I: pbuilder: network access will be disabled during build I: Current time: Mon May 15 17:17:02 -12 2023 I: pbuilder-time-stamp: 1684214222 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [drop-seq_2.5.2+dfsg-1.dsc] I: copying [./drop-seq_2.5.2+dfsg.orig.tar.xz] I: copying [./drop-seq_2.5.2+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Jan 21 20:43:39 2023 -12 gpgv: using RSA key 33CB284313E90BD27DCB4523600316A6DC277476 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./drop-seq_2.5.2+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting drop-seq in drop-seq-2.5.2+dfsg dpkg-source: info: unpacking drop-seq_2.5.2+dfsg.orig.tar.xz dpkg-source: info: unpacking drop-seq_2.5.2+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_git.patch dpkg-source: info: applying debian_packaged_libs.patch dpkg-source: info: applying link_excluded_file.patch dpkg-source: info: applying paths_in_scripts.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1768496/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=15 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='8c6899a6cc8f4f9f8565c45af2534ade' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='1768496' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.K8vlAQcH/pbuilderrc_N6Jl --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.K8vlAQcH/b1 --logfile b1/build.log drop-seq_2.5.2+dfsg-1.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos1-amd64 5.10.0-23-amd64 #1 SMP Debian 5.10.179-1 (2023-05-12) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 09:23 bash -rwxr-xr-x 3 root root 39224 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 39224 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 14568 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 01:20 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 Mar 22 22:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 85600 Mar 22 22:02 findmnt -rwsr-xr-x 1 root root 35128 Mar 22 20:35 fusermount -rwxr-xr-x 1 root root 203152 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 98136 Apr 9 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 00:40 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 22 22:02 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 22 22:02 more -rwsr-xr-x 1 root root 59704 Mar 22 22:02 mount -rwxr-xr-x 1 root root 18744 Mar 22 22:02 mountpoint -rwxr-xr-x 1 root root 142968 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:23 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 22 22:02 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 02:25 tar -rwxr-xr-x 1 root root 14520 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 22 20:35 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 22 22:02 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 Mar 22 22:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/1768496/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), javahelper, default-jdk-headless, libbiojava6-java, libhtsjdk-java, libpicard-java, libcommons-collections4-java, libcommons-lang-java, libguava-java, libyaml-snake-java, libla4j-java, libjcommander-java, junit4, testng dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19596 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 javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on default-jdk-headless; however: Package default-jdk-headless is not installed. pbuilder-satisfydepends-dummy depends on libbiojava6-java; however: Package libbiojava6-java is not installed. pbuilder-satisfydepends-dummy depends on libhtsjdk-java; however: Package libhtsjdk-java is not installed. pbuilder-satisfydepends-dummy depends on libpicard-java; however: Package libpicard-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-collections4-java; however: Package libcommons-collections4-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-lang-java; however: Package libcommons-lang-java is not installed. pbuilder-satisfydepends-dummy depends on libguava-java; however: Package libguava-java is not installed. pbuilder-satisfydepends-dummy depends on libyaml-snake-java; however: Package libyaml-snake-java is not installed. pbuilder-satisfydepends-dummy depends on libla4j-java; however: Package libla4j-java is not installed. pbuilder-satisfydepends-dummy depends on libjcommander-java; however: Package libjcommander-java is not installed. pbuilder-satisfydepends-dummy depends on junit4; however: Package junit4 is not installed. pbuilder-satisfydepends-dummy depends on testng; however: Package testng 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: ant{a} ant-optional{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} dctrl-tools{a} debhelper{a} default-jdk-headless{a} default-jre-headless{a} devscripts{a} dh-autoreconf{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} junit4{a} libactivation-java{a} libantlr4-runtime-java{a} libaopalliance-java{a} libapache-pom-java{a} libarchive-zip-perl{a} libargs4j-java{a} libasm-java{a} libasound2{a} libasound2-data{a} libassuan0{a} libatinject-jsr330-api-java{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbarclay-java{a} libbiojava6-java{a} libbrotli1{a} libbsh-java{a} libcdi-api-java{a} libciftools-java{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcodemodel-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-exec-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-math-java{a} libcommons-math3-java{a} libcommons-parent-java{a} libcommons-text-java{a} libcups2{a} libdbus-1-3{a} libdebhelper-perl{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdtd-parser-java{a} libdynaloader-functions-perl{a} libelf1{a} libencode-locale-perl{a} liberror-prone-java{a} libexec-maven-plugin-java{a} libexpat1{a} libfastinfoset-java{a} libfastutil-java{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} libfreemarker-java{a} libfreetype6{a} libgatk-native-bindings-java{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgkl-java{a} libglib2.0-0{a} libgoogle-gson-java{a} libgraphite2-3{a} libguava-java{a} libguice-java{a} libhamcrest-java{a} libharfbuzz0b{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libicu72{a} libimport-into-perl{a} libinchi1{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libistack-commons-java{a} libitext5-java{a} libjackson2-annotations-java{a} libjackson2-core-java{a} libjackson2-databind-java{a} libjaxb-api-java{a} libjaxb-java{a} libjaxen-java{a} libjcommander-java{a} libjgrapht-java{a} libjgraphx-java{a} libjheaps-java{a} libjmol-java{a} libjni-inchi-java{a} libjni-inchi-jni{a} libjoptsimple-java{a} libjpeg62-turbo{a} libjson-simple-java{a} libjsoup-java{a} libjsr305-java{a} libksba8{a} libla4j-java{a} liblcms2-2{a} libldap-2.5-0{a} liblightcouch-java{a} liblog4j1.2-java{a} liblog4j2-java{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} libmagic-mgc{a} libmagic1{a} libmaven-archiver-java{a} libmaven-compiler-plugin-java{a} libmaven-file-management-java{a} libmaven-jar-plugin-java{a} libmaven-parent-java{a} libmaven-resolver-java{a} libmaven-shared-incremental-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven3-core-java{a} libmbedcrypto7{a} libmbedtls14{a} libmbedx509-1{a} libmjson-java{a} libmmtf-java{a} libmodule-runtime-perl{a} libmongodb-java{a} libmoo-perl{a} libmsgpack-java{a} libnaga-java{a} libncbi-ngs3{a} libncbi-vdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libngs-java{a} libngs-jni{a} libnpth0{a} libnspr4{a} libnss3{a} libparams-classify-perl{a} libpcsclite1{a} libpicard-java{a} libpipeline1{a} libplexus-archiver-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-compiler-java{a} libplexus-component-annotations-java{a} libplexus-container-default-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-languages-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libpng16-16{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libqdox2-java{a} libreadline8{a} libregexp-ipv6-perl{a} librelaxng-datatype-java{a} librhino-java{a} librngom-java{a} librole-tiny-perl{a} libsasl2-2{a} libsasl2-modules-db{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libstax-ex-java{a} libstreambuffer-java{a} libsub-override-perl{a} libsub-quote-perl{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libtxw2-java{a} libuchardet0{a} liburi-perl{a} libvecmath-java{a} libwagon-http-java{a} libwagon-provider-api-java{a} libwww-perl{a} libwww-robotrules-perl{a} libxbean-reflect-java{a} libxerces2-java{a} libxml-commons-external-java{a} libxml-commons-resolver1.1-java{a} libxml2{a} libxsom-java{a} libxz-java{a} libyaml-snake-java{a} m4{a} man-db{a} media-types{a} ncbi-vdb-data{a} netbase{a} openjdk-17-jdk-headless{a} openjdk-17-jre-headless{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} po-debconf{a} python3{a} python3-minimal{a} python3.11{a} python3.11-minimal{a} readline-common{a} sensible-utils{a} testng{a} wdiff{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 libarchive-cpio-perl libdata-dump-perl libdistro-info-perl libgit-wrapper-perl libgitlab-api-v4-perl libgkl-jni libglib2.0-data libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libjansi-java libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libxstring-perl licensecheck lintian lynx pristine-tar python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg r-base-core shared-mime-info strace unzip wget xdg-user-dirs 0 packages upgraded, 264 newly installed, 0 to remove and 0 not upgraded. Need to get 407 MB of archives. After unpacking 696 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get: 11 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 netbase all 6.4 [12.8 kB] Get: 13 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.8-1 [1407 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 23 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20230103 [11.4 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.74 [6388 B] Get: 27 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-10 [107 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-10 [41.6 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.6-1 [200 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-10 [45.5 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-3 [244 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get: 34 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get: 35 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get: 36 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5 [399 kB] Get: 37 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get: 38 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get: 39 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get: 40 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.35-1 [113 kB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.87.1-1 [1331 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.8-1 [20.5 kB] Get: 43 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.8-1+b1 [362 kB] Get: 44 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get: 45 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get: 46 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get: 47 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.9-2 [49.7 kB] Get: 48 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre-headless amd64 17.0.6+10-1 [43.6 MB] Get: 49 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.17-74 [2936 B] Get: 50 http://deb.debian.org/debian bookworm/main amd64 ant all 1.10.13-1 [2161 kB] Get: 51 http://deb.debian.org/debian bookworm/main amd64 ant-optional all 1.10.13-1 [449 kB] Get: 52 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 53 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 54 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 55 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 56 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 57 http://deb.debian.org/debian bookworm/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 58 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 59 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 60 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 61 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 63 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 64 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 65 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 66 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 67 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 68 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.2 [687 kB] Get: 69 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 70 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 71 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 72 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 73 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jdk-headless amd64 17.0.6+10-1 [230 MB] Get: 74 http://deb.debian.org/debian bookworm/main amd64 default-jdk-headless amd64 2:1.17-74 [1108 B] Get: 75 http://deb.debian.org/debian bookworm/main amd64 libassuan0 amd64 2.5.5-5 [48.5 kB] Get: 76 http://deb.debian.org/debian bookworm/main amd64 gpgconf amd64 2.2.40-1.1 [564 kB] Get: 77 http://deb.debian.org/debian bookworm/main amd64 libksba8 amd64 1.6.3-2 [128 kB] Get: 78 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get: 79 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get: 80 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get: 81 http://deb.debian.org/debian bookworm/main amd64 libnpth0 amd64 1.6-3 [19.0 kB] Get: 82 http://deb.debian.org/debian bookworm/main amd64 dirmngr amd64 2.2.40-1.1 [792 kB] Get: 83 http://deb.debian.org/debian bookworm/main amd64 gnupg-l10n all 2.2.40-1.1 [1093 kB] Get: 84 http://deb.debian.org/debian bookworm/main amd64 gnupg-utils amd64 2.2.40-1.1 [927 kB] Get: 85 http://deb.debian.org/debian bookworm/main amd64 gpg amd64 2.2.40-1.1 [949 kB] Get: 86 http://deb.debian.org/debian bookworm/main amd64 pinentry-curses amd64 1.2.1-1 [77.4 kB] Get: 87 http://deb.debian.org/debian bookworm/main amd64 gpg-agent amd64 2.2.40-1.1 [695 kB] Get: 88 