I: pbuilder: network access will be disabled during build I: Current time: Mon Jan 24 04:56:16 +14 2022 I: pbuilder-time-stamp: 1642949776 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [ngs-sdk_2.10.9-1.dsc] I: copying [./ngs-sdk_2.10.9.orig.tar.gz] I: copying [./ngs-sdk_2.10.9-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.hPB7OL4h/trustedkeys.kbx': General error gpgv: Signature made Mon Jan 18 08:13:46 2021 +14 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 ./ngs-sdk_2.10.9-1.dsc dpkg-source: info: extracting ngs-sdk in ngs-sdk-2.10.9 dpkg-source: info: unpacking ngs-sdk_2.10.9.orig.tar.gz dpkg-source: info: unpacking ngs-sdk_2.10.9-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_jni.patch dpkg-source: info: applying do_not_exclude_certain_architectures_explicitly.patch dpkg-source: info: applying fallback-on-generic-atomic32.patch dpkg-source: info: applying enable-ppc64el.patch dpkg-source: info: applying more_archs I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/930990/tmp/hooks/D01_modify_environment starting debug: Running on ionos11-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/930990/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/930990/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=15' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=2c9055523a7946a6b8ae00d70337a4a0 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=930990 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.qq4H7E3Ji8/pbuilderrc_M9U4 --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.qq4H7E3Ji8/b2 --logfile b2/build.log ngs-sdk_2.10.9-1.dsc' SUDO_GID=111 SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://78.137.99.97:3128 I: uname -a Linux i-capture-the-hostname 5.10.0-11-amd64 #1 SMP Debian 5.10.92-1 (2022-01-18) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 5 10:25 bash -rwxr-xr-x 3 root root 38984 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 24 2020 cat -rwxr-xr-x 1 root root 72672 Sep 24 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 24 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 24 2020 chown -rwxr-xr-x 1 root root 151168 Sep 24 2020 cp -rwxr-xr-x 1 root root 125560 Dec 11 2020 dash -rwxr-xr-x 1 root root 113664 Sep 24 2020 date -rwxr-xr-x 1 root root 80968 Sep 24 2020 dd -rwxr-xr-x 1 root root 93936 Sep 24 2020 df -rwxr-xr-x 1 root root 147176 Sep 24 2020 dir -rwxr-xr-x 1 root root 84440 Jul 29 09:09 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 24 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 24 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 29 09:09 findmnt -rwsr-xr-x 1 root root 34896 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 3 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 8 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 24 2020 ln -rwxr-xr-x 1 root root 56952 Feb 8 2020 login -rwxr-xr-x 1 root root 147176 Sep 24 2020 ls -rwxr-xr-x 1 root root 149736 Jul 29 09:09 lsblk -rwxr-xr-x 1 root root 85184 Sep 24 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 24 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 24 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 29 09:09 more -rwsr-xr-x 1 root root 55528 Jul 29 09:09 mount -rwxr-xr-x 1 root root 18664 Jul 29 09:09 mountpoint -rwxr-xr-x 1 root root 147080 Sep 24 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 24 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 10:25 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 24 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 24 2020 rm -rwxr-xr-x 1 root root 52032 Sep 24 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jan 24 04:56 sh -> bash lrwxrwxrwx 1 root root 4 Jan 21 23:25 sh.distrib -> dash -rwxr-xr-x 1 root root 43808 Sep 24 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 24 2020 stty -rwsr-xr-x 1 root root 71912 Jul 29 09:09 su -rwxr-xr-x 1 root root 39744 Sep 24 2020 sync -rwxr-xr-x 1 root root 531928 Feb 17 2021 tar -rwxr-xr-x 1 root root 14456 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 24 2020 touch -rwxr-xr-x 1 root root 39680 Sep 24 2020 true -rwxr-xr-x 1 root root 14328 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 29 09:09 umount -rwxr-xr-x 1 root root 39744 Sep 24 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 24 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 29 09:09 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew I: user script /srv/workspace/pbuilder/930990/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), d-shlibs, markdown, python3-all, python3-distutils, dh-python, javahelper, maven-repo-helper, default-jdk dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on markdown; however: Package markdown is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-distutils; however: Package python3-distutils is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on maven-repo-helper; however: Package maven-repo-helper is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} d-shlibs{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} gnupg{a} gnupg-l10n{a} gnupg-utils{a} gpg{a} gpg-agent{a} gpg-wks-client{a} gpg-wks-server{a} gpgconf{a} gpgsm{a} groff-base{a} intltool-debian{a} java-common{a} javahelper{a} libarchive-zip-perl{a} libasound2{a} libasound2-data{a} libassuan0{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli1{a} libbsd0{a} libclass-method-modifiers-perl{a} libcups2{a} libdbus-1-3{a} libdebhelper-perl{a} libdevel-callchecker-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libelf1{a} libencode-locale-perl{a} libexpat1{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgraphite2-3{a} libharfbuzz0b{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libicu67{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libjpeg62-turbo{a} libksba8{a} liblcms2-2{a} libldap-2.4-2{a} libllvm11{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmodule-runtime-perl{a} libmoo-perl{a} libmpdec3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnpth0{a} libnspr4{a} libnss3{a} libparams-classify-perl{a} libpciaccess0{a} libpcsclite1{a} libpipeline1{a} libpng16-16{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} librole-tiny-perl{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libstrictures-perl{a} libsub-override-perl{a} libsub-quote-perl{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} liburi-perl{a} libvulkan1{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxml2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} m4{a} man-db{a} markdown{a} maven-repo-helper{a} media-types{a} netbase{a} openjdk-11-jdk{a} openjdk-11-jdk-headless{a} openjdk-11-jre{a} openjdk-11-jre-headless{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} po-debconf{a} python3{a} python3-all{a} python3-distutils{a} python3-lib2to3{a} python3-minimal{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} ucf{a} wdiff{a} x11-common{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf curl dbus debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra libarchive-cpio-perl libatk-wrapper-java-jni libclass-xsaccessor-perl libclone-perl libdata-dump-perl libdistro-info-perl libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libsub-name-perl libxt-dev licensecheck lintian lynx mesa-vulkan-drivers pristine-tar python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg shared-mime-info strace unzip wget xdg-user-dirs 0 packages upgraded, 189 newly installed, 0 to remove and 0 not upgraded. Need to get 346 MB of archives. After unpacking 700 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 netbase all 6.3 [19.9 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 openssl amd64 1.1.1k-1+deb11u1 [851 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 ca-certificates all 20210119 [158 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 ucf all 3.0043 [74.0 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 java-common all 0.72 [14.5 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libavahi-common-data amd64 0.8-5 [124 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 libavahi-common3 amd64 0.8-5 [58.4 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libdbus-1-3 amd64 1.12.20-2 [219 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 libavahi-client3 amd64 0.8-5 [62.1 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libcups2 amd64 2.3.3op2-3+deb11u1 [350 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 liblcms2-2 amd64 2.12~rc1-2 [150 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libfreetype6 amd64 2.10.4+dfsg-1 [418 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 libnspr4 amd64 2:4.29-1 [112 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 libnss3 amd64 2:3.61-1+deb11u1 [1305 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 libasound2-data all 1.2.4-1.1 [38.2 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 libasound2 amd64 1.2.4-1.1 [356 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1 [1370 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libharfbuzz0b amd64 2.7.4-1 [1471 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libpcsclite1 amd64 1.9.1-1 [60.2 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 openjdk-11-jre-headless amd64 11.0.12+7-2 [37.3 MB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 default-jre-headless amd64 2:1.11-72 [10.9 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 ca-certificates-java all 20190909 [15.7 kB] Get: 58 http://deb.debian.org/debian bullseye/main amd64 d-shlibs all 0.98 [17.9 kB] Get: 59 http://deb.debian.org/debian bullseye/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 67 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 68 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 70 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 71 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 72 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 73 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 75 http://deb.debian.org/debian bullseye/main amd64 libglvnd0 amd64 1.3.2-1 [53.6 kB] Get: 76 http://deb.debian.org/debian bullseye/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 77 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get: 78 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1 [108 kB] Get: 79 http://deb.debian.org/debian bullseye/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 80 http://deb.debian.org/debian bullseye/main amd64 libxcb1 amd64 1.14-3 [140 kB] Get: 81 http://deb.debian.org/debian bullseye/main amd64 libx11-data all 2:1.7.2-1 [311 kB] Get: 82 http://deb.debian.org/debian bullseye/main amd64 libx11-6 amd64 2:1.7.2-1 [772 kB] Get: 83 http://deb.debian.org/debian bullseye/main amd64 libdrm-common all 2.4.104-1 [14.9 kB] Get: 84 http://deb.debian.org/debian bullseye/main amd64 libdrm2 amd64 2.4.104-1 [41.5 kB] Get: 85 http://deb.debian.org/debian bullseye/main amd64 libglapi-mesa amd64 20.3.5-1 [71.7 kB] Get: 86 http://deb.debian.org/debian bullseye/main amd64 libx11-xcb1 amd64 2:1.7.2-1 [203 kB] Get: 87 http://deb.debian.org/debian bullseye/main amd64 libxcb-dri2-0 amd64 1.14-3 [103 kB] Get: 88 http://deb.debian.org/debian bullseye/main amd64 libxcb-dri3-0 amd64 1.14-3 [102 kB] Get: 89 http://deb.debian.org/debian bullseye/main amd64 libxcb-glx0 amd64 1.14-3 [118 kB] Get: 90 http://deb.debian.org/debian bullseye/main amd64 libxcb-present0 amd64 1.14-3 [101 kB] Get: 91 http://deb.debian.org/debian bullseye/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB] Get: 92 http://deb.debian.org/debian bullseye/main amd64 libxcb-sync1 amd64 1.14-3 [105 kB] Get: 93 http://deb.debian.org/debian bullseye/main amd64 libxcb-xfixes0 amd64 1.14-3 [105 kB] Get: 94 http://deb.debian.org/debian bullseye/main amd64 libxdamage1 amd64 1:1.1.5-2 [15.7 kB] Get: 95 http://deb.debian.org/debian bullseye/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB] Get: 96 http://deb.debian.org/debian bullseye/main amd64 libxfixes3 amd64 1:5.0.3-2 [22.1 kB] Get: 97 http://deb.debian.org/debian bullseye/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get: 98 http://deb.debian.org/debian bullseye/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get: 99 http://deb.debian.org/debian bullseye/main amd64 libdrm-amdgpu1 amd64 2.4.104-1 [28.5 kB] Get: 100 http://deb.debian.org/debian bullseye/main amd64 libpciaccess0 amd64 0.16-1 [53.6 kB] Get: 101 http://deb.debian.org/debian bullseye/main amd64 libdrm-intel1 amd64 2.4.104-1 [71.8 kB] Get: 102 http://deb.debian.org/debian bullseye/main amd64 libdrm-nouveau2 amd64 2.4.104-1 [26.8 kB] Get: 103 http://deb.debian.org/debian bullseye/main amd64 libdrm-radeon1 amd64 2.4.104-1 [30.2 kB] Get: 104 http://deb.debian.org/debian bullseye/main amd64 libedit2 amd64 3.1-20191231-2+b1 [96.7 kB] Get: 105 http://deb.debian.org/debian bullseye/main amd64 libz3-4 amd64 4.8.10-1 [6949 kB] Get: 106 http://deb.debian.org/debian bullseye/main amd64 libllvm11 amd64 1:11.0.1-2 [17.9 MB] Get: 107 http://deb.debian.org/debian bullseye/main amd64 libsensors-config all 1:3.6.0-7 [32.3 kB] Get: 108 http://deb.debian.org/debian bullseye/main amd64 libsensors5 amd64 1:3.6.0-7 [52.3 kB] Get: 109 http://deb.debian.org/debian bullseye/main amd64 libvulkan1 amd64 1.2.162.0-1 [103 kB] Get: 110 http://deb.debian.org/debian bullseye/main amd64 libgl1-mesa-dri amd64 20.3.5-1 [9633 kB] Get: 111 http://deb.debian.org/debian bullseye/main amd64 libglx-mesa0 amd64 20.3.5-1 [186 kB] Get: 112 http://deb.debian.org/debian bullseye/main amd64 libglx0 amd64 1.3.2-1 [35.7 kB] Get: 113 http://deb.debian.org/debian bullseye/main amd64 libgl1 amd64 1.3.2-1 [89.5 kB] Get: 114 http://deb.debian.org/debian bullseye/main amd64 libgif7 amd64 5.1.9-2 [45.1 kB] Get: 115 http://deb.debian.org/debian bullseye/main amd64 libxi6 amd64 2:1.7.10-1 [83.4 kB] Get: 116 http://deb.debian.org/debian bullseye/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get: 117 http://deb.debian.org/debian bullseye/main amd64 x11-common all 1:7.7+22 [252 kB] Get: 118 http://deb.debian.org/debian bullseye/main amd64 libxtst6 amd64 2:1.2.3-1 [27.8 kB] Get: 119 http://deb.debian.org/debian bullseye/main amd64 openjdk-11-jre amd64 11.0.12+7-2 [176 kB] Get: 120 http://deb.debian.org/debian bullseye/main amd64 default-jre amd64 2:1.11-72 [1044 B] Get: 121 http://deb.debian.org/debian bullseye/main amd64 openjdk-11-jdk-headless amd64 11.0.12+7-2 [217 MB] Get: 122 http://deb.debian.org/debian bullseye/main amd64 default-jdk-headless amd64 2:1.11-72 [1100 B] Get: 123 http://deb.debian.org/debian bullseye/main amd64 openjdk-11-jdk amd64 11.0.12+7-2 [7101 kB] Get: 124 http://deb.debian.org/debian bullseye/main amd64 default-jdk amd64 2:1.11-72 [1056 B] Get: 125 http://deb.debian.org/debian bullseye/main amd64 libassuan0 amd64 2.5.3-7.1 [50.5 kB] Get: 126 http://deb.debian.org/debian bullseye/main amd64 gpgconf amd64 2.2.27-2 [547 kB] Get: 127 http://deb.debian.org/debian bullseye/main amd64 libksba8 amd64 1.5.0-3 [123 kB] Get: 128 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 129 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 130 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 131 http://deb.debian.org/debian bullseye/main amd64 libnpth0 amd64 1.6-3 [19.0 kB] Get: 132 http://deb.debian.org/debian bullseye/main amd64 dirmngr amd64 2.2.27-2 [762 kB] Get: 133 http://deb.debian.org/debian bullseye/main amd64 gnupg-l10n all 2.2.27-2 [1084 kB] Get: 134 http://deb.debian.org/debian bullseye/main amd64 gnupg-utils amd64 2.2.27-2 [905 kB] Get: 135 http://deb.debian.org/debian bullseye/main amd64 gpg amd64 2.2.27-2 [927 kB] Get: 136 http://deb.debian.org/debian bullseye/main amd64 pinentry-curses amd64 1.1.0-4 [64.9 kB] Get: 137 http://deb.debian.org/debian bullseye/main amd64 gpg-agent amd64 2.2.27-2 [669 kB] Get: 138 http://deb.debian.org/debian bullseye/main amd64 gpg-wks-client amd64 2.2.27-2 [523 kB] Get: 139 http://deb.debian.org/debian bullseye/main amd64 gpg-wks-server amd64 2.2.27-2 [516 kB] Get: 140 http://deb.debian.org/debian bullseye/main amd64 gpgsm amd64 2.2.27-2 [645 kB] Get: 141 http://deb.debian.org/debian bullseye/main amd64 gnupg all 2.2.27-2 [825 kB] Get: 142 http://deb.debian.org/debian bullseye/main amd64 libfile-dirlist-perl all 0.05-2 [7444 B] Get: 143 http://deb.debian.org/debian bullseye/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get: 144 http://deb.debian.org/debian bullseye/main amd64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get: 145 http://deb.debian.org/debian bullseye/main amd64 libfile-touch-perl all 0.11-1 [9254 B] Get: 146 http://deb.debian.org/debian bullseye/main amd64 libio-pty-perl amd64 1:1.15-2 [37.0 kB] Get: 147 http://deb.debian.org/debian bullseye/main amd64 libipc-run-perl all 20200505.0-1 [102 kB] Get: 148 http://deb.debian.org/debian bullseye/main amd64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB] Get: 149 http://deb.debian.org/debian bullseye/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b3 [11.3 kB] Get: 150 http://deb.debian.org/debian bullseye/main amd64 libdynaloader-functions-perl all 0.003-1.1 [12.7 kB] Get: 151 http://deb.debian.org/debian bullseye/main amd64 libdevel-callchecker-perl amd64 0.008-1+b2 [15.9 kB] Get: 152 http://deb.debian.org/debian bullseye/main amd64 libparams-classify-perl amd64 0.015-1+b3 [25.7 kB] Get: 153 http://deb.debian.org/debian bullseye/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get: 154 http://deb.debian.org/debian bullseye/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get: 155 http://deb.debian.org/debian bullseye/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 156 http://deb.debian.org/debian bullseye/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get: 