Sun Jan 7 21:33:50 UTC 2024 I: starting to build logol/bookworm/arm64 on jenkins on '2024-01-07 21:33' Sun Jan 7 21:33:50 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_1/13367/console.log Sun Jan 7 21:33:50 UTC 2024 I: Downloading source for bookworm/logol=1.7.9+dfsg-6 --2024-01-07 21:33:50-- http://cdn-fastly.deb.debian.org/debian/pool/main/l/logol/logol_1.7.9%2bdfsg-6.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2433 (2.4K) [text/prs.lines.tag] Saving to: ‘logol_1.7.9+dfsg-6.dsc’ 0K .. 100% 295M=0s 2024-01-07 21:33:50 (295 MB/s) - ‘logol_1.7.9+dfsg-6.dsc’ saved [2433/2433] Sun Jan 7 21:33:50 UTC 2024 I: logol_1.7.9+dfsg-6.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: logol Binary: logol, logol-bin Architecture: any all Version: 1.7.9+dfsg-6 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou Homepage: http://logol.genouest.org Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/logol Vcs-Git: https://salsa.debian.org/med-team/logol.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12), default-jdk, ant, ruby, gawk, swi-prolog (>= 8.4.2), swi-prolog-abi-binary-68, libbiojava-java (>= 1:1.9.5+dfsg), antlr3, libcommons-cli-java, libcommons-collections3-java, libcommons-configuration-java, libcommons-lang-java, libcommons-logging-java, libxalan2-java, libxerces2-java, junit4, libmail-java, liblog4j1.2-java, texlive, texlive-latex-extra, tex4ht, ant-optional, cassiopee, ruby-cassiopee, chrpath Package-List: logol deb science optional arch=all logol-bin deb science optional arch=any Checksums-Sha1: c3b17cec02b128813805ce75da66ee60e9ffed86 2486232 logol_1.7.9+dfsg.orig.tar.xz 0f55dba851b82d947d7074bcb240cc734b8a1e2e 13468 logol_1.7.9+dfsg-6.debian.tar.xz Checksums-Sha256: 3ed132aa7ecc20a43e08428dc61cd2176ee245f971f28cc75e395ac3aa252242 2486232 logol_1.7.9+dfsg.orig.tar.xz 6b7bf5440946de3ec0efc0d7375b5bd4716d3d518b478b0fe61eda0c7b9730f5 13468 logol_1.7.9+dfsg-6.debian.tar.xz Files: eecc705af631e46ff8272b9e5207c5bc 2486232 logol_1.7.9+dfsg.orig.tar.xz 191da8ff4bbfd47efd01c488f4b981ad 13468 logol_1.7.9+dfsg-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJHBAEBCAAxFiEEX7Rvg9O5UgRjNdJteNxo2zJthDgFAmOZi9YTHG9zYWxsb3VA ZGViaWFuLm9yZwAKCRB43GjbMm2EODAKEACCn5sLwDjncukK+KFr6NEksQbWLluo JrPVvy7rCb2hAbFlF9qk+uIrQSZn9lsvHFJShog4jAy/4Ss2N3Vw9JMM556l3D5y iNh1L/n5Wfk+4OYPVUXDJ+x/t8+3r2zAvQa4r0pWFsUWABFqyzIV1kTWV3qSnm+Y 2rylJNpnsFcSdECtzCGVmZ0L8JORvGf+yelthwmfm9C47st7u+qmPd+YiXI+VuDe cId2E1C7HUgRbDSh4lntCx1ugBTZZgMaRznrBK6eN199riONA//qqZBsdJUy9RfE tOvTeaPTwtt7a7Dk1bWzK6RFG/eS4B/R+aoaXzAt522qS7j/Ci00ZvVZ3l/f0nbj WS+Et+IXKHHQVYOOrAaSDrmDWt9eJmsxNUZOy4WH7tI2aBBKS0R6Rez6hbh/I8LU mk9JmIOMUkd7RZJqyRg8pf7oUVII7Y0PAjHjQX8KlN+sUTaqsFW9cIXJ/gip5/9Z Pvyzy9e7u9+GUnPTmjmwpACI4DocNbrW0ootAzK3iIECZU0MnOkWULZpWLLWrAEd Yw56qFhCkGFntb2oOB4Wm5O0PUiIttkXkIjZeGXsYJ5dD4rj9G3aHwO0T48v/Bzh N0yt2f8L8Csl1EjhhYZZDZpu1MVEwisHMSxcdreFnc3oGLUBerSKFil6pu1b80GN MPgIjh56McN8Bg== =NqQf -----END PGP SIGNATURE----- Sun Jan 7 21:33:50 UTC 2024 I: Checking whether the package is not for us Sun Jan 7 21:33:50 UTC 2024 I: Starting 1st build on remote node codethink01-arm64.debian.net. Sun Jan 7 21:33:50 UTC 2024 I: Preparing to do remote build '1' on codethink01-arm64.debian.net. Sun Jan 7 21:36:56 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build I: Current time: Sat Feb 8 15:56:53 -12 2025 I: pbuilder-time-stamp: 1739073413 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 [logol_1.7.9+dfsg-6.dsc] I: copying [./logol_1.7.9+dfsg.orig.tar.xz] I: copying [./logol_1.7.9+dfsg-6.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Dec 14 08:39:50 2022 gpgv: using RSA key 5FB46F83D3B952046335D26D78DC68DB326D8438 gpgv: issuer "osallou@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./logol_1.7.9+dfsg-6.dsc: no acceptable signature found dpkg-source: info: extracting logol in logol-1.7.9+dfsg dpkg-source: info: unpacking logol_1.7.9+dfsg.orig.tar.xz dpkg-source: info: unpacking logol_1.7.9+dfsg-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying remove_drmaa_support dpkg-source: info: applying fixLibPath dpkg-source: info: applying setDebianDirs dpkg-source: info: applying fix_doc_generation dpkg-source: info: applying remove_rubygems_usage dpkg-source: info: applying fix_antlr35 dpkg-source: info: applying fix_swipl_declarations dpkg-source: info: applying fix_swipl_foreign_load dpkg-source: info: applying remove_test dpkg-source: info: applying fix_biojava_paths_in_scripts.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1863926/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='arm64' IFS=' ' 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='1863926' 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.0gChGQiu/pbuilderrc_5EuY --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.0gChGQiu/b1 --logfile b1/build.log logol_1.7.9+dfsg-6.