http://deb.debian.org/debian bookworm/main amd64 gpg-wks-client amd64 2.2.40-1.1 [541 kB] Get: 89 http://deb.debian.org/debian bookworm/main amd64 gpg-wks-server amd64 2.2.40-1.1 [531 kB] Get: 90 http://deb.debian.org/debian bookworm/main amd64 gpgsm amd64 2.2.40-1.1 [671 kB] Get: 91 http://deb.debian.org/debian bookworm/main amd64 gnupg all 2.2.40-1.1 [846 kB] Get: 92 http://deb.debian.org/debian bookworm/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 93 http://deb.debian.org/debian bookworm/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 94 http://deb.debian.org/debian bookworm/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 95 http://deb.debian.org/debian bookworm/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 96 http://deb.debian.org/debian bookworm/main amd64 libio-pty-perl amd64 1:1.17-1 [34.9 kB] Get: 97 http://deb.debian.org/debian bookworm/main amd64 libipc-run-perl all 20220807.0-1 [104 kB] Get: 98 http://deb.debian.org/debian bookworm/main amd64 libclass-method-modifiers-perl all 2.14-1 [18.1 kB] Get: 99 http://deb.debian.org/debian bookworm/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b1 [36.4 kB] Get: 100 http://deb.debian.org/debian bookworm/main amd64 libb-hooks-op-check-perl amd64 0.22-2+b1 [10.5 kB] Get: 101 http://deb.debian.org/debian bookworm/main amd64 libdynaloader-functions-perl all 0.003-3 [12.7 kB] Get: 102 http://deb.debian.org/debian bookworm/main amd64 libdevel-callchecker-perl amd64 0.008-2 [15.8 kB] Get: 103 http://deb.debian.org/debian bookworm/main amd64 libparams-classify-perl amd64 0.015-2+b1 [23.1 kB] Get: 104 http://deb.debian.org/debian bookworm/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 105 http://deb.debian.org/debian bookworm/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 106 http://deb.debian.org/debian bookworm/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 107 http://deb.debian.org/debian bookworm/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 108 http://deb.debian.org/debian bookworm/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 109 http://deb.debian.org/debian bookworm/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 110 http://deb.debian.org/debian bookworm/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 111 http://deb.debian.org/debian bookworm/main amd64 libhttp-date-perl all 6.05-2 [10.5 kB] Get: 112 http://deb.debian.org/debian bookworm/main amd64 libfile-listing-perl all 6.15-1 [12.6 kB] Get: 113 http://deb.debian.org/debian bookworm/main amd64 libhtml-tagset-perl all 3.20-6 [11.7 kB] Get: 114 http://deb.debian.org/debian bookworm/main amd64 libregexp-ipv6-perl all 0.03-3 [5212 B] Get: 115 http://deb.debian.org/debian bookworm/main amd64 liburi-perl all 5.17-1 [90.4 kB] Get: 116 http://deb.debian.org/debian bookworm/main amd64 libhtml-parser-perl amd64 3.81-1 [101 kB] Get: 117 http://deb.debian.org/debian bookworm/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 118 http://deb.debian.org/debian bookworm/main amd64 libclone-perl amd64 0.46-1 [13.7 kB] Get: 119 http://deb.debian.org/debian bookworm/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 120 http://deb.debian.org/debian bookworm/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 121 http://deb.debian.org/debian bookworm/main amd64 libhttp-message-perl all 6.44-1 [81.7 kB] Get: 122 http://deb.debian.org/debian bookworm/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB] Get: 123 http://deb.debian.org/debian bookworm/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 124 http://deb.debian.org/debian bookworm/main amd64 perl-openssl-defaults amd64 7+b1 [7924 B] Get: 125 http://deb.debian.org/debian bookworm/main amd64 libnet-ssleay-perl amd64 1.92-2+b1 [317 kB] Get: 126 http://deb.debian.org/debian bookworm/main amd64 libio-socket-ssl-perl all 2.081-2 [219 kB] Get: 127 http://deb.debian.org/debian bookworm/main amd64 libnet-http-perl all 6.22-1 [25.3 kB] Get: 128 http://deb.debian.org/debian bookworm/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get: 129 http://deb.debian.org/debian bookworm/main amd64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get: 130 http://deb.debian.org/debian bookworm/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 131 http://deb.debian.org/debian bookworm/main amd64 libwww-perl all 6.68-1 [186 kB] Get: 132 http://deb.debian.org/debian bookworm/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get: 133 http://deb.debian.org/debian bookworm/main amd64 wdiff amd64 1.2.2-5 [119 kB] Get: 134 http://deb.debian.org/debian bookworm/main amd64 devscripts amd64 2.23.3 [1072 kB] Get: 135 http://deb.debian.org/debian bookworm/main amd64 javahelper all 0.78 [97.2 kB] Get: 136 http://deb.debian.org/debian bookworm/main amd64 libhamcrest-java all 2.2-1 [121 kB] Get: 137 http://deb.debian.org/debian bookworm/main amd64 junit4 all 4.13.2-3 [348 kB] Get: 138 http://deb.debian.org/debian bookworm/main amd64 libactivation-java all 1.2.0-2 [84.7 kB] Get: 139 http://deb.debian.org/debian bookworm/main amd64 libantlr4-runtime-java all 4.7.2-5 [315 kB] Get: 140 http://deb.debian.org/debian bookworm/main amd64 libaopalliance-java all 20070526-7 [8572 B] Get: 141 http://deb.debian.org/debian bookworm/main amd64 libapache-pom-java all 29-2 [5276 B] Get: 142 http://deb.debian.org/debian bookworm/main amd64 libargs4j-java all 2.33-2 [138 kB] Get: 143 http://deb.debian.org/debian bookworm/main amd64 libasm-java all 9.4-1 [389 kB] Get: 144 http://deb.debian.org/debian bookworm/main amd64 libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get: 145 http://deb.debian.org/debian bookworm/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get: 146 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang3-java all 3.12.0-2 [561 kB] Get: 147 http://deb.debian.org/debian bookworm/main amd64 libfreemarker-java all 2.3.31-2 [1528 kB] Get: 148 http://deb.debian.org/debian bookworm/main amd64 libgoogle-gson-java all 2.10-1 [261 kB] Get: 149 http://deb.debian.org/debian bookworm/main amd64 libjoptsimple-java all 5.0.4-4 [73.1 kB] Get: 150 http://deb.debian.org/debian bookworm/main amd64 libcommons-codec-java all 1.15-1 [292 kB] Get: 151 http://deb.debian.org/debian bookworm/main amd64 libcommons-logging-java all 1.2-3 [62.4 kB] Get: 152 http://deb.debian.org/debian bookworm/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get: 153 http://deb.debian.org/debian bookworm/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get: 154 http://deb.debian.org/debian bookworm/main amd64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get: 155 http://deb.debian.org/debian bookworm/main amd64 libmongodb-java all 3.6.3-2 [1901 kB] Get: 156 http://deb.debian.org/debian bookworm/main amd64 libslf4j-java all 1.7.32-1 [144 kB] Get: 157 http://deb.debian.org/debian bookworm/main amd64 liblog4j2-java all 2.19.0-2 [2310 kB] Get: 158 http://deb.debian.org/debian bookworm/main amd64 libbarclay-java all 4.1.0+dfsg-1 [103 kB] Get: 159 http://deb.debian.org/debian bookworm/main