const LargeBinVect &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 &LargeBinVect::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 LargeBinVect::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 &LargeBinVect::operator--() throw (BinVectOverflow) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:750:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 750 | LargeBinVect LargeBinVect::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 LargeBinVect::Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/gkArrays.h:112, from GkReadIndex.h:60, from GkReadIndex.cpp:55: /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, from GkReadIndex.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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o JellyReadIndex.o JellyReadIndex.cpp 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o crac.o crac.cpp 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 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 &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 &operator=(const LargeBinVect &v) throw (std::bad_alloc); | ^~~~~ 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:155:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 155 | inline LargeBinVect 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 &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 &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 &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 &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 &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 &operator+=(const LargeBinVect &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 &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 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 &operator--() throw (BinVectOverflow); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:210:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 210 | inline LargeBinVect 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 Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc); | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, 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.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::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::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::LargeBinVect(const LargeBinVect &v) throw (std::bad_alloc) | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:184:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 184 | LargeBinVect &LargeBinVect::operator=(const LargeBinVect &v) throw (std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, 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.cxx:339:123: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 339 | LargeBinVect LargeBinVect::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::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::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::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::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 &LargeBinVect::operator+=(const LargeBinVect &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 &LargeBinVect::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 LargeBinVect::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 &LargeBinVect::operator--() throw (BinVectOverflow) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:750:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 750 | LargeBinVect LargeBinVect::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 LargeBinVect::Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/gkArrays.h:112, from crac.cpp:69: /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); | ^~~~~ 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Parameters.o Parameters.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SupportBreak.o SupportBreak.cpp 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o BreakList.o BreakList.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o CandidatBreak.o CandidatBreak.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Support.o Support.cpp 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o locateServer.o locateServer.cpp 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 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) | ^~~~~~~~~ x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o utils.o utils.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -I../config -I/<> -I/<>/src -I/<>/src/libSSA -I/<>/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=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Bitset.o Bitset.cpp /bin/bash ../libtool --tag=CXX --mode=link x86_64-linux-gnu-g++ -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -lGkArrays -ljellyfish-2.0 -lm -lpthread -lhts -lSSA -lReadsInfo -lReadsReader -lgzstream -L/<>/src/libSSA -L/<>/src/libReadsInfo -L/<>/src/libReadsReader -ljellyfish-2.0 -L/usr/lib/x86_64-linux-gnu -lGkArrays -L/usr/lib/x86_64-linux-gnu -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 /<>/src/libSSA/libSSA.a /<>/src/libReadsInfo/libReadsInfo.a /<>/src/libReadsReader/libReadsReader.a -lhts -lz -lpthread -lm libtool: link: x86_64-linux-gnu-g++ -std=c++0x -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -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/<>/src/libSSA -L/<>/src/libReadsInfo -L/<>/src/libReadsReader /usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so -L/usr/lib/x86_64-linux-gnu -lGkArrays -lProgressBar /<>/src/libSSA/libSSA.a /<>/src/libReadsInfo/libReadsInfo.a /<>/src/libReadsReader/libReadsReader.a -lhts -lz -lpthread -lm ln -s -f /<>/src/libSSA/crac-index crac-index make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' Making all in man make[2]: Entering directory '/<>/man' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/man' Making all in scripts make[2]: Entering directory '/<>/scripts' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/scripts' Making all in test_f make[2]: Entering directory '/<>/test_f' Making all in causes make[3]: Entering directory '/<>/test_f/causes' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/test_f/causes' Making all in bug make[3]: Entering directory '/<>/test_f/bug' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/test_f/bug' Making all in cigar make[3]: Entering directory '/<>/test_f/cigar' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/test_f/cigar' Making all in splices_adjust make[3]: Entering directory '/<>/test_f/splices_adjust' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/test_f/splices_adjust' make[3]: Entering directory '/<>/test_f' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/<>/test_f' make[2]: Leaving directory '/<>/test_f' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install --destdir=debian/crac/ -a make -j1 install DESTDIR=/<>/crac-2.5.2\+dfsg/debian/crac AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>' Making install in src make[2]: Entering directory '/<>/src' Making install in libReadsInfo make[3]: Entering directory '/<>/src/libReadsInfo' make[4]: Entering directory '/<>/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 '/<>/src/libReadsInfo' make[3]: Leaving directory '/<>/src/libReadsInfo' Making install in libSSA make[3]: Entering directory '/<>/src/libSSA' make[4]: Entering directory '/<>/src/libSSA' /bin/mkdir -p '/<>/debian/crac/usr/bin' /bin/bash ../../libtool --mode=install /usr/bin/install -c crac-index '/<>/debian/crac/usr/bin' libtool: install: /usr/bin/install -c crac-index /<>/debian/crac/usr/bin/crac-index make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/src/libSSA' make[3]: Leaving directory '/<>/src/libSSA' Making install in libReadsReader make[3]: Entering directory '/<>/src/libReadsReader' Making install in kseq make[4]: Entering directory '/<>/src/libReadsReader/kseq' make[5]: Entering directory '/<>/src/libReadsReader/kseq' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/crac/usr/include/crac-2.5.2/kseq' /usr/bin/install -c -m 644 kseq.h '/<>/debian/crac/usr/include/crac-2.5.2/kseq' make[5]: Leaving directory '/<>/src/libReadsReader/kseq' make[4]: Leaving directory '/<>/src/libReadsReader/kseq' make[4]: Entering directory '/<>/src/libReadsReader' make[5]: Entering directory '/<>/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 '/<>/src/libReadsReader' make[4]: Leaving directory '/<>/src/libReadsReader' make[3]: Leaving directory '/<>/src/libReadsReader' make[3]: Entering directory '/<>/src' make[4]: Entering directory '/<>/src' /bin/mkdir -p '/<>/debian/crac/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c crac '/<>/debian/crac/usr/bin' libtool: install: /usr/bin/install -c crac /<>/debian/crac/usr/bin/crac make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' Making install in man make[2]: Entering directory '/<>/man' make[3]: Entering directory '/<>/man' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/crac/usr/share/man/man1' /usr/bin/install -c -m 644 crac.1 '/<>/debian/crac/usr/share/man/man1' make[3]: Leaving directory '/<>/man' make[2]: Leaving directory '/<>/man' Making install in scripts make[2]: Entering directory '/<>/scripts' make[3]: Entering directory '/<>/scripts' /bin/mkdir -p '/<>/debian/crac/usr/bin' /usr/bin/install -c crac-client '/<>/debian/crac/usr/bin' make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>/scripts' make[2]: Leaving directory '/<>/scripts' Making install in test_f make[2]: Entering directory '/<>/test_f' Making install in causes make[3]: Entering directory '/<>/test_f/causes' make[4]: Entering directory '/<>/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 '/<>/test_f/causes' make[3]: Leaving directory '/<>/test_f/causes' Making install in bug make[3]: Entering directory '/<>/test_f/bug' make[4]: Entering directory '/<>/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 '/<>/test_f/bug' make[3]: Leaving directory '/<>/test_f/bug' Making install in cigar make[3]: Entering directory '/<>/test_f/cigar' make[4]: Entering directory '/<>/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 '/<>/test_f/cigar' make[3]: Leaving directory '/<>/test_f/cigar' Making install in splices_adjust make[3]: Entering directory '/<>/test_f/splices_adjust' make[4]: Entering directory '/<>/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 '/<>/test_f/splices_adjust' make[3]: Leaving directory '/<>/test_f/splices_adjust' make[3]: Entering directory '/<>/test_f' make[4]: Entering directory '/<>/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 '/<>/test_f' make[3]: Leaving directory '/<>/test_f' make[2]: Leaving directory '/<>/test_f' make[2]: Entering directory '/<>' make[3]: Entering directory '/<>' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installexamples make[1]: Entering directory '/<>' 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 '/<>' dh_installman -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'crac' in '../crac_2.5.2+dfsg-5_amd64.deb'. dpkg-deb: building package 'crac-dbgsym' in '../crac-dbgsym_2.5.2+dfsg-5_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../crac_2.5.2+dfsg-5_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2021-11-13T03:06:29Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ crac_2.5.2+dfsg-5_amd64.changes: -------------------------------- Format: 1.8 Date: Sun, 07 Nov 2021 22:28:49 +0100 Source: crac Binary: crac crac-dbgsym Built-For-Profiles: cross nocheck Architecture: amd64 Version: 2.5.2+dfsg-5 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: crac - integrated RNA-Seq read analysis Closes: 998787 Changes: crac (2.5.2+dfsg-5) unstable; urgency=medium . * Fix bashism in configure script Closes: #998787 * Standards-Version: 4.6.0 (routine-update) * Autopkgtest fails due to tempfile usage - use mktemp instead Checksums-Sha1: ba57169f22c62fe7e413b2cc046026a276c56023 1873656 crac-dbgsym_2.5.2+dfsg-5_amd64.deb 0e0e3b8ef095fc26359879af5cba5ce53c35ea54 5906 crac_2.5.2+dfsg-5_amd64.buildinfo fda12ad336b2ecade37570ea5ced0b05cd4bc06f 461024 crac_2.5.2+dfsg-5_amd64.deb Checksums-Sha256: 22b652c5e18df647d7d8a2f20c94612aaaa0af185d6ec4e687cb96d8104ce3a5 1873656 crac-dbgsym_2.5.2+dfsg-5_amd64.deb 98d6a49a5a86ba41f7386ee5976bc9eff86c6a9ed9a209f5241c48c1c230fc76 5906 crac_2.5.2+dfsg-5_amd64.buildinfo 6c174613fda4aac366fcec65da6a05dd6aacda259d6a48a11c500c68a2a82dbc 461024 crac_2.5.2+dfsg-5_amd64.deb Files: 33c91d5acf2b6db72322e148041737eb 1873656 debug optional crac-dbgsym_2.5.2+dfsg-5_amd64.deb c29a3bbf0893e14d6d297b5606b77dc2 5906 science optional crac_2.5.2+dfsg-5_amd64.buildinfo f06d25b85f679eaeb3c1051212eb4840 461024 science optional crac_2.5.2+dfsg-5_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: crac Binary: crac crac-dbgsym Architecture: amd64 Version: 2.5.2+dfsg-5 Checksums-Md5: 33c91d5acf2b6db72322e148041737eb 1873656 crac-dbgsym_2.5.2+dfsg-5_amd64.deb f06d25b85f679eaeb3c1051212eb4840 461024 crac_2.5.2+dfsg-5_amd64.deb Checksums-Sha1: ba57169f22c62fe7e413b2cc046026a276c56023 1873656 crac-dbgsym_2.5.2+dfsg-5_amd64.deb fda12ad336b2ecade37570ea5ced0b05cd4bc06f 461024 crac_2.5.2+dfsg-5_amd64.deb Checksums-Sha256: 22b652c5e18df647d7d8a2f20c94612aaaa0af185d6ec4e687cb96d8104ce3a5 1873656 crac-dbgsym_2.5.2+dfsg-5_amd64.deb 6c174613fda4aac366fcec65da6a05dd6aacda259d6a48a11c500c68a2a82dbc 461024 crac_2.5.2+dfsg-5_amd64.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Sat, 13 Nov 2021 03:06:28 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1), autopoint (= 0.21-4), autotools-dev (= 20180224.1+nmu1), base-files (= 12), base-passwd (= 3.5.52), bash (= 5.1-3.1), binutils (= 2.37-8), binutils-aarch64-linux-gnu (= 2.37-8), binutils-common (= 2.37-8), bsdextrautils (= 2.37.2-4), bsdutils (= 1:2.37.2-4), build-essential (= 12.9), bzip2 (= 1.0.8-4), coreutils (= 8.32-4.1), cpp (= 4:11.2.0-2), cpp-11 (= 11.2.0-10), dash (= 0.5.11+git20210903+057cd650a4ed-3), debconf (= 1.5.79), debhelper (= 13.5.2), debianutils (= 5.5-1), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.12.0-2), diffutils (= 1:3.7-5), dpkg (= 1.20.9), dpkg-dev (= 1.20.9), dwz (= 0.14-1), file (= 1:5.39-3), findutils (= 4.8.0-1), g++ (= 4:11.2.0-2), g++-11 (= 11.2.0-10), gcc (= 4:11.2.0-2), gcc-11 (= 11.2.0-10), gcc-11-base (= 11.2.0-10), gettext (= 0.21-4), gettext-base (= 0.21-4), grep (= 3.7-1), groff-base (= 1.22.4-7), gzip (= 1.10-4), hostname (= 3.23), init-system-helpers (= 1.60), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.3.1-1), libarchive-zip-perl (= 1.68-1), libasan6 (= 11.2.0-10), libatomic1 (= 11.2.0-10), libattr1 (= 1:2.5.1-1), libaudit-common (= 1:3.0.6-1), libaudit1 (= 1:3.0.6-1), libbinutils (= 2.37-8), libblkid1 (= 2.37.2-4), libbrotli1 (= 1.0.9-2+b2), libbz2-1.0 (= 1.0.8-4), libc-bin (= 2.32-4), libc-dev-bin (= 2.32-4), libc6 (= 2.32-4), libc6-dev (= 2.32-4), libcap-ng0 (= 0.7.9-2.2+b1), libcap2 (= 1:2.44-1), libcc1-0 (= 11.2.0-10), libcom-err2 (= 1.46.4-1), libcrypt-dev (= 1:4.4.26-1), libcrypt1 (= 1:4.4.26-1), libctf-nobfd0 (= 2.37-8), libctf0 (= 2.37-8), libcurl3-gnutls (= 7.79.1-2), libcurl4-gnutls-dev (= 7.79.1-2), libdb5.3 (= 5.3.28+dfsg1-0.8), libdebconfclient0 (= 0.261), libdebhelper-perl (= 13.5.2), libdeflate-dev (= 1.8-1), libdeflate0 (= 1.8-1), libdpkg-perl (= 1.20.9), libelf1 (= 0.185-2), libffi8 (= 3.4.2-3), libfile-stripnondeterminism-perl (= 1.12.0-2), libgcc-11-dev (= 11.2.0-10), libgcc-s1 (= 11.2.0-10), libgcrypt20 (= 1.9.4-3+b1), libgdbm-compat4 (= 1.22-1), libgdbm6 (= 1.22-1), libgkarrays-dev (= 2.1.0+dfsg-4), libgkarrays1 (= 2.1.0+dfsg-4), libglib2.0-0 (= 2.70.1-1), libgmp10 (= 2:6.2.1+dfsg-2), libgnutls30 (= 3.7.2-2), libgomp1 (= 11.2.0-10), libgpg-error0 (= 1.42-3), libgssapi-krb5-2 (= 1.18.3-7), libgzstream-dev (= 1.5+git20171107.9a20658-1+b1), libgzstream0 (= 1.5+git20171107.9a20658-1+b1), libhogweed6 (= 3.7.3-1), libhts-dev (= 1.13+ds-2), libhts3 (= 1.13+ds-2), libhtscodecs2 (= 1.1.1-3+b1), libicu67 (= 67.1-7), libidn2-0 (= 2.3.2-2), libisl23 (= 0.24-2), libitm1 (= 11.2.0-10), libjellyfish-2.0-2 (= 2.3.0-12), libjellyfish-2.0-dev (= 2.3.0-12), libk5crypto3 (= 1.18.3-7), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.18.3-7), libkrb5support0 (= 1.18.3-7), libldap-2.4-2 (= 2.4.59+dfsg-1), liblsan0 (= 11.2.0-10), liblz4-1 (= 1.9.3-2), liblzma-dev (= 5.2.5-2), liblzma5 (= 5.2.5-2), libmagic-mgc (= 1:5.39-3), libmagic1 (= 1:5.39-3), libmount1 (= 2.37.2-4), libmpc3 (= 1.2.1-1), libmpfr6 (= 4.1.0-3), libnettle8 (= 3.7.3-1), libnghttp2-14 (= 1.43.0-1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libp11-kit0 (= 0.24.0-5), libpam-modules (= 1.4.0-10), libpam-modules-bin (= 1.4.0-10), libpam-runtime (= 1.4.0-10), libpam0g (= 1.4.0-10), libpcre2-8-0 (= 10.39-2), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.1-6), libpipeline1 (= 1.5.4-1), libpopt0 (= 1.18-3), libpsl5 (= 0.21.0-1.2), libquadmath0 (= 11.2.0-10), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.27+dfsg-2.3), libsasl2-modules-db (= 2.1.27+dfsg-2.3), libseccomp2 (= 2.5.2-2), libselinux1 (= 3.3-1), libsigsegv2 (= 2.13-1), libsmartcols1 (= 2.37.2-4), libssh2-1 (= 1.10.0-2), libssl1.1 (= 1.1.1l-1), libstdc++-11-dev (= 11.2.0-10), libstdc++6 (= 11.2.0-10), libsub-override-perl (= 0.09-2), libsystemd0 (= 249.6-1), libtasn1-6 (= 4.17.0-2), libtinfo6 (= 6.2+20210905-1), libtirpc-common (= 1.3.2-2), libtirpc-dev (= 1.3.2-2), libtirpc3 (= 1.3.2-2), libtool (= 2.4.6-15), libtsan0 (= 11.2.0-10), libubsan1 (= 11.2.0-10), libuchardet0 (= 0.0.7-1), libudev1 (= 249.6-1), libunistring2 (= 0.9.10-6), libuuid1 (= 2.37.2-4), libxml2 (= 2.9.12+dfsg-5), libxxhash0 (= 0.8.0-2), libzstd1 (= 1.4.8+dfsg-3), linux-libc-dev (= 5.14.16-1), login (= 1:4.8.1-2), lsb-base (= 11.1.0), m4 (= 1.4.18-5), make (= 4.3-4.1), man-db (= 2.9.4-2), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2+20210905-1), ncurses-bin (= 6.2+20210905-1), patch (= 2.7.6-7), perl (= 5.32.1-6), perl-base (= 5.32.1-6), perl-modules-5.32 (= 5.32.1-6), pkg-config (= 0.29.2-1), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.2-4), rsync (= 3.2.3-8), sed (= 4.8-1), sensible-utils (= 0.0.17), sysvinit-utils (= 3.00-1), tar (= 1.34+dfsg-1), util-linux (= 2.37.2-4), xz-utils (= 5.2.5-2), zlib1g (= 1:1.2.11.dfsg-2), zlib1g-dev (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_GB.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1636320529" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ crac-dbgsym_2.5.2+dfsg-5_amd64.deb ---------------------------------- new Debian package, version 2.0. size 1873656 bytes: control archive=644 bytes. 410 bytes, 12 lines control 293 bytes, 3 lines md5sums Package: crac-dbgsym Source: crac Version: 2.5.2+dfsg-5 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 1954 Depends: crac (= 2.5.2+dfsg-5) Section: debug Priority: optional Description: debug symbols for crac Build-Ids: b878e980fb0c14e8d06de3cfa9ba160f36c1ae6a bc2436119b475b4cac99025effa8922880c5bb24 drwxr-xr-x root/root 0 2021-11-07 21:28 ./ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/lib/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/lib/debug/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/lib/debug/.build-id/b8/ -rw-r--r-- root/root 1409072 2021-11-07 21:28 ./usr/lib/debug/.build-id/b8/78e980fb0c14e8d06de3cfa9ba160f36c1ae6a.debug drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/lib/debug/.build-id/bc/ -rw-r--r-- root/root 531808 2021-11-07 21:28 ./usr/lib/debug/.build-id/bc/2436119b475b4cac99025effa8922880c5bb24.debug drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 44688 2021-11-07 21:28 ./usr/lib/debug/.dwz/x86_64-linux-gnu/crac.debug drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/doc/ lrwxrwxrwx root/root 0 2021-11-07 21:28 ./usr/share/doc/crac-dbgsym -> crac crac_2.5.2+dfsg-5_amd64.deb --------------------------- new Debian package, version 2.0. size 461024 bytes: control archive=3932 bytes. 1497 bytes, 25 lines control 10578 bytes, 119 lines md5sums Package: crac Version: 2.5.2+dfsg-5 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 2259 Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.0), libgkarrays1 (>= 2.1.0+dfsg), libgzstream0 (>= 1.5+dfsg), libhts3 (>= 1.10), libjellyfish-2.0-2 (>= 2.3.0), libstdc++6 (>= 11), zlib1g (>= 1:1.1.4) Section: science Priority: optional Homepage: https://crac.gforge.inria.fr/ Description: integrated RNA-Seq read analysis CRAC is a tool to analyze High Throughput Sequencing (HTS) data in comparison to a reference genome. It is intended for transcriptomic and genomic sequencing reads. More precisely, with transcriptomic reads as input, it predicts point mutations, indels, splice junction, and chimeric RNAs (ie, non colinear splice junctions). CRAC can also output positions and nature of sequence error that it detects in the reads. CRAC uses a genome index. This index must be computed before running the read analysis. For this sake, use the command "crac-index" on your genome files. You can then process the reads using the command crac. See the man page of CRAC (help file) by typing "man crac". CRAC requires large amount of main memory on your computer. For processing against the Human genome, say 50 million reads of 100 nucleotide each, CRAC requires about 40 gigabytes of main memory. Check whether the system of your computing server is equipped with sufficient amount of memory before launching an analysis. drwxr-xr-x root/root 0 2021-11-07 21:28 ./ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/bin/ -rwxr-xr-x root/root 447312 2021-11-07 21:28 ./usr/bin/crac -rwxr-xr-x root/root 11120 2021-11-07 21:28 ./usr/bin/crac-client -rwxr-xr-x root/root 173104 2021-11-07 21:28 ./usr/bin/crac-index drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/include/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/include/crac-2.5.2/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/include/crac-2.5.2/kseq/ -rw-r--r-- root/root 12765 2021-11-07 21:28 ./usr/include/crac-2.5.2/kseq/kseq.h drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/doc/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/doc/crac/ -rw-r--r-- root/root 2004 2015-07-13 14:37 ./usr/share/doc/crac/README.gz -rw-r--r-- root/root 278 2021-11-07 21:28 ./usr/share/doc/crac/README.test -rw-r--r-- root/root 953 2021-11-07 21:28 ./usr/share/doc/crac/changelog.Debian.gz -rw-r--r-- root/root 662 2016-04-27 12:58 ./usr/share/doc/crac/changelog.gz -rw-r--r-- root/root 25987 2021-11-07 21:28 ./usr/share/doc/crac/copyright drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/doc/crac/examples/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/doc/crac/examples/test_f/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/doc/crac/examples/test_f/bug/ -rw-r--r-- root/root 220 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15605-genome.fa -rw-r--r-- root/root 195 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15605-read.fa -rw-r--r-- root/root 380 2021-11-07 21:28 ./usr/share/doc/crac/examples/test_f/bug/bug-15605.should_get -rw-r--r-- root/root 628 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15605_2-genome.fa -rw-r--r-- root/root 200 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15605_2-read.fa -rw-r--r-- root/root 401 2021-11-07 21:28 ./usr/share/doc/crac/examples/test_f/bug/bug-15605_2.should_get -rw-r--r-- root/root 991 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15630-genome.fa -rw-r--r-- root/root 25 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15630-read.fa -rw-r--r-- root/root 427 2021-11-07 21:28 ./usr/share/doc/crac/examples/test_f/bug/bug-15630.should_get -rw-r--r-- root/root 10173 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15639-genome.fa -rw-r--r-- root/root 107 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15639-read.fa -rw-r--r-- root/root 485 2021-11-07 21:28 ./usr/share/doc/crac/examples/test_f/bug/bug-15639.should_get -rw-r--r-- root/root 2343 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15646-genome.fa -rw-r--r-- root/root 350 2014-10-20 21:35 ./usr/share/doc/crac/examples/test_f/bug/bug-15646-read.fa -rw-r--r-- 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drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/lintian/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 146 2021-11-07 21:28 ./usr/share/lintian/overrides/crac drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/man/ drwxr-xr-x root/root 0 2021-11-07 21:28 ./usr/share/man/man1/ -rw-r--r-- root/root 6450 2021-11-07 21:28 ./usr/share/man/man1/crac.1.gz lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:arm64 Filtered Build-Depends: lintian:arm64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [587 B] Get:5 copy:/<>/apt_archive ./ Packages [669 B] Fetched 2219 B in 0s (53.2 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libio-interactive-perl libio-prompt-tiny-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-someutils-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libterm-readkey-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils readline-common t1utils unzip Suggested packages: libxml-parser-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libbusiness-isbn-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc zip Recommended packages: gnupg liblist-someutils-xs-perl libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl The following NEW packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libconst-fast-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libio-interactive-perl libio-prompt-tiny-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-someutils-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libperlio-utf8-strict-perl libproc-processtable-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsort-versions-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libterm-readkey-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils readline-common sbuild-build-depends-lintian-dummy:amd64 t1utils unzip 0 upgraded, 97 newly installed, 0 to remove and 0 not upgraded. Need to get 7670 kB of archives. After this operation, 22.1 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [856 B] Get:2 http://mirror.einval.org/debian sid/main arm64 readline-common all 8.1-2 [73.8 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 libreadline8 arm64 8.1-2 [160 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 diffstat arm64 1.64-1 [34.6 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 libassuan0 arm64 2.5.5-1 [49.3 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 gpgconf arm64 2.2.27-2 [540 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 libsqlite3-0 arm64 3.36.0-2 [768 kB] Get:8 http://mirror.einval.org/debian sid/main arm64 gpg arm64 2.2.27-2 [883 kB] Get:9 http://mirror.einval.org/debian sid/main arm64 libaliased-perl all 0.34-1.1 [14.1 kB] Get:10 http://mirror.einval.org/debian sid/main arm64 libapt-pkg-perl arm64 0.1.40 [69.4 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 libb-hooks-op-check-perl arm64 0.22-1+b3 [11.2 kB] Get:12 http://mirror.einval.org/debian sid/main arm64 libdynaloader-functions-perl all 0.003-1.1 [12.7 kB] Get:13 http://mirror.einval.org/debian sid/main arm64 libdevel-callchecker-perl arm64 0.008-1+b2 [15.8 kB] Get:14 http://mirror.einval.org/debian sid/main arm64 libparams-classify-perl arm64 0.015-1+b3 [25.5 kB] Get:15 http://mirror.einval.org/debian sid/main arm64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:16 http://mirror.einval.org/debian sid/main arm64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:17 http://mirror.einval.org/debian sid/main arm64 libmodule-implementation-perl all 0.09-1.1 [12.4 kB] Get:18 http://mirror.einval.org/debian sid/main