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/sbin/chroot' http_proxy='http://192.168.101.104:3128' I: uname -a Linux codethink01-arm64 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux I: ls -l /bin total 7104 -rwxr-xr-x 1 root root 1346480 Apr 23 2023 bash -rwxr-xr-x 3 root root 67728 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 67728 Sep 19 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 19 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 19 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 19 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 19 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 19 2022 bzgrep -rwxr-xr-x 3 root root 67728 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 67664 Sep 19 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 19 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 19 2022 bzmore -rwxr-xr-x 1 root root 68536 Sep 20 2022 cat -rwxr-xr-x 1 root root 68616 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 68552 Sep 20 2022 chmod -rwxr-xr-x 1 root root 68632 Sep 20 2022 chown -rwxr-xr-x 1 root root 200264 Sep 20 2022 cp -rwxr-xr-x 1 root root 133640 Jan 5 2023 dash -rwxr-xr-x 1 root root 134144 Sep 20 2022 date -rwxr-xr-x 1 root root 134248 Sep 20 2022 dd -rwxr-xr-x 1 root root 134888 Sep 20 2022 df -rwxr-xr-x 1 root root 200440 Sep 20 2022 dir -rwxr-xr-x 1 root root 141720 Mar 23 2023 dmesg lrwxrwxrwx 1 root root 8 Dec 19 2022 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 2022 domainname -> hostname -rwxr-xr-x 1 root root 68408 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 68384 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 134584 Mar 23 2023 findmnt -rwsr-xr-x 1 root root 67744 Mar 23 2023 fusermount -rwxr-xr-x 1 root root 198880 Jan 24 2023 grep -rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe -rwxr-xr-x 1 root root 93752 Apr 10 2022 gzip -rwxr-xr-x 1 root root 67592 Dec 19 2022 hostname -rwxr-xr-x 1 root root 68664 Sep 20 2022 ln -rwxr-xr-x 1 root root 69208 Mar 23 2023 login -rwxr-xr-x 1 root root 200440 Sep 20 2022 ls -rwxr-xr-x 1 root root 264360 Mar 23 2023 lsblk -rwxr-xr-x 1 root root 134384 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 68768 Sep 20 2022 mknod -rwxr-xr-x 1 root root 68472 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 67752 Mar 23 2023 more -rwsr-xr-x 1 root root 67744 Mar 23 2023 mount -rwxr-xr-x 1 root root 67744 Mar 23 2023 mountpoint -rwxr-xr-x 1 root root 134728 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 2022 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 3 2023 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 68496 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 68456 Sep 20 2022 readlink -rwxr-xr-x 1 root root 68592 Sep 20 2022 rm -rwxr-xr-x 1 root root 68480 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 68392 Jul 28 2023 run-parts -rwxr-xr-x 1 root root 134536 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 68432 Sep 20 2022 sleep -rwxr-xr-x 1 root root 134088 Sep 20 2022 stty -rwsr-xr-x 1 root root 133312 Mar 23 2023 su -rwxr-xr-x 1 root root 68448 Sep 20 2022 sync -rwxr-xr-x 1 root root 539896 Apr 6 2023 tar -rwxr-xr-x 1 root root 67904 Jul 28 2023 tempfile -rwxr-xr-x 1 root root 134160 Sep 20 2022 touch -rwxr-xr-x 1 root root 68384 Sep 20 2022 true -rwxr-xr-x 1 root root 67664 Mar 23 2023 ulockmgr_server -rwsr-xr-x 1 root root 67744 Mar 23 2023 umount -rwxr-xr-x 1 root root 68416 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 200440 Sep 20 2022 vdir -rwxr-xr-x 1 root root 133312 Mar 23 2023 wdctl lrwxrwxrwx 1 root root 8 Dec 19 2022 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 10 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 10 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 10 2022 zless -rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 10 2022 znew I: user script /srv/workspace/pbuilder/1863926/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team 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 (= 12), default-jdk, ant, ruby, gawk, swi-prolog (>= 8.4.2), swi-prolog-abi-binary-68, libbiojava-java (>= 1:1.9.5+dfsg), antlr3, libcommons-cli-java, libcommons-collections3-java, libcommons-configuration-java, libcommons-lang-java, libcommons-logging-java, libxalan2-java, libxerces2-java, junit4, libmail-java, liblog4j1.2-java, texlive, texlive-latex-extra, tex4ht, ant-optional, cassiopee, ruby-cassiopee, chrpath dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 18171 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on ant; however: Package ant is not installed. pbuilder-satisfydepends-dummy depends on ruby; however: Package ruby is not installed. pbuilder-satisfydepends-dummy depends on gawk; however: Package gawk is not installed. pbuilder-satisfydepends-dummy depends on swi-prolog (>= 8.4.2); however: Package swi-prolog is not installed. pbuilder-satisfydepends-dummy depends on swi-prolog-abi-binary-68; however: Package swi-prolog-abi-binary-68 is not installed. pbuilder-satisfydepends-dummy depends on libbiojava-java (>= 1:1.9.5+dfsg); however: Package libbiojava-java is not installed. pbuilder-satisfydepends-dummy depends on antlr3; however: Package antlr3 is not installed. pbuilder-satisfydepends-dummy depends on libcommons-cli-java; however: Package libcommons-cli-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-collections3-java; however: Package libcommons-collections3-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-configuration-java; however: Package libcommons-configuration-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 libcommons-logging-java; however: Package libcommons-logging-java is not installed. pbuilder-satisfydepends-dummy depends on libxalan2-java; however: Package libxalan2-java is not installed. pbuilder-satisfydepends-dummy depends on libxerces2-java; however: Package libxerces2-java is not installed. pbuilder-satisfydepends-dummy depends on junit4; however: Package junit4 is not installed. pbuilder-satisfydepends-dummy depends on libmail-java; however: Package libmail-java is not installed. pbuilder-satisfydepends-dummy