157 http://deb.debian.org/debian bullseye/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get: 158 http://deb.debian.org/debian bullseye/main amd64 libmoo-perl all 2.004004-1 [59.9 kB] Get: 159 http://deb.debian.org/debian bullseye/main amd64 libencode-locale-perl all 1.05-1.1 [13.2 kB] Get: 160 http://deb.debian.org/debian bullseye/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 161 http://deb.debian.org/debian bullseye/main amd64 libhttp-date-perl all 6.05-1 [10.4 kB] Get: 162 http://deb.debian.org/debian bullseye/main amd64 libfile-listing-perl all 6.14-1 [12.4 kB] Get: 163 http://deb.debian.org/debian bullseye/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB] Get: 164 http://deb.debian.org/debian bullseye/main amd64 liburi-perl all 5.08-1 [90.6 kB] Get: 165 http://deb.debian.org/debian bullseye/main amd64 libhtml-parser-perl amd64 3.75-1+b1 [105 kB] Get: 166 http://deb.debian.org/debian bullseye/main amd64 libhtml-tree-perl all 5.07-2 [213 kB] Get: 167 http://deb.debian.org/debian bullseye/main amd64 libio-html-perl all 1.004-2 [16.1 kB] Get: 168 http://deb.debian.org/debian bullseye/main amd64 liblwp-mediatypes-perl all 6.04-1 [19.9 kB] Get: 169 http://deb.debian.org/debian bullseye/main amd64 libhttp-message-perl all 6.28-1 [79.6 kB] Get: 170 http://deb.debian.org/debian bullseye/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get: 171 http://deb.debian.org/debian bullseye/main amd64 libhttp-negotiate-perl all 6.01-1 [12.8 kB] Get: 172 http://deb.debian.org/debian bullseye/main amd64 perl-openssl-defaults amd64 5 [7360 B] Get: 173 http://deb.debian.org/debian bullseye/main amd64 libnet-ssleay-perl amd64 1.88-3+b1 [321 kB] Get: 174 http://deb.debian.org/debian bullseye/main amd64 libio-socket-ssl-perl all 2.069-1 [215 kB] Get: 175 http://deb.debian.org/debian bullseye/main amd64 libnet-http-perl all 6.20-1 [25.1 kB] Get: 176 http://deb.debian.org/debian bullseye/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get: 177 http://deb.debian.org/debian bullseye/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get: 178 http://deb.debian.org/debian bullseye/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 179 http://deb.debian.org/debian bullseye/main amd64 libwww-perl all 6.52-1 [192 kB] Get: 180 http://deb.debian.org/debian bullseye/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get: 181 http://deb.debian.org/debian bullseye/main amd64 wdiff amd64 1.2.2-2+b1 [122 kB] Get: 182 http://deb.debian.org/debian bullseye/main amd64 devscripts amd64 2.21.3+deb11u1 [1093 kB] Get: 183 http://deb.debian.org/debian bullseye/main amd64 python3-lib2to3 all 3.9.2-1 [77.8 kB] Get: 184 http://deb.debian.org/debian bullseye/main amd64 python3-distutils all 3.9.2-1 [143 kB] Get: 185 http://deb.debian.org/debian bullseye/main amd64 dh-python all 4.20201102+nmu1 [99.4 kB] Get: 186 http://deb.debian.org/debian bullseye/main amd64 javahelper all 0.78 [97.2 kB] Get: 187 http://deb.debian.org/debian bullseye/main amd64 markdown all 1.0.1-10.1 [17.5 kB] Get: 188 http://deb.debian.org/debian bullseye/main amd64 maven-repo-helper all 1.10 [142 kB] Get: 189 http://deb.debian.org/debian bullseye/main amd64 python3-all amd64 3.9.2-3 [1056 B] Fetched 346 MB in 4s (82.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19655 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../1-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../3-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../4-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libpython3.9-minimal:amd64. Preparing to unpack .../5-libpython3.9-minimal_3.9.2-1_amd64.deb ... Unpacking libpython3.9-minimal:amd64 (3.9.2-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../6-libexpat1_2.2.10-2_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../7-python3.9-minimal_3.9.2-1_amd64.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:amd64 (3.9.2-1) ... Setting up libexpat1:amd64 (2.2.10-2) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (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 ... 20522 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_amd64.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package libmpdec3:amd64. 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Unpacking python3-all (3.9.2-3) ... Setting up libksba8:amd64 (1.5.0-3) ... Setting up media-types (4.0.0) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libgraphite2-3:amd64 (1.3.14-1) ... Setting up liblcms2-2:amd64 (2.12~rc1-2) ... Setting up wdiff (1.2.2-2+b1) ... Setting up libpciaccess0:amd64 (0.16-1) ... Setting up libfile-which-perl (1.23-1) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up java-common (0.72) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libdynaloader-functions-perl (0.003-1.1) ... Setting up libclass-method-modifiers-perl (2.13-1) ... Setting up libio-pty-perl (1:1.15-2) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1) ... No schema files found: doing nothing. Setting up libglvnd0:amd64 (1.3.2-1) ... Setting up libhtml-tagset-perl (3.20-4) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up liblwp-mediatypes-perl (6.04-1) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libtry-tiny-perl (0.30-1) ... Setting up libsensors-config (1:3.6.0-7) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up perl-openssl-defaults:amd64 (5) ... Setting up gettext-base (0.21-4) ... Setting up libencode-locale-perl (1.05-1.1) ... Setting up libnpth0:amd64 (1.6-3) ... Setting up file (1:5.39-3) ... Setting up libassuan0:amd64 (2.5.3-7.1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up libasound2-data (1.2.4-1.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libz3-4:amd64 (4.8.10-1) ... Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libx11-data (2:1.7.2-1) ... Setting up libnspr4:amd64 (2:4.29-1) ... Setting up gnupg-l10n (2.2.27-2) ... Setting up libavahi-common-data:amd64 (0.8-5) ... Setting up libdbus-1-3:amd64 (1.12.20-2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libio-html-perl (1.004-2) ... Setting up autopoint (0.21-4) ... Setting up libb-hooks-op-check-perl (0.22-1+b3) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up d-shlibs (0.98) ... Setting up libipc-run-perl (20200505.0-1) ... Setting up libpcsclite1:amd64 (1.9.1-1) ... Setting up libsensors5:amd64 (1:3.6.0-7) ... Setting up libglapi-mesa:amd64 (20.3.5-1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up libvulkan1:amd64 (1.2.162.0-1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libgif7:amd64 (5.1.9-2) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libxshmfence1:amd64 (1.3-1) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libasound2:amd64 (1.2.4-1.1) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up netbase (6.3) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libfile-dirlist-perl (0.05-2) ... Setting up libfile-homedir-perl (1.006-1) ... Setting up openssl (1.1.1k-1+deb11u1) ... Setting up libbsd0:amd64 (0.11.3-1) ... Setting up libdrm-common (2.4.104-1) ... Setting up libelf1:amd64 (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7) ... Setting up liburi-perl (5.08-1) ... Setting up libfile-touch-perl (0.11-1) ... Setting up dctrl-tools (2.24-3+b1) ... Setting up markdown (1.0.1-10.1) ... Setting up libnet-ssleay-perl (1.88-3+b1) ... Setting up pinentry-curses (1.1.0-4) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up libhttp-date-perl (6.05-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up libxcb-xfixes0:amd64 (1.14-3) ... Setting up libfile-listing-perl (6.14-1) ... Setting up libtool (2.4.6-15) ... Setting up libxcb-glx0:amd64 (1.14-3) ... Setting up libedit2:amd64 (3.1-20191231-2+b1) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libavahi-common3:amd64 (0.8-5) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3) ... Setting up libnet-http-perl (6.20-1) ... Setting up m4 (1.4.18-5) ... Setting up libnss3:amd64 (2:3.61-1+deb11u1) ... Setting up libxcb-shm0:amd64 (1.14-3) ... Setting up libdevel-callchecker-perl (0.008-1+b2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxcb-present0:amd64 (1.14-3) ... Setting up patchutils (0.4.2-1) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. Setting up libllvm11:amd64 (1:11.0.1-2) ... Setting up libfreetype6:amd64 (2.10.4+dfsg-1) ... Setting up libxcb-sync1:amd64 (1.14-3) ... Setting up ucf (3.0043) ... Setting up autoconf (2.69-14) ... Setting up libxcb-dri2-0:amd64 (1.14-3) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.104-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up libhtml-parser-perl (3.75-1+b1) ... Setting up gpgconf (2.2.27-2) ... Setting up libx11-6:amd64 (2:1.7.2-1) ... Setting up libharfbuzz0b:amd64 (2.7.4-1) ... Setting up libavahi-client3:amd64 (0.8-5) ... Setting up libio-socket-ssl-perl (2.069-1) ... Setting up gpg (2.2.27-2) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up gnupg-utils (2.2.27-2) ... Setting up libhttp-message-perl (6.28-1) ... Setting up libdrm-amdgpu1:amd64 (2.4.104-1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libxcb-dri3-0:amd64 (1.14-3) ... Setting up libx11-xcb1:amd64 (2:1.7.2-1) ... Setting up libhttp-negotiate-perl (6.01-1) ... Setting up libdrm-nouveau2:amd64 (2.4.104-1) ... Setting up libxdamage1:amd64 (1:1.1.5-2) ... Setting up gpg-agent (2.2.27-2) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libdrm-radeon1:amd64 (2.4.104-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-2) ... Setting up libparams-classify-perl (0.015-1+b3) ... Setting up gpgsm (2.2.27-2) ... Setting up libdrm-intel1:amd64 (2.4.104-1) ... Setting up libgl1-mesa-dri:amd64 (20.3.5-1) ... Setting up libxext6:amd64 (2:1.3.3-1.1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up dh-autoreconf (20) ... Setting up dirmngr (2.2.27-2) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libxfixes3:amd64 (1:5.0.3-2) ... Setting up gpg-wks-server (2.2.27-2) ... Setting up libcups2:amd64 (2.3.3op2-3+deb11u1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up python3.9 (3.9.2-1) ... Setting up libglx-mesa0:amd64 (20.3.5-1) ... Setting up libxi6:amd64 (2:1.7.10-1) ... Setting up gpg-wks-client (2.2.27-2) ... Setting up libglx0:amd64 (1.3.2-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libxtst6:amd64 (2:1.2.3-1) ... Setting up libmoo-perl (2.004004-1) ... Setting up debhelper (13.3.4) ... Setting up python3 (3.9.2-3) ... Setting up libgl1:amd64 (1.3.2-1) ... Setting up gnupg (2.2.27-2) ... Setting up python3-lib2to3 (3.9.2-1) ... Setting up python3-distutils (3.9.2-1) ... Setting up dh-python (4.20201102+nmu1) ... Setting up python3-all (3.9.2-3) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up default-jre-headless (2:1.11-72) ... Setting up libwww-perl (6.52-1) ... Setting up openjdk-11-jre-headless:amd64 (11.0.12+7-2) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up openjdk-11-jre:amd64 (11.0.12+7-2) ... Setting up maven-repo-helper (1.10) ... Setting up openjdk-11-jdk-headless:amd64 (11.0.12+7-2) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmic to provide /usr/bin/rmic (rmic) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jaotc to provide /usr/bin/jaotc (jaotc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre (2:1.11-72) ... Setting up default-jdk-headless (2:1.11-72) ... Setting up devscripts (2.21.3+deb11u1) ... Setting up openjdk-11-jdk:amd64 (11.0.12+7-2) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up javahelper (0.78) ... Setting up ca-certificates-java (20190909) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:emSign_Root_CA_-_G1.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:VeriSign_Universal_Root_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Secure_Global_CA.pem Adding debian:SecureTrust_CA.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Izenpe.com.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:ISRG_Root_X1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem Adding debian:GTS_Root_R4.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R1.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:EC-ACC.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DST_Root_CA_X3.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certigna.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:ACCVRAIZ1.pem done. Setting up default-jdk (2:1.11-72) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package hostname: Name or service not known I: Running cd /build/ngs-sdk-2.10.9/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../ngs-sdk_2.10.9-1_source.changes dpkg-buildpackage: info: source package ngs-sdk dpkg-buildpackage: info: source version 2.10.9-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3,javahelper,jh_maven_repo_helper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/ngs-sdk-2.10.9' if [ -e ngs-sdk/Makefile.config.linux.x86_64 ] ; then \ # dh_auto_clean --sourcedirectory=ngs-sdk ; \ dh_auto_clean ; \ fi rm -rf ngs-java/x86_64-linux-gnu rm -rf ngs-bam/x86_64-linux-gnu rm -f ngs-bam/Makefile.config rm -f ngs-bam/Makefile.config.install.linux.x86_64.prl rm -f ngs-bam/Makefile.config.linux.x86_64 rm -f ngs-bam/reconfigure rm -rf ngs-sdk/ngs/unix/generic rm -rf ngs-sdk/x86_64-linux-gnu rm -rf ngs-python/build make[1]: Leaving directory '/build/ngs-sdk-2.10.9' jh_clean mh_clean dh_clean debian/rules binary dh binary --with python3,javahelper,jh_maven_repo_helper dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/ngs-sdk-2.10.9' mkdir ngs-sdk/ngs/unix/generic && cp debian/atomic32.h ngs-sdk/ngs/unix/generic/ # # that's no standard configure script lacking support of default options \ ./configure --build=x86_64-linux-gnu --prefix=/usr -- --source=1.7 CONFIGURING ngs-sdk Configuring NGS-SDK package checking system type... Linux checking OS distributor... checking machine architecture... x86_64 checking for supported architecture... x86_64 (64 bits) is supported checking for supported OS... Linux (linux) is supported checking for supported tool chain... gcc tool chain is supported checking for g++... yes checking for Python 3... /usr/bin/python3 checking whether gcc accepts -Wno-array-bounds... yes checking whether g++ accepts -static-libstdc++... yes configure: creating 'ld.linux.exe_cmd.sh' configure: creating 'Makefile.config.linux.x86_64' configure: creating 'Makefile.config' configure: creating 'reconfigure' build type: release build prefix: /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk build output path: /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel includedir: /usr/include bindir: /usr/bin libdir: /usr/lib sharedir: /usr/share CC = gcc -c CPP = g++ configured with: "'--build=x86_64-linux-gnu' '--prefix=/usr' '--' '--source=1.7'" CONFIGURING ngs-java Configuring NGS-JAVA package checking system type... Linux checking OS distributor... checking machine architecture... x86_64 checking for supported architecture... x86_64 (64 bits) is supported checking for supported OS... Linux (linux) is supported checking for supported tool chain... jdk tool chain is supported checking for javac... yes checking for Python 3... /usr/bin/python3 configure: creating 'Makefile.config.linux.x86_64' configure: creating 'Makefile.config' configure: creating 'reconfigure' build type: release build prefix: /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java build output path: /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java includedir: /usr/include bindir: /usr/bin libdir: /usr/lib sharedir: /usr/share javadir: /usr/jar configured with: "'--build=x86_64-linux-gnu' '--prefix=/usr' '--' '--source=1.7'" CONFIGURING ngs-python Configuring NGS-PYTHON package checking system type... Linux checking OS distributor... checking machine architecture... x86_64 checking for supported architecture... x86_64 (64 bits) is supported checking for supported OS... Linux (linux) is supported checking for supported tool chain... gcc tool chain is supported checking for g++... yes checking for Python 3... /usr/bin/python3 checking whether gcc accepts -Wno-array-bounds... yes checking whether g++ accepts -static-libstdc++... yes checking for ngs-sdk package... configure: optional ngs-sdk package not found: skipped. checking for ncbi-vdb package... configure: optional ncbi-vdb package not found: skipped. configure: creating 'ld.linux.exe_cmd.sh' configure: creating 'Makefile.config.linux.x86_64' configure: creating 'Makefile.config' configure: creating 'reconfigure' build type: release build prefix: /build/ngs-sdk-2.10.9/ngs-python/x86_64-linux-gnu/ngs-python build output path: /build/ngs-sdk-2.10.9/ngs-python/x86_64-linux-gnu/ngs-python/linux/gcc/x86_64/rel includedir: /usr/include bindir: /usr/bin libdir: /usr/lib sharedir: /usr/share pythondir: /usr CC = gcc -c CPP = g++ configured with: "'--build=x86_64-linux-gnu' '--prefix=/usr' '--' '--source=1.7'" make[1]: Leaving directory '/build/ngs-sdk-2.10.9' jh_linkjars debian/rules override_dh_auto_build make[1]: Entering directory '/build/ngs-sdk-2.10.9' #dh_auto_build --sourcedirectory=ngs-sdk echo "DEBPKGNAME: EBPKGNAME" DEBPKGNAME: EBPKGNAME dh_auto_build --sourcedirectory=ngs-sdk cd ngs-sdk && make -j15 make[2]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk' make[3]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/dispatch' make[3]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/adapter' make[3]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/language' make[4]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/language/c++' make[4]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/language/java' make[4]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/language/python' mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReadCollectionItf.pic.o ReadCollectionItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReferenceItf.pic.o ReferenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReferenceSequenceItf.pic.o ReferenceSequenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/PileupItf.pic.o PileupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/PileupEventItf.pic.o PileupEventItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/AlignmentItf.pic.o AlignmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReadGroupItf.pic.o ReadGroupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReadItf.pic.o ReadItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/dispatch -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++ g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/FragmentItf.pic.o FragmentItf.cpp -fPIC -DNDEBUG 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jni_ReferenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReferenceSequenceItf.pic.o jni_ReferenceSequenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Reference.pic.o Reference.