arm64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:19 http://mirror.einval.org/debian sid/main arm64 libvariable-magic-perl arm64 0.62-1+b3 [44.2 kB] Get:20 http://mirror.einval.org/debian sid/main arm64 libb-hooks-endofscope-perl all 0.25-1 [19.5 kB] Get:21 http://mirror.einval.org/debian sid/main arm64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:22 http://mirror.einval.org/debian sid/main arm64 libclass-data-inheritable-perl all 0.08-3 [8588 B] Get:23 http://mirror.einval.org/debian sid/main arm64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB] Get:24 http://mirror.einval.org/debian sid/main arm64 libclass-xsaccessor-perl arm64 1.19-3+b7 [36.9 kB] Get:25 http://mirror.einval.org/debian sid/main arm64 libclone-perl arm64 0.45-1+b1 [15.3 kB] Get:26 http://mirror.einval.org/debian sid/main arm64 libconfig-tiny-perl all 2.27-1 [17.1 kB] Get:27 http://mirror.einval.org/debian sid/main arm64 libparams-util-perl arm64 1.102-1+b1 [25.3 kB] Get:28 http://mirror.einval.org/debian sid/main arm64 libsub-install-perl all 0.928-1.1 [10.8 kB] Get:29 http://mirror.einval.org/debian sid/main arm64 libdata-optlist-perl all 0.112-1 [11.8 kB] Get:30 http://mirror.einval.org/debian sid/main arm64 libsub-exporter-perl all 0.988-1 [51.9 kB] Get:31 http://mirror.einval.org/debian sid/main arm64 libconst-fast-perl all 0.014-1.1 [8552 B] Get:32 http://mirror.einval.org/debian sid/main arm64 libcpanel-json-xs-perl arm64 4.27-1 [126 kB] Get:33 http://mirror.einval.org/debian sid/main arm64 libdevel-stacktrace-perl all 2.0400-1 [28.6 kB] Get:34 http://mirror.einval.org/debian sid/main arm64 libexception-class-perl all 1.45-1 [34.6 kB] Get:35 http://mirror.einval.org/debian sid/main arm64 libiterator-perl all 0.03+ds1-1.1 [18.4 kB] Get:36 http://mirror.einval.org/debian sid/main arm64 libiterator-util-perl all 0.02+ds1-1.1 [13.7 kB] Get:37 http://mirror.einval.org/debian sid/main arm64 libexporter-tiny-perl all 1.002002-1 [37.8 kB] Get:38 http://mirror.einval.org/debian sid/main arm64 liblist-moreutils-xs-perl arm64 0.430-2 [36.8 kB] Get:39 http://mirror.einval.org/debian sid/main arm64 liblist-moreutils-perl all 0.430-2 [46.9 kB] Get:40 http://mirror.einval.org/debian sid/main arm64 libdata-dpath-perl all 0.58-1 [43.5 kB] Get:41 http://mirror.einval.org/debian sid/main arm64 libdata-messagepack-perl arm64 1.01-2 [34.3 kB] Get:42 http://mirror.einval.org/debian sid/main arm64 libnet-domain-tld-perl all 1.75-1.1 [33.5 kB] Get:43 http://mirror.einval.org/debian sid/main arm64 libdata-validate-domain-perl all 0.10-1.1 [11.1 kB] Get:44 http://mirror.einval.org/debian sid/main arm64 libdevel-size-perl arm64 0.83-1+b2 [25.8 kB] Get:45 http://mirror.einval.org/debian sid/main arm64 libemail-address-xs-perl arm64 1.04-1+b3 [26.7 kB] Get:46 http://mirror.einval.org/debian sid/main arm64 libipc-system-simple-perl all 1.30-1 [28.2 kB] Get:47 http://mirror.einval.org/debian sid/main arm64 libfile-basedir-perl all 0.09-1 [16.4 kB] Get:48 http://mirror.einval.org/debian sid/main arm64 libnumber-compare-perl all 0.03-2 [7448 B] Get:49 http://mirror.einval.org/debian sid/main arm64 libtext-glob-perl all 0.11-2 [8992 B] Get:50 http://mirror.einval.org/debian sid/main arm64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:51 http://mirror.einval.org/debian sid/main arm64 libfont-ttf-perl all 1.06-1.1 [318 kB] Get:52 http://mirror.einval.org/debian sid/main arm64 libhtml-html5-entities-perl all 0.004-1.1 [21.3 kB] Get:53 http://mirror.einval.org/debian sid/main arm64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:54 http://mirror.einval.org/debian sid/main arm64 libio-interactive-perl all 1.023-1 [11.5 kB] Get:55 http://mirror.einval.org/debian sid/main arm64 libio-prompt-tiny-perl all 0.003-1 [9150 B] Get:56 http://mirror.einval.org/debian sid/main arm64 libipc-run3-perl all 0.048-2 [34.2 kB] Get:57 http://mirror.einval.org/debian sid/main arm64 libjson-maybexs-perl all 1.004003-1 [13.1 kB] Get:58 http://mirror.einval.org/debian sid/main arm64 liblist-compare-perl all 0.55-1 [66.9 kB] Get:59 http://mirror.einval.org/debian sid/main arm64 liblist-someutils-perl all 0.58-1 [36.5 kB] Get:60 http://mirror.einval.org/debian sid/main arm64 liblist-utilsby-perl all 0.11-1 [15.4 kB] Get:61 http://mirror.einval.org/debian sid/main arm64 liblzo2-2 arm64 2.10-2 [51.8 kB] Get:62 http://mirror.einval.org/debian sid/main arm64 libmarkdown2 arm64 2.2.7-2 [34.1 kB] Get:63 http://mirror.einval.org/debian sid/main arm64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get:64 http://mirror.einval.org/debian sid/main arm64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:65 http://mirror.einval.org/debian sid/main arm64 libmoo-perl all 2.005004-2 [60.4 kB] Get:66 http://mirror.einval.org/debian sid/main arm64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:67 http://mirror.einval.org/debian sid/main arm64 libmoox-aliases-perl all 0.001006-1.1 [10.8 kB] Get:68 http://mirror.einval.org/debian sid/main arm64 libmouse-perl arm64 2.5.10-1+b1 [170 kB] Get:69 http://mirror.einval.org/debian sid/main arm64 libpackage-stash-perl all 0.39-1 [21.9 kB] Get:70 http://mirror.einval.org/debian sid/main arm64 libsub-identify-perl arm64 0.14-1+b3 [11.9 kB] Get:71 http://mirror.einval.org/debian sid/main arm64 libsub-name-perl arm64 0.26-1+b1 [13.5 kB] Get:72 http://mirror.einval.org/debian sid/main arm64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:73 http://mirror.einval.org/debian sid/main arm64 libpath-tiny-perl all 0.120-1 [54.7 kB] Get:74 