depends on liblog4j1.2-java; however: Package liblog4j1.2-java is not installed. pbuilder-satisfydepends-dummy depends on texlive; however: Package texlive is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-extra; however: Package texlive-latex-extra is not installed. pbuilder-satisfydepends-dummy depends on tex4ht; however: Package tex4ht is not installed. pbuilder-satisfydepends-dummy depends on ant-optional; however: Package ant-optional is not installed. pbuilder-satisfydepends-dummy depends on cassiopee; however: Package cassiopee is not installed. pbuilder-satisfydepends-dummy depends on ruby-cassiopee; however: Package ruby-cassiopee is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath 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: adwaita-icon-theme{a} ant{a} ant-optional{a} antlr3{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cassiopee{a} chrpath{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-lmodern{a} gawk{a} gettext{a} gettext-base{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} intltool-debian{a} java-common{a} junit4{a} libactivation-java{a} libantlr3-runtime-java{a} libapache-pom-java{a} libarchive-zip-perl{a} libarchive13{a} libasound2{a} libasound2-data{a} libatinject-jsr330-api-java{a} libatk1.0-0{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbiojava-java{a} libbiojava1.9-java{a} libboost-serialization1.74.0{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcassie1v5{a} libcommons-cli-java{a} libcommons-collections3-java{a} libcommons-configuration-java{a} libcommons-dbcp-java{a} libcommons-lang-java{a} libcommons-logging-java{a} libcommons-parent-java{a} libcommons-pool-java{a} libcups2{a} libdatrie1{a} libdbus-1-3{a} libdebhelper-perl{a} libdeflate0{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit2{a} libelf1{a} liberror-prone-java{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontbox-java{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgflags2.2{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgoogle-glog0v6{a} libgraphite2-3{a} libgtk2.0-0{a} libgtk2.0-common{a} libguava-java{a} libhamcrest-java{a} libharfbuzz0b{a} libice6{a} libicu72{a} libjbig0{a} libjgraph-java{a} libjgrapht0.8-java{a} libjpeg62-turbo{a} libjsr305-java{a} libkpathsea6{a} liblcms2-2{a} liblerc4{a} libllvm15{a} liblog4j1.2-java{a} libmagic-mgc{a} libmagic1{a} libmail-java{a} libncurses6{a} libnspr4{a} libnss3{a} libossp-uuid16{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpcsclite1{a} libpdfbox-java{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libptexenc1{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8{a} libruby{a} libruby3.1{a} libsensors-config{a} libsensors5{a} libsigsegv2{a} libsm6{a} libstringtemplate4-java{a} libsub-override-perl{a} libsynctex2{a} libtcmalloc-minimal4{a} libteckit0{a} libtexlua53-5{a} libthai-data{a} libthai0{a} libtiff6{a} libtool{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxalan2-java{a} libxau6{a} libxaw7{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxerces2-java{a} libxext6{a} libxfixes3{a} libxft2{a} libxi6{a} libxinerama1{a} libxml-commons-external-java{a} libxml-commons-resolver1.1-java{a} libxml2{a} libxmu6{a} libxpm4{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxt6{a} libxtst6{a} libxxf86vm1{a} libyaml-0-2{a} libz3-4{a} libzzip-0-13{a} m4{a} man-db{a} media-types{a} openjdk-17-jdk{a} openjdk-17-jdk-headless{a} openjdk-17-jre{a} openjdk-17-jre-headless{a} openssl{a} po-debconf{a} preview-latex-style{a} python3{a} python3-minimal{a} python3.11{a} python3.11-minimal{a} rake{a} readline-common{a} ruby{a} ruby-cassiopee{a} ruby-net-telnet{a} ruby-rubygems{a} ruby-sdbm{a} ruby-text{a} ruby-webrick{a} ruby-xmlrpc{a} ruby3.1{a} rubygems-integration{a} sensible-utils{a} shared-mime-info{a} swi-prolog{a} swi-prolog-core{a} swi-prolog-core-packages{a} swi-prolog-doc{a} swi-prolog-nox{a} swi-prolog-x{a} t1utils{a} tex-common{a} texlive{a} texlive-base{a} texlive-binaries{a} texlive-fonts-recommended{a} texlive-latex-base{a} texlive-latex-extra{a} texlive-latex-recommended{a} texlive-pictures{a} texlive-plain-generic{a} ucf{a} x11-common{a} xdg-utils{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf curl dbus dvisvgm fonts-dejavu-extra fonts-lato libarchive-cpio-perl libatk-wrapper-java-jni libfile-mimeinfo-perl libgail-common libgdk-pixbuf2.0-bin libglib2.0-data libgpm2 libgtk2.0-bin libjs-jquery libltdl-dev libmail-sendmail-perl libnet-dbus-perl librsvg2-common libspreadsheet-parseexcel-perl libstringtemplate-java libx11-protocol-perl libxt-dev lmodern lynx tex-gyre tipa tk wget x11-utils x11-xserver-utils xdg-user-dirs zip 0 packages upgraded, 240 newly installed, 0 to remove and 0 not upgraded. Need to get 355 MB of archives. After unpacking 1128 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main arm64 readline-common all 8.2-1.3 [69.