amd64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get: 160 http://deb.debian.org/debian bookworm/main amd64 libciftools-java all 4.0.5-1 [2139 kB] Get: 161 http://deb.debian.org/debian bookworm/main amd64 libcommons-math-java all 2.2-8 [926 kB] Get: 162 http://deb.debian.org/debian bookworm/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 163 http://deb.debian.org/debian bookworm/main amd64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get: 164 http://deb.debian.org/debian bookworm/main amd64 libguava-java all 31.1-1 [2613 kB] Get: 165 http://deb.debian.org/debian bookworm/main amd64 libitext5-java all 5.5.13.3-2 [2665 kB] Get: 166 http://deb.debian.org/debian bookworm/main amd64 libjackson2-annotations-java all 2.14.0-1 [68.8 kB] Get: 167 http://deb.debian.org/debian bookworm/main amd64 libjackson2-core-java all 2.14.1-1 [447 kB] Get: 168 http://deb.debian.org/debian bookworm/main amd64 libjackson2-databind-java all 2.14.0-1 [1584 kB] Get: 169 http://deb.debian.org/debian bookworm/main amd64 libjaxb-api-java all 2.3.1-1 [119 kB] Get: 170 http://deb.debian.org/debian bookworm/main amd64 libjaxen-java all 1.1.6-4 [214 kB] Get: 171 http://deb.debian.org/debian bookworm/main amd64 libdom4j-java all 2.1.3-2 [310 kB] Get: 172 http://deb.debian.org/debian bookworm/main amd64 libcommons-io-java all 2.11.0-2 [319 kB] Get: 173 http://deb.debian.org/debian bookworm/main amd64 libmaven-shared-utils-java all 3.3.4-1 [138 kB] Get: 174 http://deb.debian.org/debian bookworm/main amd64 libcommons-cli-java all 1.5.0-1 [60.0 kB] Get: 175 http://deb.debian.org/debian bookworm/main amd64 libguice-java all 4.2.3-2 [1435 kB] Get: 176 http://deb.debian.org/debian bookworm/main amd64 libmaven-parent-java all 35-1 [6140 B] Get: 177 http://deb.debian.org/debian bookworm/main amd64 libplexus-utils2-java all 3.4.2-1 [258 kB] Get: 178 http://deb.debian.org/debian bookworm/main amd64 libwagon-provider-api-java all 3.5.3-1 [48.2 kB] Get: 179 http://deb.debian.org/debian bookworm/main amd64 libmaven-resolver-java all 1.6.3-1 [548 kB] Get: 180 http://deb.debian.org/debian bookworm/main amd64 libplexus-cipher-java all 2.0-1 [14.9 kB] Get: 181 http://deb.debian.org/debian bookworm/main amd64 libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get: 182 http://deb.debian.org/debian bookworm/main amd64 libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get: 183 http://deb.debian.org/debian bookworm/main amd64 libplexus-interpolation-java all 1.26-1 [76.8 kB] Get: 184 http://deb.debian.org/debian bookworm/main amd64 libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get: 185 http://deb.debian.org/debian bookworm/main amd64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-4 [8484 B] Get: 186 http://deb.debian.org/debian bookworm/main amd64 libcdi-api-java all 1.2-3 [54.3 kB] Get: 187 http://deb.debian.org/debian bookworm/main amd64 libsisu-inject-java all 0.3.4-2 [347 kB] Get: 188 http://deb.debian.org/debian bookworm/main amd64 libsisu-plexus-java all 0.3.4-3 [181 kB] Get: 189 http://deb.debian.org/debian bookworm/main amd64 libmaven3-core-java all 3.8.7-1 [1572 kB] Get: 190 http://deb.debian.org/debian bookworm/main amd64 libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get: 191 http://deb.debian.org/debian bookworm/main amd64 libmaven-file-management-java all 3.0.0-1 [35.1 kB] Get: 192 http://deb.debian.org/debian bookworm/main amd64 libcommons-compress-java all 1.22-1 [615 kB] Get: 193 http://deb.debian.org/debian bookworm/main amd64 libplexus-io-java all 3.3.1-2 [65.3 kB] Get: 194 http://deb.debian.org/debian bookworm/main amd64 libsnappy1v5 amd64 1.1.9-3 [26.0 kB] Get: 195 http://deb.debian.org/debian bookworm/main amd64 libsnappy-jni amd64 1.1.8.3-1 [7152 B] Get: 196 http://deb.debian.org/debian bookworm/main amd64 libsnappy-java all 1.1.8.3-1 [98.9 kB] Get: 197 http://deb.debian.org/debian bookworm/main amd64 libxz-java all 1.9-1 [143 kB] Get: 198 http://deb.debian.org/debian bookworm/main amd64 libplexus-archiver-java all 4.6.1-1 [187 kB] Get: 199 http://deb.debian.org/debian bookworm/main amd64 libjsoup-java all 1.15.3-1 [431 kB] Get: 200 http://deb.debian.org/debian bookworm/main amd64 libwagon-http-java all 3.5.3-1 [49.5 kB] Get: 201 http://deb.debian.org/debian bookworm/main amd64 libistack-commons-java all 3.0.6-5 [145 kB] Get: 202 http://deb.debian.org/debian bookworm/main amd64 libcodemodel-java all 2.6+jaxb2.3.0.1-10.1 [164 kB] Get: 203 http://deb.debian.org/debian bookworm/main amd64 librelaxng-datatype-java all 1.0+ds1-3.1 [11.7 kB] Get: 204 http://deb.debian.org/debian bookworm/main amd64 librngom-java all 2.3.0.1-10.1 [290 kB] Get: 205 http://deb.debian.org/debian bookworm/main amd64 libxsom-java all 2.3.0.1-10.1 [400 kB] Get: 206 http://deb.debian.org/debian bookworm/main amd64 libtxw2-java all 2.3.0.1-10.1 [134 kB] Get: 207 http://deb.debian.org/debian bookworm/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 208 http://deb.debian.org/debian bookworm/main amd64 libdtd-parser-java all 1.2-1 [64.9 kB] Get: 209 http://deb.debian.org/debian bookworm/main amd64 libstax-ex-java all 1.7.8-3 [40.9 kB] Get: 210 http://deb.debian.org/debian bookworm/main amd64 libstreambuffer-java all 1.5.4-1.1 [74.0 kB] Get: 211 http://deb.debian.org/debian bookworm/main amd64 libfastinfoset-java all 1.2.12-3 [343 kB] Get: 212 http://deb.debian.org/debian bookworm/main amd64 libjaxb-java all 2.3.0.1-10.1 [1973 kB] Get: 213 http://deb.debian.org/debian bookworm/main amd64 libmaven-archiver-java all 3.6.0-1 [25.1 kB] Get: 214 http://deb.debian.org/debian bookworm/main amd64 libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get: 215 http://deb.debian.org/debian bookworm/main amd64 libcommons-text-java all 1.10.0-1 [211 kB] Get: 216 http://deb.debian.org/debian bookworm/main amd64 libfastutil-java all 8.5.11+dfsg-1 [19.6 MB] Get: 217 http://deb.debian.org/debian bookworm/main amd64 libjheaps-java all 0.14-2 [144 kB] Get: 218 http://deb.debian.org/debian bookworm/main amd64 libxml-commons-external-java all 1.4.01-5 [240 kB] Get: 219 http://deb.debian.org/debian bookworm/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 220 http://deb.debian.org/debian bookworm/main amd64 libjgraphx-java all 2.1.0.7-3 [807 kB] Get: 221 http://deb.debian.org/debian bookworm/main amd64 libjgrapht-java all 1.5.1-3 [1584 kB] Get: 222 http://deb.debian.org/debian bookworm/main amd64 libinchi1 amd64 1.03+dfsg-4+b2 [436 kB] Get: 223 http://deb.debian.org/debian bookworm/main amd64 libjni-inchi-jni amd64 0.8+dfsg-7 [9064 B] Get: 224 http://deb.debian.org/debian bookworm/main amd64 libcommons-exec-java all 1.3-2 [48.1 kB] Get: 225 http://deb.debian.org/debian bookworm/main amd64 libexec-maven-plugin-java all 3.1.0-1 [66.2 kB] Get: 226 http://deb.debian.org/debian bookworm/main amd64 libmaven-shared-incremental-java all 1.1-3 [9524 B] Get: 227 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang-java all 2.6-10 [273 kB] Get: 228 http://deb.debian.org/debian bookworm/main amd64 libxbean-reflect-java