http://mirror.einval.org/debian sid/main arm64 libperlio-gzip-perl arm64 0.19-1+b7 [17.0 kB] Get:75 http://mirror.einval.org/debian sid/main arm64 libperlio-utf8-strict-perl arm64 0.008-1+b1 [11.8 kB] Get:76 http://mirror.einval.org/debian sid/main arm64 libproc-processtable-perl arm64 0.634-1 [46.1 kB] Get:77 http://mirror.einval.org/debian sid/main arm64 libsereal-decoder-perl arm64 4.018+ds-1+b1 [95.3 kB] Get:78 http://mirror.einval.org/debian sid/main arm64 libsereal-encoder-perl arm64 4.018+ds-1+b1 [98.3 kB] Get:79 http://mirror.einval.org/debian sid/main arm64 libsort-versions-perl all 1.62-1 [11.0 kB] Get:80 http://mirror.einval.org/debian sid/main arm64 libterm-readkey-perl arm64 2.38-1+b2 [27.3 kB] Get:81 http://mirror.einval.org/debian sid/main arm64 libtext-levenshteinxs-perl arm64 0.03-4+b8 [8680 B] Get:82 http://mirror.einval.org/debian sid/main arm64 libtext-markdown-discount-perl arm64 0.13-1 [13.1 kB] Get:83 http://mirror.einval.org/debian sid/main arm64 libtext-xslate-perl arm64 3.5.9-1 [195 kB] Get:84 http://mirror.einval.org/debian sid/main arm64 libtime-duration-perl all 1.21-1 [13.7 kB] Get:85 http://mirror.einval.org/debian sid/main arm64 libtime-moment-perl arm64 0.44-1+b3 [75.1 kB] Get:86 http://mirror.einval.org/debian sid/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get:87 http://mirror.einval.org/debian sid/main arm64 libtype-tiny-perl all 1.012004-1 [351 kB] Get:88 http://mirror.einval.org/debian sid/main arm64 libunicode-utf8-perl arm64 0.62-1+b2 [19.8 kB] Get:89 http://mirror.einval.org/debian sid/main arm64 liburi-perl all 5.10-1 [91.0 kB] Get:90 http://mirror.einval.org/debian sid/main arm64 libyaml-0-2 arm64 0.2.2-1 [45.1 kB] Get:91 http://mirror.einval.org/debian sid/main arm64 libyaml-libyaml-perl arm64 0.83+ds-1 [34.2 kB] Get:92 http://mirror.einval.org/debian sid/main arm64 lzip arm64 1.22-4 [84.6 kB] Get:93 http://mirror.einval.org/debian sid/main arm64 lzop arm64 1.04-2 [82.8 kB] Get:94 http://mirror.einval.org/debian sid/main arm64 patchutils arm64 0.4.2-1 [73.5 kB] Get:95 http://mirror.einval.org/debian sid/main arm64 t1utils arm64 1.41-4 [59.8 kB] Get:96 http://mirror.einval.org/debian sid/main arm64 unzip arm64 6.0-26 [165 kB] Get:97 http://mirror.einval.org/debian sid/main arm64 lintian all 2.111.0 [1340 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7670 kB in 0s (41.5 MB/s) Selecting previously unselected package readline-common. (Reading database ... 19035 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.1-2_all.deb ... Unpacking readline-common (8.1-2) ... Selecting previously unselected package libreadline8:arm64. Preparing to unpack .../01-libreadline8_8.1-2_arm64.deb ... Unpacking libreadline8:arm64 (8.1-2) ... Selecting previously unselected package diffstat. Preparing to unpack .../02-diffstat_1.64-1_arm64.deb ... Unpacking diffstat (1.64-1) ... Selecting previously unselected package libassuan0:arm64. Preparing to unpack .../03-libassuan0_2.5.5-1_arm64.deb ... Unpacking libassuan0:arm64 (2.5.5-1) ... Selecting previously unselected package gpgconf. Preparing to unpack .../04-gpgconf_2.2.27-2_arm64.deb ... Unpacking gpgconf (2.2.27-2) ... Selecting previously unselected package libsqlite3-0:arm64. Preparing to unpack .../05-libsqlite3-0_3.36.0-2_arm64.deb ... Unpacking libsqlite3-0:arm64 (3.36.0-2) ... Selecting previously unselected package gpg. Preparing to unpack .../06-gpg_2.2.27-2_arm64.deb ... Unpacking gpg (2.2.27-2) ... Selecting previously unselected package libaliased-perl. Preparing to unpack .../07-libaliased-perl_0.34-1.1_all.deb ... Unpacking libaliased-perl (0.34-1.1) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../08-libapt-pkg-perl_0.1.40_arm64.deb ... Unpacking libapt-pkg-perl (0.1.40) ... Selecting previously unselected package libb-hooks-op-check-perl. Preparing to unpack .../09-libb-hooks-op-check-perl_0.22-1+b3_arm64.deb ... Unpacking libb-hooks-op-check-perl (0.22-1+b3) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../10-libdynaloader-functions-perl_0.003-1.1_all.deb ... Unpacking libdynaloader-functions-perl (0.003-1.1) ... Selecting previously unselected package libdevel-callchecker-perl. Preparing to unpack .../11-libdevel-callchecker-perl_0.008-1+b2_arm64.deb ... Unpacking libdevel-callchecker-perl (0.008-1+b2) ... Selecting previously unselected package libparams-classify-perl. Preparing to unpack .../12-libparams-classify-perl_0.015-1+b3_arm64.deb ... Unpacking libparams-classify-perl (0.015-1+b3) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../13-libmodule-runtime-perl_0.016-1_all.deb ... Unpacking libmodule-runtime-perl (0.016-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../14-libtry-tiny-perl_0.30-1_all.deb ... Unpacking libtry-tiny-perl (0.30-1) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../15-libmodule-implementation-perl_0.09-1.1_all.deb ... Unpacking libmodule-implementation-perl (0.09-1.1) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../16-libsub-exporter-progressive-perl_0.001013-1_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-1) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../17-libvariable-magic-perl_0.62-1+b3_arm64.deb ... Unpacking libvariable-magic-perl (0.62-1+b3) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../18-libb-hooks-endofscope-perl_0.25-1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.25-1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../19-libcapture-tiny-perl_0.48-1_all.deb ... Unpacking libcapture-tiny-perl (0.48-1) ... Selecting