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main arm64 libreadline8 arm64 8.2-1.3 [155 kB] Get: 3 http://deb.debian.org/debian bookworm/main arm64 libsigsegv2 arm64 2.14-1 [37.0 kB] Get: 4 http://deb.debian.org/debian bookworm/main arm64 gawk arm64 1:5.2.1-2 [640 kB] Get: 5 http://deb.debian.org/debian bookworm/main arm64 libpython3.11-minimal arm64 3.11.2-6 [806 kB] Get: 6 http://deb.debian.org/debian bookworm/main arm64 libexpat1 arm64 2.5.0-1 [84.8 kB] Get: 7 http://deb.debian.org/debian bookworm/main arm64 python3.11-minimal arm64 3.11.2-6 [1858 kB] Get: 8 http://deb.debian.org/debian bookworm/main arm64 python3-minimal arm64 3.11.2-1+b1 [26.3 kB] Get: 9 http://deb.debian.org/debian bookworm/main arm64 media-types all 10.0.0 [26.1 kB] Get: 10 http://deb.debian.org/debian bookworm/main arm64 libpython3.11-stdlib arm64 3.11.2-6 [1747 kB] Get: 11 http://deb.debian.org/debian bookworm/main arm64 python3.11 arm64 3.11.2-6 [572 kB] Get: 12 http://deb.debian.org/debian bookworm/main arm64 libpython3-stdlib arm64 3.11.2-1+b1 [9296 B] Get: 13 http://deb.debian.org/debian bookworm/main arm64 python3 arm64 3.11.2-1+b1 [26.3 kB] Get: 14 http://deb.debian.org/debian bookworm/main arm64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 15 http://deb.debian.org/debian bookworm/main arm64 openssl arm64 3.0.11-1~deb12u2 [1385 kB] Get: 16 http://deb.debian.org/debian bookworm/main arm64 ca-certificates all 20230311 [153 kB] Get: 17 http://deb.debian.org/debian bookworm/main arm64 libmagic-mgc arm64 1:5.44-3 [305 kB] Get: 18 http://deb.debian.org/debian bookworm/main arm64 libmagic1 arm64 1:5.44-3 [98.5 kB] Get: 19 http://deb.debian.org/debian bookworm/main arm64 file arm64 1:5.44-3 [42.5 kB] Get: 20 http://deb.debian.org/debian bookworm/main arm64 gettext-base arm64 0.21-12 [159 kB] Get: 21 http://deb.debian.org/debian bookworm/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 22 http://deb.debian.org/debian bookworm/main arm64 groff-base arm64 1.22.4-10 [861 kB] Get: 23 http://deb.debian.org/debian bookworm/main arm64 bsdextrautils arm64 2.38.1-5+b1 [86.9 kB] Get: 24 http://deb.debian.org/debian bookworm/main arm64 libpipeline1 arm64 1.5.7-1 [36.4 kB] Get: 25 http://deb.debian.org/debian bookworm/main arm64 man-db arm64 2.11.2-2 [1369 kB] Get: 26 http://deb.debian.org/debian bookworm/main arm64 ucf all 3.0043+nmu1 [55.2 kB] Get: 27 http://deb.debian.org/debian bookworm/main arm64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get: 28 http://deb.debian.org/debian bookworm/main arm64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-1 [306 kB] Get: 29 http://deb.debian.org/debian bookworm/main arm64 libglib2.0-0 arm64 2.74.6-2 [1310 kB] Get: 30 http://deb.debian.org/debian bookworm/main arm64 libicu72 arm64 72.1-3 [9204 kB] Get: 31 http://deb.debian.org/debian bookworm/main arm64 libxml2 arm64 2.9.14+dfsg-1.3~deb12u1 [619 kB] Get: 32 http://deb.debian.org/debian bookworm/main arm64 shared-mime-info arm64 2.2-1 [727 kB] Get: 33 http://deb.debian.org/debian bookworm/main arm64 libjpeg62-turbo arm64 1:2.1.5-2 [171 kB] Get: 34 http://deb.debian.org/debian bookworm/main arm64 libpng16-16 arm64 1.6.39-2 [269 kB] Get: 35 http://deb.debian.org/debian bookworm/main arm64 libdeflate0 arm64 1.14-1 [54.3 kB] Get: 36 http://deb.debian.org/debian bookworm/main arm64 libjbig0 arm64 2.1-6.1 [30.0 kB] Get: 37 http://deb.debian.org/debian bookworm/main arm64 liblerc4 arm64 4.0.0+ds-2 [138 kB] Get: 38 http://deb.debian.org/debian bookworm/main arm64 libwebp7 arm64 1.2.4-0.2+deb12u1 [260 kB] Get: 39 http://deb.debian.org/debian bookworm/main arm64 libtiff6 arm64 4.5.0-6+deb12u1 [301 kB] Get: 40 http://deb.debian.org/debian bookworm/main arm64 libgdk-pixbuf-2.0-0 arm64 2.42.10+dfsg-1+b1 [130 kB] Get: 41 http://deb.debian.org/debian bookworm/main arm64 gtk-update-icon-cache arm64 3.24.38-2~deb12u1 [43.4 kB] Get: 42 http://deb.debian.org/debian bookworm/main arm64 adwaita-icon-theme all 43-1 [5124 kB] Get: 43 http://deb.debian.org/debian bookworm/main arm64 ca-certificates-java all 20230710~deb12u1 [11.9 kB] Get: 44 http://deb.debian.org/debian bookworm/main arm64 java-common all 0.74 [6388 B] Get: 45 http://deb.debian.org/debian bookworm/main arm64 libavahi-common-data arm64 0.8-10 [107 kB] Get: 46 http://deb.debian.org/debian bookworm/main arm64 libavahi-common3 arm64 0.8-10 [40.6 kB] Get: 47 http://deb.debian.org/debian bookworm/main arm64 libdbus-1-3 arm64 1.14.10-1~deb12u1 [193 kB] Get: 48 http://deb.debian.org/debian bookworm/main arm64 libavahi-client3 arm64 0.8-10 [43.8 kB] Get: 49 http://deb.debian.org/debian bookworm/main arm64 libcups2 arm64 2.4.2-3+deb12u5 [229 kB] Get: 50 http://deb.debian.org/debian bookworm/main arm64 liblcms2-2 arm64 2.14-2 [143 kB] Get: 51 http://deb.debian.org/debian bookworm/main arm64 libbrotli1 arm64 1.0.9-2+b6 [269 kB] Get: 52 http://deb.debian.org/debian bookworm/main arm64 libfreetype6 arm64 2.12.1+dfsg-5 [369 kB] Get: 53 http://deb.debian.org/debian bookworm/main arm64 fonts-dejavu-core all 2.37-6 [1068 kB] Get: 54 http://deb.debian.org/debian bookworm/main arm64 fontconfig-config arm64 2.14.1-4 [315 kB] Get: 55 http://deb.debian.org/debian bookworm/main arm64 libfontconfig1 arm64 2.14.1-4 [381 kB] Get: 56 http://deb.debian.org/debian bookworm/main arm64 libnspr4 arm64 2:4.35-1 [105 kB] Get: 57 http://deb.debian.org/debian bookworm/main arm64 libnss3 arm64 2:3.87.1-1 [1218 kB] Get: 58 http://deb.debian.org/debian bookworm/main arm64 libasound2-data all 1.2.8-1 [20.5 kB] Get: 59 http://deb.debian.org/debian bookworm/main arm64 libasound2 arm64 1.2.8-1+b1 [327 kB] Get: 60 http://deb.debian.org/debian bookworm/main arm64 libgraphite2-3 arm64 1.3.14-1 [75.6 kB] Get: 61 http://deb.debian.org/debian bookworm/main arm64 libharfbuzz0b arm64 6.0.0+dfsg-3 [1914 kB] Get: 62 http://deb.debian.org/debian bookworm/main arm64 libpcsclite1 arm64 1.9.9-2 [49.3 kB] Get: 63 http://deb.debian.org/debian bookworm/main arm64 openjdk-17-jre-headless arm64 17.0.9+9-1~deb12u1 [42.7 MB] Get: 64 http://deb.debian.org/debian bookworm/main arm64 default-jre-headless arm64 2:1.17-74 [2932 