all 4.5-8 [133 kB] Get: 229 http://deb.debian.org/debian bookworm/main amd64 libplexus-container-default-java all 2.1.1-1 [193 kB] Get: 230 http://deb.debian.org/debian bookworm/main amd64 libplexus-compiler-java all 2.12.1-1 [99.8 kB] Get: 231 http://deb.debian.org/debian bookworm/main amd64 libqdox2-java all 2.0.3-1 [296 kB] Get: 232 http://deb.debian.org/debian bookworm/main amd64 libplexus-languages-java all 1.1.1-2 [47.3 kB] Get: 233 http://deb.debian.org/debian bookworm/main amd64 libmaven-compiler-plugin-java all 3.10.1-2 [59.0 kB] Get: 234 http://deb.debian.org/debian bookworm/main amd64 liblog4j1.2-java all 1.2.17-11 [444 kB] Get: 235 http://deb.debian.org/debian bookworm/main amd64 libjni-inchi-java all 0.8+dfsg-7 [33.2 kB] Get: 236 http://deb.debian.org/debian bookworm/main amd64 libnaga-java all 3.0+svn80-5 [43.5 kB] Get: 237 http://deb.debian.org/debian bookworm/main amd64 libjmol-java all 14.32.83+dfsg-2 [8699 kB] Get: 238 http://deb.debian.org/debian bookworm/main amd64 libjson-simple-java all 2.3.0-1 [63.8 kB] Get: 239 http://deb.debian.org/debian bookworm/main amd64 libmsgpack-java all 0.9.3-1 [155 kB] Get: 240 http://deb.debian.org/debian bookworm/main amd64 libmmtf-java all 1.0.11-1 [187 kB] Get: 241 http://deb.debian.org/debian bookworm/main amd64 libvecmath-java all 1.5.2-7 [97.0 kB] Get: 242 http://deb.debian.org/debian bookworm/main amd64 libbiojava6-java all 6.1.0+dfsg-4 [5367 kB] Get: 243 http://deb.debian.org/debian bookworm/main amd64 libbsh-java all 2.0b4-20 [291 kB] Get: 244 http://deb.debian.org/debian bookworm/main amd64 libcommons-collections4-java all 4.2-1 [662 kB] Get: 245 http://deb.debian.org/debian bookworm/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get: 246 http://deb.debian.org/debian bookworm/main amd64 libcommons-math3-java all 3.6.1-3 [2018 kB] Get: 247 http://deb.debian.org/debian bookworm/main amd64 libgatk-native-bindings-java all 1.0.0+dfsg-2 [8024 B] Get: 248 http://deb.debian.org/debian bookworm/main amd64 libmjson-java all 1.4.0-3 [60.4 kB] Get: 249 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.3-1 [277 kB] Get: 250 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.3-1 [128 kB] Get: 251 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.3-1 [163 kB] Get: 252 http://deb.debian.org/debian bookworm/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get: 253 http://deb.debian.org/debian bookworm/main amd64 libncbi-vdb3 amd64 3.0.2+dfsg-2 [1050 kB] Get: 254 http://deb.debian.org/debian bookworm/main amd64 libncbi-ngs3 amd64 3.0.3+dfsg-5 [153 kB] Get: 255 http://deb.debian.org/debian bookworm/main amd64 libngs-jni amd64 3.0.3+dfsg-5 [23.4 kB] Get: 256 http://deb.debian.org/debian bookworm/main amd64 libngs-java amd64 3.0.3+dfsg-5 [110 kB] Get: 257 http://deb.debian.org/debian bookworm/main amd64 librhino-java all 1.7.14-2.1 [1357 kB] Get: 258 http://deb.debian.org/debian bookworm/main amd64 libhtsjdk-java all 3.0.4+dfsg-2 [1813 kB] Get: 259 http://deb.debian.org/debian bookworm/main amd64 libgkl-java all 0.8.10+dfsg-3 [25.0 kB] Get: 260 http://deb.debian.org/debian bookworm/main amd64 libjcommander-java all 1.71-4 [73.0 kB] Get: 261 http://deb.debian.org/debian bookworm/main amd64 libla4j-java all 0.6.0-4 [228 kB] Get: 262 http://deb.debian.org/debian bookworm/main amd64 libpicard-java all 2.27.5+dfsg-2 [1725 kB] Get: 263 http://deb.debian.org/debian bookworm/main amd64 libyaml-snake-java all 1.33-2 [321 kB] Get: 264 http://deb.debian.org/debian bookworm/main amd64 testng all 6.9.12-4 [795 kB] Fetched 407 MB in 16s (26.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.11-minimal:amd64. (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 ... 19596 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.2-6_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... 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 ... 19912 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.2-1+b1_amd64.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package readline-common. Preparing to unpack .../2-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../3-libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../4-libpython3.11-stdlib_3.11.2-6_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../5-python3.11_3.11.2-6_amd64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../6-libpython3-stdlib_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (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 ... 20346 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_amd64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package netbase. Preparing to unpack .../001-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... 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Unpacking libfreetype6:amd64 (2.12.1+dfsg-5) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../026-fonts-dejavu-core_2.37-6_all.deb ... Unpacking fonts-dejavu-core (2.37-6) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../027-fontconfig-config_2.14.1-4_amd64.deb ... Unpacking fontconfig-config (2.14.1-4) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../028-libfontconfig1_2.14.1-4_amd64.deb ... Unpacking libfontconfig1:amd64 (2.14.1-4) ... Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../029-libnspr4_2%3a4.35-1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.35-1) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../030-libnss3_2%3a3.87.1-1_amd64.deb ... Unpacking libnss3:amd64 (2:3.87.1-1) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../031-libasound2-data_1.2.8-1_all.deb ... 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Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../044-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../045-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../046-dctrl-tools_2.24-3+b1_amd64.deb ... Unpacking dctrl-tools (2.24-3+b1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../047-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../048-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../049-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... 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Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../056-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../057-libxml2_2.9.14+dfsg-1.2_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.2) ... Selecting previously unselected package gettext. Preparing to unpack .../058-gettext_0.21-12_amd64.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../059-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../060-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../061-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... 