previously unselected package libclass-data-inheritable-perl. Preparing to unpack .../20-libclass-data-inheritable-perl_0.08-3_all.deb ... Unpacking libclass-data-inheritable-perl (0.08-3) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../21-libclass-method-modifiers-perl_2.13-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.13-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../22-libclass-xsaccessor-perl_1.19-3+b7_arm64.deb ... Unpacking libclass-xsaccessor-perl (1.19-3+b7) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../23-libclone-perl_0.45-1+b1_arm64.deb ... Unpacking libclone-perl (0.45-1+b1) ... Selecting previously unselected package libconfig-tiny-perl. Preparing to unpack .../24-libconfig-tiny-perl_2.27-1_all.deb ... Unpacking libconfig-tiny-perl (2.27-1) ... Selecting previously unselected package libparams-util-perl. Preparing to unpack .../25-libparams-util-perl_1.102-1+b1_arm64.deb ... Unpacking libparams-util-perl (1.102-1+b1) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../26-libsub-install-perl_0.928-1.1_all.deb ... Unpacking libsub-install-perl (0.928-1.1) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../27-libdata-optlist-perl_0.112-1_all.deb ... Unpacking libdata-optlist-perl (0.112-1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../28-libsub-exporter-perl_0.988-1_all.deb ... Unpacking libsub-exporter-perl (0.988-1) ... Selecting previously unselected package libconst-fast-perl. Preparing to unpack .../29-libconst-fast-perl_0.014-1.1_all.deb ... Unpacking libconst-fast-perl (0.014-1.1) ... Selecting previously unselected package libcpanel-json-xs-perl:arm64. Preparing to unpack .../30-libcpanel-json-xs-perl_4.27-1_arm64.deb ... Unpacking libcpanel-json-xs-perl:arm64 (4.27-1) ... Selecting previously unselected package libdevel-stacktrace-perl. Preparing to unpack .../31-libdevel-stacktrace-perl_2.0400-1_all.deb ... Unpacking libdevel-stacktrace-perl (2.0400-1) ... Selecting previously unselected package libexception-class-perl. Preparing to unpack .../32-libexception-class-perl_1.45-1_all.deb ... Unpacking libexception-class-perl (1.45-1) ... Selecting previously unselected package libiterator-perl. Preparing to unpack .../33-libiterator-perl_0.03+ds1-1.1_all.deb ... Unpacking libiterator-perl (0.03+ds1-1.1) ... Selecting previously unselected package libiterator-util-perl. Preparing to unpack .../34-libiterator-util-perl_0.02+ds1-1.1_all.deb ... Unpacking libiterator-util-perl (0.02+ds1-1.1) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../35-libexporter-tiny-perl_1.002002-1_all.deb ... Unpacking libexporter-tiny-perl (1.002002-1) ... Selecting previously unselected package liblist-moreutils-xs-perl. Preparing to unpack .../36-liblist-moreutils-xs-perl_0.430-2_arm64.deb ... Unpacking liblist-moreutils-xs-perl (0.430-2) ... Selecting previously unselected package liblist-moreutils-perl. Preparing to unpack .../37-liblist-moreutils-perl_0.430-2_all.deb ... Unpacking liblist-moreutils-perl (0.430-2) ... Selecting previously unselected package libdata-dpath-perl. Preparing to unpack .../38-libdata-dpath-perl_0.58-1_all.deb ... Unpacking libdata-dpath-perl (0.58-1) ... Selecting previously unselected package libdata-messagepack-perl. Preparing to unpack .../39-libdata-messagepack-perl_1.01-2_arm64.deb ... Unpacking libdata-messagepack-perl (1.01-2) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../40-libnet-domain-tld-perl_1.75-1.1_all.deb ... Unpacking libnet-domain-tld-perl (1.75-1.1) ... Selecting previously unselected package libdata-validate-domain-perl. Preparing to unpack .../41-libdata-validate-domain-perl_0.10-1.1_all.deb ... Unpacking libdata-validate-domain-perl (0.10-1.1) ... Selecting previously unselected package libdevel-size-perl. Preparing to unpack .../42-libdevel-size-perl_0.83-1+b2_arm64.deb ... Unpacking libdevel-size-perl (0.83-1+b2) ... Selecting previously unselected package libemail-address-xs-perl. 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Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package libfont-ttf-perl. Preparing to unpack .../49-libfont-ttf-perl_1.06-1.1_all.deb ... Unpacking libfont-ttf-perl (1.06-1.1) ... Selecting previously unselected package libhtml-html5-entities-perl. Preparing to unpack .../50-libhtml-html5-entities-perl_0.004-1.1_all.deb ... Unpacking libhtml-html5-entities-perl (0.004-1.1) ... Selecting previously unselected package libimport-into-perl. Preparing to unpack .../51-libimport-into-perl_1.002005-1_all.deb ... Unpacking libimport-into-perl (1.002005-1) ... Selecting previously unselected package libio-interactive-perl. Preparing to unpack .../52-libio-interactive-perl_1.023-1_all.deb ... Unpacking libio-interactive-perl (1.023-1) ... Selecting previously unselected package libio-prompt-tiny-perl. Preparing to unpack .../53-libio-prompt-tiny-perl_0.003-1_all.deb ... Unpacking libio-prompt-tiny-perl (0.003-1) ... 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I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Build-Space: 44596 Build-Time: 193 Distribution: unstable Foreign Architectures: amd64 Host Architecture: amd64 Install-Time: 64 Job: crac_2.5.2+dfsg-5 Lintian: pass Machine Architecture: arm64 Package: crac Package-Time: 296 Source-Version: 2.5.2+dfsg-5 Space: 44596 Status: successful Version: 2.5.2+dfsg-5 -------------------------------------------------------------------------------- Finished at 2021-11-13T03:06:29Z Build needed 00:04:56, 44596k disk space