B] Get: 65 http://deb.debian.org/debian bookworm/main arm64 ant all 1.10.13-1 [2161 kB] Get: 66 http://deb.debian.org/debian bookworm/main arm64 ant-optional all 1.10.13-1 [449 kB] Get: 67 http://deb.debian.org/debian bookworm/main arm64 libantlr3-runtime-java all 3.5.3-1 [165 kB] Get: 68 http://deb.debian.org/debian bookworm/main arm64 libstringtemplate4-java all 4.0.8-2.1 [241 kB] Get: 69 http://deb.debian.org/debian bookworm/main arm64 antlr3 all 3.5.3-1 [1151 kB] Get: 70 http://deb.debian.org/debian bookworm/main arm64 at-spi2-common all 2.46.0-5 [162 kB] Get: 71 http://deb.debian.org/debian bookworm/main arm64 m4 arm64 1.4.19-3 [276 kB] Get: 72 http://deb.debian.org/debian bookworm/main arm64 autoconf all 2.71-3 [332 kB] Get: 73 http://deb.debian.org/debian bookworm/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 74 http://deb.debian.org/debian bookworm/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 75 http://deb.debian.org/debian bookworm/main arm64 autopoint all 0.21-12 [495 kB] Get: 76 http://deb.debian.org/debian bookworm/main arm64 libboost-serialization1.74.0 arm64 1.74.0+ds1-21 [308 kB] Get: 77 http://deb.debian.org/debian bookworm/main arm64 libgflags2.2 arm64 2.2.2-2 [71.2 kB] Get: 78 http://deb.debian.org/debian bookworm/main arm64 libgoogle-glog0v6 arm64 0.6.0-2 [58.6 kB] Get: 79 http://deb.debian.org/debian bookworm/main arm64 libcassie1v5 arm64 1.0.9-3+b2 [37.5 kB] Get: 80 http://deb.debian.org/debian bookworm/main arm64 cassiopee arm64 1.0.9-3+b2 [17.5 kB] Get: 81 http://deb.debian.org/debian bookworm/main arm64 chrpath arm64 0.16-2+b1 [16.0 kB] Get: 82 http://deb.debian.org/debian bookworm/main arm64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 83 http://deb.debian.org/debian bookworm/main arm64 libtool all 2.4.7-5 [517 kB] Get: 84 http://deb.debian.org/debian bookworm/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 85 http://deb.debian.org/debian bookworm/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 86 http://deb.debian.org/debian bookworm/main arm64 libsub-override-perl all 0.09-4 [9304 B] Get: 87 http://deb.debian.org/debian bookworm/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 88 http://deb.debian.org/debian bookworm/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 89 http://deb.debian.org/debian bookworm/main arm64 libelf1 arm64 0.188-2.1 [173 kB] Get: 90 http://deb.debian.org/debian bookworm/main arm64 dwz arm64 0.15-1 [101 kB] Get: 91 http://deb.debian.org/debian bookworm/main arm64 gettext arm64 0.21-12 [1248 kB] Get: 92 http://deb.debian.org/debian bookworm/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 93 http://deb.debian.org/debian bookworm/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 94 http://deb.debian.org/debian bookworm/main arm64 debhelper all 13.11.4 [942 kB] Get: 95 http://deb.debian.org/debian bookworm/main arm64 libgtk2.0-common all 2.24.33-2 [2700 kB] Get: 96 http://deb.debian.org/debian bookworm/main arm64 libatk1.0-0 arm64 2.46.0-5 [47.4 kB] Get: 97 http://deb.debian.org/debian bookworm/main arm64 libpixman-1-0 arm64 0.42.2-1 [470 kB] Get: 98 http://deb.debian.org/debian bookworm/main arm64 libxau6 arm64 1:1.0.9-1 [19.7 kB] Get: 99 http://deb.debian.org/debian bookworm/main arm64 libbsd0 arm64 0.11.7-2 [115 kB] Get: 100 http://deb.debian.org/debian bookworm/main arm64 libxdmcp6 arm64 1:1.1.2-3 [25.4 kB] Get: 101 http://deb.debian.org/debian bookworm/main arm64 libxcb1 arm64 1.15-1 [143 kB] Get: 102 http://deb.debian.org/debian bookworm/main arm64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get: 103 http://deb.debian.org/debian bookworm/main arm64 libx11-6 arm64 2:1.8.4-2+deb12u2 [735 kB] Get: 104 http://deb.debian.org/debian bookworm/main arm64 libxcb-render0 arm64 1.15-1 [115 kB] Get: 105 http://deb.debian.org/debian bookworm/main arm64 libxcb-shm0 arm64 1.15-1 [106 kB] Get: 106 http://deb.debian.org/debian bookworm/main arm64 libxext6 arm64 2:1.3.4-1+b1 [51.7 kB] Get: 107 http://deb.debian.org/debian bookworm/main arm64 libxrender1 arm64 1:0.9.10-1.1 [32.0 kB] Get: 108 http://deb.debian.org/debian bookworm/main arm64 libcairo2 arm64 1.16.0-7 [527 kB] Get: 109 http://deb.debian.org/debian bookworm/main arm64 fontconfig arm64 2.14.1-4 [449 kB] Get: 110 http://deb.debian.org/debian bookworm/main arm64 libfribidi0 arm64 1.0.8-2.1 [64.9 kB] Get: 111 http://deb.debian.org/debian bookworm/main arm64 libthai-data all 0.1.29-1 [176 kB] Get: 112 http://deb.debian.org/debian bookworm/main arm64 libdatrie1 arm64 0.2.13-2+b1 [42.6 kB] Get: 113 http://deb.debian.org/debian bookworm/main arm64 libthai0 arm64 0.1.29-1 [56.2 kB] Get: 114 http://deb.debian.org/debian bookworm/main arm64 libpango-1.0-0 arm64 1.50.12+ds-1 [200 kB] Get: 115 http://deb.debian.org/debian bookworm/main arm64 libpangoft2-1.0-0 arm64 1.50.12+ds-1 [44.5 kB] Get: 116 http://deb.debian.org/debian bookworm/main arm64 libpangocairo-1.0-0 arm64 1.50.12+ds-1 [32.0 kB] Get: 117 http://deb.debian.org/debian bookworm/main arm64 libxcomposite1 arm64 1:0.4.5-1 [16.6 kB] Get: 118 http://deb.debian.org/debian bookworm/main arm64 libxfixes3 arm64 1:6.0.0-2 [22.9 kB] Get: 119 http://deb.debian.org/debian bookworm/main arm64 libxcursor1 arm64 1:1.2.1-1 [40.2 kB] Get: 120 http://deb.debian.org/debian bookworm/main arm64 libxdamage1 arm64 1:1.1.6-1 [15.2 kB] Get: 121 http://deb.debian.org/debian bookworm/main arm64 libxi6 arm64 2:1.8-1+b1 [82.3 kB] Get: 122 http://deb.debian.org/debian bookworm/main arm64 libxinerama1 arm64 