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Setting up libjaxb-api-java (2.3.1-1) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libwagon-provider-api-java (3.5.3-1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up gettext (0.21-12) ... Setting up libfile-listing-perl (6.15-1) ... Setting up libmbedx509-1:amd64 (2.28.3-1) ... Setting up libplexus-languages-java (1.1.1-2) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libtool (2.4.7-5) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libstax-ex-java (1.7.8-3) ... Setting up libmaven-parent-java (35-1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-10) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libnet-http-perl (6.22-1) ... Setting up libsisu-inject-java (0.3.4-2) ... Setting up libnss3:amd64 (2:3.87.1-1) ... Setting up libciftools-java (4.0.5-1) ... Setting up libdevel-callchecker-perl:amd64 (0.008-2) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up libjackson2-databind-java (2.14.0-1) ... Setting up libplexus-cipher-java (2.0-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libsisu-plexus-java (0.3.4-3) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5) ... Setting up testng (6.9.12-4) ... Setting up libstreambuffer-java (1.5.4-1.1) ... Setting up libcommons-collections4-java (4.2-1) ... Setting up libcommons-lang3-java (3.12.0-2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up librngom-java (2.3.0.1-10.1) ... Setting up libjni-inchi-jni (0.8+dfsg-7) ... Setting up dwz (0.15-1) ... Setting up libjgraphx-java (2.1.0.7-3) ... Setting up groff-base (1.22.4-10) ... Setting up libhtml-parser-perl:amd64 (3.81-1) ... Setting up gpgconf (2.2.40-1.1) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up libfontconfig1:amd64 (2.14.1-4) ... Setting up libxsom-java (2.3.0.1-10.1) ... Setting up libcommons-codec-java (1.15-1) ... Setting up libavahi-client3:amd64 (0.8-10) ... Setting up libio-socket-ssl-perl (2.081-2) ... Setting up gpg (2.2.40-1.1) ... Setting up gnupg-utils (2.2.40-1.1) ... Setting up libhttp-message-perl (6.44-1) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-5) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up libngs-jni:amd64 (3.0.3+dfsg-5) ... Setting up gpg-agent (2.2.40-1.1) ... Setting up libcommons-compress-java (1.22-1) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libcommons-io-java (2.11.0-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up libparams-classify-perl:amd64 (0.015-2+b1) ... Setting up gpgsm (2.2.40-1.1) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dirmngr (2.2.40-1.1) ... Setting up libmaven-resolver-java (1.6.3-1) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up gpg-wks-server (2.2.40-1.1) ... Setting up libcups2:amd64 (2.4.2-3) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libwagon-http-java (3.5.3-1) ... Setting up libmaven-shared-utils-java (3.3.4-1) ... Setting up libfastinfoset-java (1.2.12-3) ... Setting up libngs-java:amd64 (3.0.3+dfsg-5) ... Setting up libhtsjdk-java (3.0.4+dfsg-2) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up gpg-wks-client (2.2.40-1.1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up gnupg (2.2.40-1.1) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libbarclay-java (4.1.0+dfsg-1) ... Setting up libgkl-java (0.8.10+dfsg-3) ... Setting up libmaven-archiver-java (3.6.0-1) ... Setting up libpicard-java (2.27.5+dfsg-2) ... Setting up openjdk-17-jre-headless:amd64 (17.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up ca-certificates-java (20230103) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068_2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:E-Tugra_Global_Root_CA_ECC_v3.pem Adding debian:E-Tugra_Global_Root_CA_RSA_v3.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up junit4 (4.13.2-3) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up default-jre-headless (2:1.17-74) ... Setting up libwww-perl (6.68-1) ... Setting up devscripts (2.23.3) ... Setting up libguava-java (31.1-1) ... Setting up openjdk-17-jdk-headless:amd64 (17.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up ant (1.10.13-1) ... Setting up javahelper (0.78) ... Setting up libplexus-container-default-java (2.1.1-1) ... Setting up libguice-java (4.2.3-2) ... Setting up ant-optional (1.10.13-1) ... Setting up default-jdk-headless (2:1.17-74) ... Setting up libmaven3-core-java (3.8.7-1) ... Setting up libmaven-shared-incremental-java (1.1-3) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-compiler-java (2.12.1-1) ... Setting up libmaven-compiler-plugin-java (3.10.1-2) ... Setting up libjni-inchi-java (0.8+dfsg-7) ... Setting up libmaven-file-management-java (3.0.0-1) ... Setting up libjmol-java (14.32.83+dfsg-2) ... Setting up libistack-commons-java (3.0.6-5) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libcommons-text-java (1.10.0-1) ... Setting up libcodemodel-java (2.6+jaxb2.3.0.1-10.1) ... Setting up libmsgpack-java (0.9.3-1) ... Setting up libtxw2-java (2.3.0.1-10.1) ... Setting up libjaxb-java (2.3.0.1-10.1) ... Setting up libmmtf-java (1.0.11-1) ... Setting up libjgrapht-java (1.5.1-3) ... Setting up libbiojava6-java (6.1.0+dfsg-4) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20230103) ... 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 I: Running cd /build/drop-seq-2.5.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../drop-seq_2.5.2+dfsg-1_source.changes dpkg-buildpackage: info: source package drop-seq dpkg-buildpackage: info: source version 2.5.2+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/drop-seq-2.5.2+dfsg' rm -Rf lib make[1]: Leaving directory '/build/drop-seq-2.5.2+dfsg' jh_clean dh_clean debian/rules binary dh binary --with javahelper dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/drop-seq-2.5.2+dfsg' dh_auto_configure mkdir -p lib/test ln -s /usr/share/java/commons-collections4.jar lib/commons-collections4.jar ln -s /usr/share/java/biojava6-alignment.jar lib/biojava6-alignment.jar ln -s /usr/share/java/biojava6-core.jar lib/biojava6-core.jar ln -s /usr/share/java/commons-io.jar lib/commons-io.jar ln -s /usr/share/java/commons-lang.jar lib/commons-lang.jar ln -s /usr/share/java/commons-math3.jar lib/commons-math3.jar ln -s /usr/share/java/htsjdk.jar lib/htsjdk.jar ln -s /usr/share/java/la4j.jar lib/la4j.jar ln -s /usr/share/java/picard.jar lib/picard.jar ln -s /usr/share/java/snakeyaml.jar lib/snakeyaml.jar ln -s /usr/share/java/testng.jar lib/test/testng.jar ln -s /usr/share/java/junit4.jar lib/test/junit.jar make[1]: Leaving directory '/build/drop-seq-2.5.2+dfsg' jh_linkjars dh_auto_build ant -propertyfile ./debian/ant.properties -Duser.name debian Buildfile: /build/drop-seq-2.5.2+dfsg/build.xml compile-src: [mkdir] Created dir: /build/drop-seq-2.5.2+dfsg/classes [javac] Compiling 317 source files to /build/drop-seq-2.5.2+dfsg/classes [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:61: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.CODING, new Integer (5)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:62: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.UTR, new Integer (4)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:63: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.INTRONIC, new Integer (3)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:64: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.RIBOSOMAL, new