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/FragmentItf.pic.o FragmentItf.cpp -fPIC -DNDEBUG -O3 -I. 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-I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/StatisticsItf.pic.o StatisticsItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/adapter -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/StringItf.pic.o StringItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/adapter -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/Refcount.pic.o Refcount.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/adapter -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD ar rc /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-disp.a /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReadCollectionItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReferenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReferenceSequenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/PileupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/PileupEventItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/AlignmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReadGroupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ReadItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/FragmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/StatisticsItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/PackageItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/StringItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/Refcount.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/VTable.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ErrBlock.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/dispatch/ErrorMsg.pic.o make[3]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/dispatch' g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupIteratorItf.pic.o jni_PileupIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupItf.pic.o jni_PileupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ErrorMsg.pic.o ErrorMsg.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/adapter -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupEventIteratorItf.pic.o jni_PileupEventIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadCollectionItf.pic.o py_ReadCollectionItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ErrBlock.pic.o ErrBlock.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/adapter -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadGroupItf.pic.o py_ReadGroupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Pileup.pic.o Pileup.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/PileupEventIterator.pic.o PileupEventIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupEventItf.pic.o jni_PileupEventItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadGroupIteratorItf.pic.o py_ReadGroupIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/PileupEvent.pic.o PileupEvent.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/AlignmentIterator.pic.o AlignmentIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_AlignmentIteratorItf.pic.o jni_AlignmentIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_AlignmentItf.pic.o jni_AlignmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadGroupIteratorItf.pic.o jni_ReadGroupIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD ar rc /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-adapt-c++.a.2.10.9 /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ReadCollectionItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/PileupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/PileupEventItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ReferenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ReferenceSequenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/AlignmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ReadGroupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ReadItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/FragmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/StatisticsItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/StringItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/Refcount.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ErrorMsg.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/adapter/ErrBlock.pic.o rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-adapt-c++.a.2 g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadItf.pic.o py_ReadItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD ln -s libngs-adapt-c++.a.2.10.9 /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-adapt-c++.a.2 rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-adapt-c++.a ln -s libngs-adapt-c++.a.2 /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-adapt-c++.a g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadIteratorItf.pic.o py_ReadIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadGroupItf.pic.o jni_ReadGroupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReferenceItf.pic.o py_ReferenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-adapt-c++-static.a ln -s libngs-adapt-c++.a /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-adapt-c++-static.a make[3]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/adapter' g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadIteratorItf.pic.o jni_ReadIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadItf.pic.o jni_ReadItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Alignment.pic.o Alignment.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReadGroupIterator.pic.o ReadGroupIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReadGroup.pic.o ReadGroup.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_FragmentItf.pic.o jni_FragmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReferenceIteratorItf.pic.o py_ReferenceIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_StatisticsItf.pic.o jni_StatisticsItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReferenceSequenceItf.pic.o py_ReferenceSequenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReadIterator.pic.o ReadIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_Package.pic.o jni_Package.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_String.pic.o jni_String.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_StatisticsItf.pic.o py_StatisticsItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_Refcount.pic.o jni_Refcount.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ErrorMsg.pic.o jni_ErrorMsg.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/java -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Read.pic.o Read.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_Refcount.pic.o py_Refcount.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/FragmentIterator.pic.o FragmentIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Fragment.pic.o Fragment.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_StringItf.pic.o py_StringItf.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/python -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Statistics.pic.o Statistics.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/StringRef.pic.o StringRef.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/language/c++ -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD ar rc /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-java.a /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadCollectionItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReferenceIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReferenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReferenceSequenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupEventIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_PileupEventItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_AlignmentIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_AlignmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadGroupIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadGroupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ReadItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_FragmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_StatisticsItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_Package.