2:1.1.4-3 [17.8 kB] Get: 123 http://deb.debian.org/debian bookworm/main arm64 libxrandr2 arm64 2:1.5.2-2+b1 [38.4 kB] Get: 124 http://deb.debian.org/debian bookworm/main arm64 libgtk2.0-0 arm64 2.24.33-2 [1704 kB] Get: 125 http://deb.debian.org/debian bookworm/main arm64 libglvnd0 arm64 1.6.0-1 [41.4 kB] Get: 126 http://deb.debian.org/debian bookworm/main arm64 libdrm-common all 2.4.114-1 [7112 B] Get: 127 http://deb.debian.org/debian bookworm/main arm64 libdrm2 arm64 2.4.114-1+b1 [36.7 kB] Get: 128 http://deb.debian.org/debian bookworm/main arm64 libglapi-mesa arm64 22.3.6-1+deb12u1 [44.7 kB] Get: 129 http://deb.debian.org/debian bookworm/main arm64 libx11-xcb1 arm64 2:1.8.4-2+deb12u2 [192 kB] Get: 130 http://deb.debian.org/debian bookworm/main arm64 libxcb-dri2-0 arm64 1.15-1 [107 kB] Get: 131 http://deb.debian.org/debian bookworm/main arm64 libxcb-dri3-0 arm64 1.15-1 [107 kB] Get: 132 http://deb.debian.org/debian bookworm/main arm64 libxcb-glx0 arm64 1.15-1 [123 kB] Get: 133 http://deb.debian.org/debian bookworm/main arm64 libxcb-present0 arm64 1.15-1 [106 kB] Get: 134 http://deb.debian.org/debian bookworm/main arm64 libxcb-randr0 arm64 1.15-1 [117 kB] Get: 135 http://deb.debian.org/debian bookworm/main arm64 libxcb-sync1 arm64 1.15-1 [109 kB] Get: 136 http://deb.debian.org/debian bookworm/main arm64 libxcb-xfixes0 arm64 1.15-1 [110 kB] Get: 137 http://deb.debian.org/debian bookworm/main arm64 libxshmfence1 arm64 1.3-1 [8712 B] Get: 138 http://deb.debian.org/debian bookworm/main arm64 libxxf86vm1 arm64 1:1.1.4-1+b2 [20.1 kB] Get: 139 http://deb.debian.org/debian bookworm/main arm64 libdrm-amdgpu1 arm64 2.4.114-1+b1 [20.4 kB] Get: 140 http://deb.debian.org/debian bookworm/main arm64 libdrm-nouveau2 arm64 2.4.114-1+b1 [18.4 kB] Get: 141 http://deb.debian.org/debian bookworm/main arm64 libdrm-radeon1 arm64 2.4.114-1+b1 [20.9 kB] Get: 142 http://deb.debian.org/debian bookworm/main arm64 libedit2 arm64 3.1-20221030-2 [88.1 kB] Get: 143 http://deb.debian.org/debian bookworm/main arm64 libz3-4 arm64 4.8.12-3.1 [6282 kB] Get: 144 http://deb.debian.org/debian bookworm/main arm64 libllvm15 arm64 1:15.0.6-4+b1 [20.7 MB] Get: 145 http://deb.debian.org/debian bookworm/main arm64 libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get: 146 http://deb.debian.org/debian bookworm/main arm64 libsensors5 arm64 1:3.6.0-7.1 [33.3 kB] Get: 147 http://deb.debian.org/debian bookworm/main arm64 libgl1-mesa-dri arm64 22.3.6-1+deb12u1 [6278 kB] Get: 148 http://deb.debian.org/debian bookworm/main arm64 libglx-mesa0 arm64 22.3.6-1+deb12u1 [146 kB] Get: 149 http://deb.debian.org/debian bookworm/main arm64 libglx0 arm64 1.6.0-1 [30.8 kB] Get: 150 http://deb.debian.org/debian bookworm/main arm64 libgl1 arm64 1.6.0-1 [90.2 kB] Get: 151 http://deb.debian.org/debian bookworm/main arm64 libgif7 arm64 5.2.1-2.5 [46.7 kB] Get: 152 http://deb.debian.org/debian bookworm/main arm64 x11-common all 1:7.7+23 [252 kB] Get: 153 http://deb.debian.org/debian bookworm/main arm64 libxtst6 arm64 2:1.2.3-1.1 [27.8 kB] Get: 154 http://deb.debian.org/debian bookworm/main arm64 openjdk-17-jre arm64 17.0.9+9-1~deb12u1 [173 kB] Get: 155 http://deb.debian.org/debian bookworm/main arm64 default-jre arm64 2:1.17-74 [1056 B] Get: 156 http://deb.debian.org/debian bookworm/main arm64 openjdk-17-jdk-headless arm64 17.0.9+9-1~deb12u1 [70.5 MB] Get: 157 http://deb.debian.org/debian bookworm/main arm64 default-jdk-headless arm64 2:1.17-74 [1108 B] Get: 158 http://deb.debian.org/debian bookworm/main arm64 openjdk-17-jdk arm64 17.0.9+9-1~deb12u1 [2826 kB] Get: 159 http://deb.debian.org/debian bookworm/main arm64 default-jdk arm64 2:1.17-74 [1068 B] Get: 160 http://deb.debian.org/debian bookworm/main arm64 fonts-lmodern all 2.005-1 [4540 kB] Get: 161 http://deb.debian.org/debian bookworm/main arm64 libhamcrest-java all 2.2-1 [121 kB] Get: 162 http://deb.debian.org/debian bookworm/main arm64 junit4 all 4.13.2-3 [348 kB] Get: 163 http://deb.debian.org/debian bookworm/main arm64 libactivation-java all 1.2.0-2 [84.7 kB] Get: 164 http://deb.debian.org/debian bookworm/main arm64 libapache-pom-java all 29-2 [5276 B] Get: 165 http://deb.debian.org/debian bookworm/main arm64 libarchive13 arm64 3.6.2-1 [316 kB] Get: 166 http://deb.debian.org/debian bookworm/main arm64 libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get: 167 http://deb.debian.org/debian bookworm/main arm64 libcommons-pool-java all 1.6-4 [109 kB] Get: 168 http://deb.debian.org/debian bookworm/main arm64 libcommons-dbcp-java all 1.4-8 [157 kB] Get: 169 http://deb.debian.org/debian bookworm/main arm64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 170 http://deb.debian.org/debian bookworm/main arm64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get: 171 http://deb.debian.org/debian bookworm/main arm64 libguava-java all 31.1-1 [2613 kB] Get: 172 http://deb.debian.org/debian bookworm/main arm64 libjgraph-java all 5.12.4.2+dfsg-7 [207 kB] Get: 173 http://deb.debian.org/debian bookworm/main arm64 libjgrapht0.8-java all 0.8.3-6 [214 kB] Get: 174 http://deb.debian.org/debian bookworm/main arm64 libbiojava1.9-java all 1:1.9.5+dfsg-3 [3154 kB] Get: 175 http://deb.debian.org/debian bookworm/main arm64 libbiojava-java all 1:1.9.5+dfsg-3 [5428 B] Get: 176 http://deb.debian.org/debian bookworm/main arm64 libcommons-cli-java all 1.5.0-1 [60.0 kB] Get: 177 http://deb.debian.org/debian bookworm/main arm64 libcommons-collections3-java all 3.2.2-2 [526 kB] Get: 178 http://deb.debian.org/debian