Integer (2)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/AnnotationUtils.java:65: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] functionScores.put(LocusFunction.INTERGENIC, new Integer (1)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/GTFParser.java:131: warning: [removal] Integer(String) in Integer has been deprecated and marked for removal [javac] geneVersion = new Integer(geneVersionString); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/ReduceGtf.java:175: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] String [] line={r.getChromosome(),new Integer(r.getStart()).toString(), new Integer(r.getEnd()).toString(), r.getStrandAsString(), r.getGeneName(), r.getGeneID(), [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/annotation/ReduceGtf.java:175: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] String [] line={r.getChromosome(),new Integer(r.getStart()).toString(), new Integer(r.getEnd()).toString(), r.getStrandAsString(), r.getGeneName(), r.getGeneID(), [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPBasePileUp.java:105: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] double [] q = this.qualities.stream().mapToDouble(x -> new Double(x)).toArray(); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SummarizeUMIBaseQualities.java:143: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] baseQuals.increment(new Integer(qual)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/CellCollectionSampleLikelihoodCollection.java:291: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] List mixture = Arrays.asList(new Double(homRefCount), new Double(hetCount), new Double(homVarCount)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/CellCollectionSampleLikelihoodCollection.java:291: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] List mixture = Arrays.asList(new Double(homRefCount), new Double(hetCount), new Double(homVarCount)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/CellCollectionSampleLikelihoodCollection.java:291: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] List mixture = Arrays.asList(new Double(homRefCount), new Double(hetCount), new Double(homVarCount)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilities.java:115: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] result.increment(new Character (StringUtil.byteToChar(b))); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/GenotypeMatrix.java:215: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] double fracHomRef=(double) counter.getCountForKey(new Integer (0)) / (double) counter.getTotalCount(); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/GenotypeMatrix.java:216: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] double fracHet=(double) counter.getCountForKey(new Integer (1)) / (double) counter.getTotalCount(); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/GenotypeMatrix.java:217: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] double fracHomVar=(double) counter.getCountForKey(new Integer (2)) / (double) counter.getTotalCount(); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/sbarro/FilterValidRabiesBarcodes.java:164: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] return new Integer (v.length()); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/utils/BaseQualityFilter.java:76: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] data.add(new Integer(0)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/utils/DownsampleBamByTag.java:350: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] if (index.contains(new Integer(recsSeen))) [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/utils/editdistance/BarcodeWithCount.java:79: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] final Integer v1 = new Integer(f1.getCount()); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/java/org/broadinstitute/dropseqrna/utils/editdistance/BarcodeWithCount.java:80: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] final Integer v2 = new Integer(f2.getCount()); [javac] ^ [javac] warning: Implicitly compiled files were not subject to annotation processing. [javac] Use -proc:none to disable annotation processing or -implicit to specify a policy for implicit compilation. [javac] Note: Some input files use or override a deprecated API. [javac] Note: Recompile with -Xlint:deprecation for details. [javac] Note: Some input files use unchecked or unsafe operations. [javac] Note: Recompile with -Xlint:unchecked for details. [javac] 23 warnings compile-tests: [mkdir] Created dir: /build/drop-seq-2.5.2+dfsg/testclasses [javac] Compiling 159 source files to /build/drop-seq-2.5.2+dfsg/testclasses [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollectorTest.java:83: warning: [removal] Long(long) in Long has been deprecated and marked for removal [javac] Assert.assertEquals(new Long (761), m.RIBOSOMAL_BASES); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollectorTest.java:92: warning: [removal] Long(long) in Long has been deprecated and marked for removal [javac] Assert.assertEquals(new Long (338), m.RIBOSOMAL_BASES); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:199: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:199: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:199: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:207: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Byte [] q = {new Byte ((byte)10), new Byte ((byte)10)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:207: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Byte [] q = {new Byte ((byte)10), new Byte ((byte)10)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:220: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:220: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:220: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] Double [] m = {new Double(2), new Double(1), new Double(1)}; [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:227: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] List qualities =Collections.singletonList(new Byte ((byte)10)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:352: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] r.add(new Byte((byte)c)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:429: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 8), new Double(0.1584893) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:429: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 8), new Double(0.1584893) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:430: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 10), new Double(0.1) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:430: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 10), new Double(0.1) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:431: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 13), new Double(0.05011872) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:431: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 