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_String.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_Refcount.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/java/jni_ErrorMsg.pic.o make[4]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/language/java' ar rc /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-python.a /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_AlignmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_AlignmentIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_FragmentItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_FragmentIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_PackageItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_PileupEventItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_PileupEventIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_PileupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_PileupIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadCollectionItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadGroupItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadGroupIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReadIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReferenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReferenceIteratorItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_ReferenceSequenceItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_StatisticsItf.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_Refcount.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/python/py_StringItf.pic.o make[4]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/language/python' ar rc /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-c++.a /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReadCollection.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReferenceSequence.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReferenceIterator.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Reference.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/PileupIterator.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Pileup.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/PileupEventIterator.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/PileupEvent.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/AlignmentIterator.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Alignment.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReadGroupIterator.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReadGroup.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/ReadIterator.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Read.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/FragmentIterator.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Fragment.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/Statistics.pic.o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/language/c++/StringRef.pic.o make[4]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/language/c++' make[3]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/language' make[3]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk' rm -rf /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-c++ rm -rf /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-disp mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-c++ mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-disp rm -rf /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-java ( cd /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-c++; ar x /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-c++.a; ar t /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-c++.a | sed -e '/__\.SYMDEF/d' -e 's/^\(..*\)$/\/build\/ngs-sdk-2.10.9\/ngs-sdk\/x86_64-linux-gnu\/ngs-sdk\/linux\/gcc\/x86_64\/rel\/obj\/ngs-bind-c++\/\1/' > /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-c++/manifest ) ( cd /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-disp; ar x /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-disp.a; ar t /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-disp.a | sed -e '/__\.SYMDEF/d' -e 's/^\(..*\)$/\/build\/ngs-sdk-2.10.9\/ngs-sdk\/x86_64-linux-gnu\/ngs-sdk\/linux\/gcc\/x86_64\/rel\/obj\/ngs-disp\/\1/' > /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-disp/manifest ) mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-java rm -rf /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-python ( cd /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-java; ar x /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-java.a; ar t /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-java.a | sed -e '/__\.SYMDEF/d' -e 's/^\(..*\)$/\/build\/ngs-sdk-2.10.9\/ngs-sdk\/x86_64-linux-gnu\/ngs-sdk\/linux\/gcc\/x86_64\/rel\/obj\/ngs-bind-java\/\1/' > /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-java/manifest ) mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-python ( cd /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-python; ar x /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-python.a; ar t /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib/libngs-bind-python.a | sed -e '/__\.SYMDEF/d' -e 's/^\(..*\)$/\/build\/ngs-sdk-2.10.9\/ngs-sdk\/x86_64-linux-gnu\/ngs-sdk\/linux\/gcc\/x86_64\/rel\/obj\/ngs-bind-python\/\1/' > /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-python/manifest ) ( ar rc /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-c++.a.2.10.9 `cat /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-c++/manifest /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-disp/manifest` ) g++ -DNDEBUG -O3 -shared -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so.2.10.9 -Wl,-soname=libngs-sdk.so.2 `cat /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-java/manifest /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/ngs-bind-python/manifest` -L/build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib -lngs-disp rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-c++.a.2 ln -s libngs-c++.a.2.10.9 /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-c++.a.2 rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-c++.a ln -s libngs-c++.a.2 /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-c++.a rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-c++-static.a ln -s libngs-c++.a /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-c++-static.a rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so.2 ln -s libngs-sdk.so.2.10.9 /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so.2 rm -f /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so ln -s libngs-sdk.so.2 /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so make[3]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk' make[2]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk' # Remove ngs-bam generation, expects ngs-sdk and cannot find a way # to specify it #cd ngs-bam && LD_LIBRARY_PATH=../ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/lib ./configure --build=x86_64-linux-gnu --prefix=/usr --with-ngs-sdk-prefix=../ngs-sdk #dh_auto_build --sourcedirectory=ngs-bam dh_auto_build --sourcedirectory=ngs-java -- JAVAC="javac -source 1.7 -target 1.7" cd ngs-java && make -j15 "JAVAC=javac -source 1.7 -target 1.7" make[2]: Entering directory '/build/ngs-sdk-2.10.9/ngs-java' make[3]: Entering directory '/build/ngs-sdk-2.10.9/ngs-java' mkdir -p /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar mkdir -p /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls javac -source 1.7 -target 1.7 /build/ngs-sdk-2.10.9/ngs-java//ngs/ErrorMsg.java /build/ngs-sdk-2.10.9/ngs-java//ngs/Statistics.java /build/ngs-sdk-2.10.9/ngs-java//ngs/Fragment.java /build/ngs-sdk-2.10.9/ngs-java//ngs/FragmentIterator.java /build/ngs-sdk-2.10.9/ngs-java//ngs/Read.java /build/ngs-sdk-2.10.9/ngs-java//ngs/ReadIterator.java /build/ngs-sdk-2.10.9/ngs-java//ngs/ReadGroup.java /build/ngs-sdk-2.10.9/ngs-java//ngs/ReadGroupIterator.java /build/ngs-sdk-2.10.9/ngs-java//ngs/Alignment.java /build/ngs-sdk-2.10.9/ngs-java//ngs/AlignmentIterator.java /build/ngs-sdk-2.10.9/ngs-java//ngs/PileupEvent.java /build/ngs-sdk-2.10.9/ngs-java//ngs/PileupEventIterator.java /build/ngs-sdk-2.10.9/ngs-java//ngs/Pileup.java /build/ngs-sdk-2.10.9/ngs-java//ngs/PileupIterator.java /build/ngs-sdk-2.10.9/ngs-java//ngs/Reference.java /build/ngs-sdk-2.10.9/ngs-java//ngs/ReferenceIterator.java /build/ngs-sdk-2.10.9/ngs-java//ngs/ReadCollection.java /build/ngs-sdk-2.10.9/ngs-java//ngs/Package.java -d /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -classpath /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -sourcepath /build/ngs-sdk-2.10.9/ngs-java/:/build/ngs-sdk-2.10.9/ngs-java//itf:/build/ngs-sdk-2.10.9/ngs-java/gov/nih/nlm/ncbi/ngs && touch /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls/ngs-java-api ( cd /build/ngs-sdk-2.10.9/ngs-java/; jar cf /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-src.jar `find gov ngs -name "*.java"`; chmod -x,o-w,g+w /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-src.jar ) || ( rm -f /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-src.jar && false ) Generating javadocs... javac -source 1.7 -target 1.7 /build/ngs-sdk-2.10.9/ngs-java/examples/examples/AlignTest.java /build/ngs-sdk-2.10.9/ngs-java/examples/examples/AlignSliceTest.java /build/ngs-sdk-2.10.9/ngs-java/examples/examples/FragTest.java /build/ngs-sdk-2.10.9/ngs-java/examples/examples/PileupTest.java /build/ngs-sdk-2.10.9/ngs-java/examples/examples/RefTest.java /build/ngs-sdk-2.10.9/ngs-java/examples/examples/ReadGroupTest.java -d /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -classpath /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -sourcepath /build/ngs-sdk-2.10.9/ngs-java/:/build/ngs-sdk-2.10.9/ngs-java//itf:/build/ngs-sdk-2.10.9/ngs-java/gov/nih/nlm/ncbi/ngs && touch /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls/ngs-examples warning: [options] bootstrap class path not set in conjunction with -source 7 warning: [options] bootstrap class path not set in conjunction with -source 7 1 warning javac -source 1.7 -target 1.7 /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/Refcount.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/StatisticsItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/FragmentItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/FragmentIteratorItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/ReadItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/ReadIteratorItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/ReadGroupItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/ReadGroupIteratorItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/AlignmentItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/AlignmentIteratorItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/PileupEventItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/PileupEventIteratorItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/PileupItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/PileupIteratorItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/ReferenceItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/ReferenceIteratorItf.java /build/ngs-sdk-2.10.9/ngs-java//ngs/itf/ReadCollectionItf.java -d /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -classpath /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -sourcepath /build/ngs-sdk-2.10.9/ngs-java/:/build/ngs-sdk-2.10.9/ngs-java//itf:/build/ngs-sdk-2.10.9/ngs-java/gov/nih/nlm/ncbi/ngs && touch /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls/ngs-java-itf warning: [options] bootstrap class path not set in conjunction with -source 7 Creating destination directory: "/build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/javadoc/" Note: /build/ngs-sdk-2.10.9/ngs-java/ngs/itf/Refcount.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning ( cd /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls; jar cf /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-examples.jar `find examples -name "*.class"`; chmod -x,o-w,g+w /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-examples.jar ) || ( rm -f /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-examples.jar && false ) ( cd /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/javadoc ; jar cf /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-doc.jar `find . -type f`; chmod -x,o-w,g+w /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-doc.jar ) || ( rm -f /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-doc.jar && false ) Note: /build/ngs-sdk-2.10.9/ngs-java/ngs/itf/Refcount.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning javac -source 1.7 -target 1.7 /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/DownloadManager.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/FileCreator.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/HttpManager.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/LibDependencies.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/LibManager.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/LibPathIterator.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/LibVersionChecker.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/LMProperties.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/Logger.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/Manager.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/NGS.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/Version.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/LibraryLoadError.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/LibraryNotFoundError.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/LibraryIncompatibleVersionError.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/ConnectionProblemCause.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/DownloadDisabledCause.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/InvalidLibraryCause.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/JvmErrorCause.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/LibraryLoadCause.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/OutdatedJarCause.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/PrereleaseReqLibCause.java /build/ngs-sdk-2.10.9/ngs-java//gov/nih/nlm/ncbi/ngs/error/cause/UnsupportedArchCause.java -d /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -classpath /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls -sourcepath /build/ngs-sdk-2.10.9/ngs-java/:/build/ngs-sdk-2.10.9/ngs-java//itf:/build/ngs-sdk-2.10.9/ngs-java/gov/nih/nlm/ncbi/ngs && touch /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls/ngs-java-ncbi warning: [options] bootstrap class path not set in conjunction with -source 7 1 warning ( cd /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/cls; jar cf /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-java.jar `find . -name "*.class"`; chmod -x,o-w,g+w /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-java.jar ) || ( rm -f /build/ngs-sdk-2.10.9/ngs-java/x86_64-linux-gnu/ngs-java/jar/ngs-java.jar && false ) make[3]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-java' make[2]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-java' markdown README.md > README.html make[1]: Leaving directory '/build/ngs-sdk-2.10.9' debian/rules override_dh_auto_test make[1]: Entering directory '/build/ngs-sdk-2.10.9' make -C ngs-sdk/test make[2]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/test' make[3]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/test/test_engine' mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/test/test_engine g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/test/test_engine/test_engine.pic.o test_engine.cpp -fPIC -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/test/test_engine -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -DNDEBUG -O3 --shared -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libtest_engine.so /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/test/test_engine/test_engine.pic.o -L/build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib -L/build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib -lngs-adapt-c++ -lngs-bind-c++ -lngs-disp make[3]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/test/test_engine' make[3]: Entering directory '/build/ngs-sdk-2.10.9/ngs-sdk/test/ngs-test' mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/bin mkdir -p /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/test/ngs-test g++ -c -std=c++11 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/test/ngs-test/main.o main.cpp -DNDEBUG -O3 -I. -I/build/ngs-sdk-2.10.9/ngs-sdk/test/ngs-test -I/build/ngs-sdk-2.10.9/ngs-sdk -I/build/ngs-sdk-2.10.9/ngs-sdk/ngs/unix/x86_64 -MD g++ -DNDEBUG -O3 -o /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/bin/test-ngs /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/obj/test/ngs-test/main.o -L/build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib -L/build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/ilib -ltest_engine -lngs-bind-c++ -lngs-disp make[3]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/test/ngs-test' make[2]: Leaving directory '/build/ngs-sdk-2.10.9/ngs-sdk/test' # Tests of Java binding disabled because need external lib ncbi-vdb, # not available in Debian at this time #CLASSPATH=../x86_64-linux-gnu/ngs-java/jar/ngs-java.jar LD_LIBRARY_PATH=ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/lib: make -C ngs-java/examples #CLASSPATH=../x86_64-linux-gnu/ngs-java/jar/ngs-java.jar LD_LIBRARY_PATH=../../ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/lib: make -C ngs-java/examples run_all make[1]: Leaving directory '/build/ngs-sdk-2.10.9' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/ngs-sdk-2.10.9' d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/lib/*.a*" usr/lib/x86_64-linux-gnu \ --movedev "ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/ilib/*.a" usr/lib/x86_64-linux-gnu \ --movedev ngs-sdk/ngs usr/include \ ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/lib/libngs-sdk.so Library package automatic movement utility set -e install -d -m 755 debian/libngs-sdk-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libngs-sdk2/usr/lib/x86_64-linux-gnu mv ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so debian/libngs-sdk-dev/usr/lib/x86_64-linux-gnu mv /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so.2 debian/libngs-sdk2/usr/lib/x86_64-linux-gnu mv /build/ngs-sdk-2.10.9/ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/x86_64/rel/lib/libngs-sdk.so.2.10.9 debian/libngs-sdk2/usr/lib/x86_64-linux-gnu PKGDEV=libngs-sdk-dev PKGSHL=libngs-sdk2 install -d -m 755 debian/libngs-sdk-dev/usr/lib/x86_64-linux-gnu mv ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/lib/*.a* debian/libngs-sdk-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libngs-sdk-dev/usr/lib/x86_64-linux-gnu mv ngs-sdk/x86_64-linux-gnu/ngs-sdk/linux/gcc/*/rel/ilib/*.a debian/libngs-sdk-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libngs-sdk-dev/usr/include mv ngs-sdk/ngs debian/libngs-sdk-dev/usr/include make[1]: Leaving directory '/build/ngs-sdk-2.10.9' debian/rules override_dh_install make[1]: Entering directory '/build/ngs-sdk-2.10.9' dh_install -ppython3-ngs set -e && for i in 3.9; do \ cd ngs-python ; \ python$i ./setup.py install --install-layout=deb --root ../debian/python3-ngs; \ cd .. ; \ done /usr/lib/python3.9/distutils/dist.py:274: UserWarning: Unknown distribution option: 'include_package_data' warnings.warn(msg) running install running build running build_py creating build creating build/lib creating build/lib/ngs copying ngs/__init__.py -> build/lib/ngs copying ngs/String.py -> build/lib/ngs copying ngs/Statistics.py -> build/lib/ngs copying ngs/ReferenceSequence.py -> build/lib/ngs copying ngs/ReferenceIterator.py -> build/lib/ngs copying ngs/Reference.py -> build/lib/ngs copying ngs/Refcount.py -> build/lib/ngs copying ngs/ReadIterator.py -> build/lib/ngs copying ngs/ReadGroupIterator.py -> build/lib/ngs copying ngs/ReadGroup.py -> build/lib/ngs copying ngs/ReadCollection.py -> build/lib/ngs copying ngs/Read.py -> build/lib/ngs copying ngs/PileupIterator.py -> build/lib/ngs copying ngs/PileupEventIterator.py -> build/lib/ngs copying ngs/PileupEvent.py -> build/lib/ngs copying ngs/Pileup.py -> build/lib/ngs copying ngs/Package.py -> build/lib/ngs copying ngs/LibManager.py -> build/lib/ngs copying ngs/LibChecker.py -> build/lib/ngs copying ngs/FragmentIterator.py -> build/lib/ngs copying ngs/Fragment.py -> build/lib/ngs copying ngs/ErrorMsg.py -> build/lib/ngs copying ngs/AlignmentIterator.py -> build/lib/ngs copying ngs/Alignment.py -> build/lib/ngs running install_lib creating ../debian/python3-ngs creating ../debian/python3-ngs/usr creating ../debian/python3-ngs/usr/lib creating ../debian/python3-ngs/usr/lib/python3 creating ../debian/python3-ngs/usr/lib/python3/dist-packages creating ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Alignment.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/AlignmentIterator.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/ErrorMsg.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Fragment.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/FragmentIterator.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/LibChecker.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/LibManager.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Package.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Pileup.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/PileupEvent.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/PileupEventIterator.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/PileupIterator.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Read.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/ReadCollection.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/ReadGroup.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/ReadGroupIterator.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/ReadIterator.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Refcount.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Reference.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/ReferenceIterator.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/ReferenceSequence.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/Statistics.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/String.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs copying build/lib/ngs/__init__.py -> ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Alignment.py to Alignment.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/AlignmentIterator.py to AlignmentIterator.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/ErrorMsg.py to ErrorMsg.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Fragment.py to Fragment.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/FragmentIterator.py to FragmentIterator.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/LibChecker.py to LibChecker.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/LibManager.py to LibManager.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Package.py to Package.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Pileup.py to Pileup.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/PileupEvent.py to PileupEvent.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/PileupEventIterator.py to PileupEventIterator.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/PileupIterator.py to PileupIterator.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Read.py to Read.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/ReadCollection.py to ReadCollection.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/ReadGroup.py to ReadGroup.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/ReadGroupIterator.py to ReadGroupIterator.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/ReadIterator.py to ReadIterator.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Refcount.py to Refcount.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Reference.py to Reference.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/ReferenceIterator.py to ReferenceIterator.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/ReferenceSequence.py to ReferenceSequence.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/Statistics.py to Statistics.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/String.py to String.cpython-39.pyc byte-compiling ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs/__init__.py to __init__.cpython-39.pyc running install_egg_info Writing ../debian/python3-ngs/usr/lib/python3/dist-packages/ngs-1.0.egg-info find debian -name "*.pyc" -delete find debian -type d -name __pycache__ | xargs rm -rf make[1]: Leaving directory '/build/ngs-sdk-2.10.9' jh_installjavadoc dh_installdocs dh_installchangelogs dh_python3 dh_perl dh_link jh_installlibs jh_classpath jh_manifest jh_depends mh_installpoms mh_linkjars --skip-clean-poms dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dwz: debian/libngs-sdk2/usr/lib/x86_64-linux-gnu/libngs-sdk.so.2.10.9: .debug_info section not present dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libngs-sdk2' in '../libngs-sdk2_2.10.9-1_amd64.deb'. dpkg-deb: building package 'libngs-sdk2-dbgsym' in '../libngs-sdk2-dbgsym_2.10.9-1_amd64.deb'. dpkg-deb: building package 'libngs-sdk-dev' in '../libngs-sdk-dev_2.10.9-1_amd64.deb'. dpkg-deb: building package 'libngs-java' in '../libngs-java_2.10.9-1_amd64.deb'. dpkg-deb: building package 'python3-ngs' in '../python3-ngs_2.10.9-1_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../ngs-sdk_2.10.9-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/930990/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/930990/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/930990 and its subdirectories I: Current time: Mon Jan 24 04:57:51 +14 2022 I: pbuilder-time-stamp: 1642949871