13), new Double(0.05011872) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:432: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 20), new Double(0.01) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:432: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 20), new Double(0.01) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:433: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 27), new Double(0.001995262) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:433: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 27), new Double(0.001995262) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:434: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 30), new Double(0.001) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:434: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 30), new Double(0.001) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:435: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 32), new Double(0.0006309573) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:435: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 32), new Double(0.0006309573) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:436: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 37), new Double(0.0001995262) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:436: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 37), new Double(0.0001995262) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:437: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 40), new Double(0.0001) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:437: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 40), new Double(0.0001) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:438: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 50), new Double(0.00001) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:438: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 50), new Double(0.00001) }, [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:439: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] { new Byte((byte) 60), new Double(0.000001) } [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtilsTest.java:439: warning: [removal] Double(double) in Double has been deprecated and marked for removal [javac] { new Byte((byte) 60), new Double(0.000001) } [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:93: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 8), qualResult2.get(0)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:128: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 8), qualResult2.get(0)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:163: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 31), qualResult2.get(0)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesTest.java:164: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] Assert.assertEquals(new Byte((byte) 5), qualResult2.get(1)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/BeadSynthesisErrorDataTest.java:178: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] BeadSynthesisErrorType t= d.getErrorType(threshold, dp, new Integer (1)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/BeadSynthesisErrorDataTest.java:187: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] t= d.getErrorType(threshold, dp, new Integer (1)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:65: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBase(), new Character ('A')); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:66: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBasePos(), new Integer (5)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:70: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getIntendedSequenceUMIs(), new Integer(6130)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:142: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBase(), new Character ('A')); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:143: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getDeletedBasePos(), new Integer (12)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/beadsynthesis/IntendedSequenceBuilderTest.java:147: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] Assert.assertEquals(result.getIntendedSequenceUMIs(), new Integer(50)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:97: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] expectedBases.add(new Character ('T')); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:102: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] expectedQuals.add(new Byte ((byte)30)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:122: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] expectedBases.add(new Character ('T')); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:123: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] expectedBases.add(new Character ('A')); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:128: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] expectedQuals.add(new Byte ((byte)28)); [javac] ^ [javac] /build/drop-seq-2.5.2+dfsg/src/tests/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileUpTest.java:129: warning: [removal] Byte(byte) in Byte has been deprecated and marked for removal [javac] expectedQuals.add(new Byte ((byte)28)); [javac] ^ [javac] Note: Some input files use or override a deprecated API. [javac] Note: Recompile with -Xlint:deprecation for details. [javac] Note: Some input files use unchecked or unsafe operations. [javac] Note: Recompile with -Xlint:unchecked for details. [javac] 52 warnings compile: jar-executable: [mkdir] Created dir: /build/drop-seq-2.5.2+dfsg/dist [jar] Building jar: /build/drop-seq-2.5.2+dfsg/dist/dropseq.jar all: BUILD SUCCESSFUL Total time: 1 minute 3 seconds dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install dh_install jh_installjavadoc dh_installdocs dh_installchangelogs debian/rules override_dh_installman make[1]: Entering directory '/build/drop-seq-2.5.2+dfsg' dh_installman --language=C make[1]: Leaving directory '/build/drop-seq-2.5.2+dfsg' dh_lintian dh_perl dh_link jh_installlibs jh_classpath jh_manifest jh_exec jh_depends dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms make[1]: Entering directory '/build/drop-seq-2.5.2+dfsg' dh_fixperms find debian/drop-seq-testdata/usr/share -type f -exec chmod -x \{\} \; make[1]: Leaving directory '/build/drop-seq-2.5.2+dfsg' dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'drop-seq-testdata' in '../drop-seq-testdata_2.5.2+dfsg-1_all.deb'. dpkg-deb: building package 'drop-seq-tools' in '../drop-seq-tools_2.5.2+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary -O../drop-seq_2.5.2+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../drop-seq_2.5.2+dfsg-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: 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/1768496 and its subdirectories I: Current time: Mon May 15 17:26:22 -12 2023 I: pbuilder-time-stamp: 1684214782