bookworm/main arm64 libcommons-parent-java all 56-1 [10.8 kB] Get: 179 http://deb.debian.org/debian bookworm/main arm64 libcommons-lang-java all 2.6-10 [273 kB] Get: 180 http://deb.debian.org/debian bookworm/main arm64 libcommons-logging-java all 1.2-3 [62.4 kB] Get: 181 http://deb.debian.org/debian bookworm/main arm64 libcommons-configuration-java all 1.10-6 [347 kB] Get: 182 http://deb.debian.org/debian bookworm/main arm64 libfontbox-java all 1:1.8.16-2 [211 kB] Get: 183 http://deb.debian.org/debian bookworm/main arm64 libice6 arm64 2:1.0.10-1 [55.6 kB] Get: 184 http://deb.debian.org/debian bookworm/main arm64 libkpathsea6 arm64 2022.20220321.62855-5.1+deb12u1 [149 kB] Get: 185 http://deb.debian.org/debian bookworm/main arm64 liblog4j1.2-java all 1.2.17-11 [444 kB] Get: 186 http://deb.debian.org/debian bookworm/main arm64 libmail-java all 1.6.5-2 [701 kB] Get: 187 http://deb.debian.org/debian bookworm/main arm64 libncurses6 arm64 6.4-4 [93.9 kB] Get: 188 http://deb.debian.org/debian bookworm/main arm64 libossp-uuid16 arm64 1.6.2-1.5+b11 [39.9 kB] Get: 189 http://deb.debian.org/debian bookworm/main arm64 libpaper1 arm64 1.1.29 [12.6 kB] Get: 190 http://deb.debian.org/debian bookworm/main arm64 libpaper-utils arm64 1.1.29 [8776 B] Get: 191 http://deb.debian.org/debian bookworm/main arm64 libpdfbox-java all 1:1.8.16-2 [5205 kB] Get: 192 http://deb.debian.org/debian bookworm/main arm64 libptexenc1 arm64 2022.20220321.62855-5.1+deb12u1 [43.0 kB] Get: 193 http://deb.debian.org/debian bookworm/main arm64 rubygems-integration all 1.18 [6704 B] Get: 194 http://deb.debian.org/debian bookworm/main arm64 ruby3.1 arm64 3.1.2-7 [663 kB] Get: 195 http://deb.debian.org/debian bookworm/main arm64 ruby-rubygems all 3.3.15-2 [293 kB] Get: 196 http://deb.debian.org/debian bookworm/main arm64 ruby arm64 1:3.1 [5868 B] Get: 197 http://deb.debian.org/debian bookworm/main arm64 rake all 13.0.6-3 [83.9 kB] Get: 198 http://deb.debian.org/debian bookworm/main arm64 ruby-net-telnet all 0.2.0-1 [13.1 kB] Get: 199 http://deb.debian.org/debian bookworm/main arm64 ruby-webrick all 1.8.1-1 [51.4 kB] Get: 200 http://deb.debian.org/debian bookworm/main arm64 ruby-xmlrpc all 0.3.2-2 [24.4 kB] Get: 201 http://deb.debian.org/debian bookworm/main arm64 ruby-sdbm arm64 1.0.0-5+b1 [14.5 kB] Get: 202 http://deb.debian.org/debian bookworm/main arm64 libyaml-0-2 arm64 0.2.5-1 [50.4 kB] Get: 203 http://deb.debian.org/debian bookworm/main arm64 libruby3.1 arm64 3.1.2-7 [5248 kB] Get: 204 http://deb.debian.org/debian bookworm/main arm64 libruby arm64 1:3.1 [4968 B] Get: 205 http://deb.debian.org/debian bookworm/main arm64 libsm6 arm64 2:1.2.3-1 [34.0 kB] Get: 206 http://deb.debian.org/debian bookworm/main arm64 libsynctex2 arm64 2022.20220321.62855-5.1+deb12u1 [57.3 kB] Get: 207 http://deb.debian.org/debian bookworm/main arm64 libtcmalloc-minimal4 arm64 2.10-1 [88.5 kB] Get: 208 http://deb.debian.org/debian bookworm/main arm64 libteckit0 arm64 2.5.11+ds1-1+b1 [299 kB] Get: 209 http://deb.debian.org/debian bookworm/main arm64 libtexlua53-5 arm64 2022.20220321.62855-5.1+deb12u1 [103 kB] Get: 210 http://deb.debian.org/debian bookworm/main arm64 libxml-commons-external-java all 1.4.01-5 [240 kB] Get: 211 http://deb.debian.org/debian bookworm/main arm64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 212 http://deb.debian.org/debian bookworm/main arm64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 213 http://deb.debian.org/debian bookworm/main arm64 libxalan2-java all 2.7.2-4 [3419 kB] Get: 214 http://deb.debian.org/debian bookworm/main arm64 libxt6 arm64 1:1.2.1-1.1 [172 kB] Get: 215 http://deb.debian.org/debian bookworm/main arm64 libxmu6 arm64 2:1.1.3-3 [57.2 kB] Get: 216 http://deb.debian.org/debian bookworm/main arm64 libxpm4 arm64 1:3.5.12-1.1+deb12u1 [45.4 kB] Get: 217 http://deb.debian.org/debian bookworm/main arm64 libxaw7 arm64 2:1.0.14-1 [184 kB] Get: 218 http://deb.debian.org/debian bookworm/main arm64 libxft2 arm64 2.3.6-1 [58.7 kB] Get: 219 http://deb.debian.org/debian bookworm/main arm64 libzzip-0-13 arm64 0.13.72+dfsg.1-1.1 [58.3 kB] Get: 220 http://deb.debian.org/debian bookworm/main arm64 tex-common all 6.18 [32.5 kB] Get: 221 http://deb.debian.org/debian bookworm/main arm64 preview-latex-style all 12.2-1 [201 kB] Get: 222 http://deb.debian.org/debian bookworm/main arm64 ruby-text all 1.3.1-1 [13.4 kB] Get: 223 http://deb.debian.org/debian bookworm/main arm64 ruby-cassiopee all 0.1.13-1.1 [11.7 kB] Get: 224 http://deb.debian.org/debian bookworm/main arm64 swi-prolog-core arm64 9.0.4+dfsg-2 [1376 kB] Get: 225 http://deb.debian.org/debian bookworm/main arm64 swi-prolog-doc all 9.0.4+dfsg-2 [1557 kB] Get: 226 http://deb.debian.org/debian bookworm/main arm64 swi-prolog-core-packages arm64 9.0.4+dfsg-2 [1307 kB] Get: 227 http://deb.debian.org/debian bookworm/main arm64 swi-prolog-nox arm64 9.0.4+dfsg-2 [163 kB] Get: 228 http://deb.debian.org/debian bookworm/main arm64 swi-prolog-x arm64 9.0.4+dfsg-2 [2065 kB] Get: 229 http://deb.debian.org/debian bookworm/main arm64 swi-prolog arm64 9.0.4+dfsg-2 [12.9 kB] Get: 230 http://deb.debian.org/debian bookworm/main arm64 t1utils arm64 1.41-4 [59.8 kB] Get: 231 http://deb.debian.org/debian bookworm/main arm64 texlive-binaries arm64 2022.20220321.62855-5.1+deb12u1 [7544 kB] Get: 232 http://deb.debian.org/debian bookworm/main arm64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 233 http://deb.debian.org/debian bookworm/main arm64 texlive-base all 2022.20230122-3 [21.9 MB] Get: 234 http://deb.debian.org/debian bookworm/main arm64 texlive-fonts-recommended all 2022.20230122-3 [4988 kB] Get: 235 http://deb.debian.org/debian bookworm/main arm64 texlive-latex-base all 2022.20230122-3 [1182 kB] Get: 236 http://deb.debian.org/debian bookworm/main arm64 texlive-latex-recommended all 2022.20230122-3 [8880 kB] Get: 237 http://deb.debian.org/debian bookworm/main arm64 texlive all 2022.20230122-3 [18.2 kB] Get: 238 http://deb.debian.org/debian bookworm/main arm64 texlive-pictures all 2022.20230122-3 [15.8 MB] Get: 239 http://deb.debian.org/debian bookworm/main arm64 texlive-latex-extra all 2022.20230122-4 [19.2 MB] Get: 240 http://deb.debian.org/debian bookworm/main arm64 texlive-plain-generic all 2022.20230122-4 [28.9 MB] Fetched 355 MB in 2s (143 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package readline-common. (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 ... 18171 files and directories currently installed.) Preparing to unpack .../readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:arm64. Preparing to unpack .../libreadline8_8.2-1.3_arm64.deb ... Unpacking libreadline8:arm64 (8.2-1.3) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../libsigsegv2_2.14-1_arm64.deb ... Unpacking libsigsegv2:arm64 (2.14-1) ... Setting up readline-common (8.2-1.3) ... Setting up libreadline8:arm64 (8.2-1.3) ... Setting up libsigsegv2:arm64 (2.14-1) ... Selecting previously unselected package gawk. (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 ... 18204 files and directories currently installed.) Preparing to unpack .../gawk_1%3a5.2.1-2_arm64.deb ... Unpacking gawk (1:5.2.1-2) ... Selecting previously unselected package libpython3.11-minimal:arm64. Preparing to unpack .../libpython3.11-minimal_3.11.2-6_arm64.deb ... Unpacking libpython3.11-minimal:arm64 (3.11.2-6) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.5.0-1_arm64.deb ... Unpacking libexpat1:arm64 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_arm64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:arm64 (3.11.2-6) ... Setting up libexpat1:arm64 (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 ... 18708 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.11.2-1+b1_arm64.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package libpython3.11-stdlib:arm64. Preparing to unpack .../libpython3.11-stdlib_3.11.2-6_arm64.deb ... Unpacking libpython3.11-stdlib:arm64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../python3.11_3.11.2-6_arm64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../libpython3-stdlib_3.11.2-1+b1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (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 ... 19118 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_arm64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../001-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package openssl. Preparing to unpack .../002-openssl_3.0.11-1~deb12u2_arm64.deb ... Unpacking openssl (3.0.11-1~deb12u2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../003-ca-certificates_20230311_all.deb ... Unpacking ca-certificates (20230311) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../004-libmagic-mgc_1%3a5.44-3_arm64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../005-libmagic1_1%3a5.44-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.44-3_arm64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-12_arm64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../008-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.22.4-10_arm64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.38.1-5+b1_arm64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../011-libpipeline1_1.5.7-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.11.2-2_arm64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package ucf. Preparing to unpack .../013-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../014-hicolor-icon-theme_0.17-2_all.deb ... Unpacking hicolor-icon-theme (0.17-2) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../015-libgdk-pixbuf2.0-common_2.42.10+dfsg-1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Selecting previously unselected package libglib2.0-0:arm64. Preparing to unpack .../016-libglib2.0-0_2.74.6-2_arm64.deb ... Unpacking libglib2.0-0:arm64 (2.74.6-2) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../017-libicu72_72.1-3_arm64.deb ... Unpacking libicu72:arm64 (72.1-3) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../018-libxml2_2.9.14+dfsg-1.3~deb12u1_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../019-shared-mime-info_2.2-1_arm64.deb ... Unpacking shared-mime-info (2.2-1) ... Selecting previously unselected package libjpeg62-turbo:arm64. Preparing to unpack .../020-libjpeg62-turbo_1%3a2.1.5-2_arm64.deb ... 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Unpacking texlive-plain-generic (2022.20230122-4) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:arm64 (1.5.7-1) ... Setting up libgraphite2-3:arm64 (1.3.14-1) ... Setting up liblcms2-2:arm64 (2.14-2) ... Setting up libpixman-1-0:arm64 (0.42.2-1) ... Setting up libxau6:arm64 (1:1.0.9-1) ... Setting up libicu72:arm64 (72.1-3) ... Setting up liblerc4:arm64 (4.0.0+ds-2) ... Setting up libjsr305-java (0.1~+svn49-11) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up hicolor-icon-theme (0.17-2) ... Setting up java-common (0.74) ... Setting up libdatrie1:arm64 (0.2.13-2+b1) ... Setting up libcommons-cli-java (1.5.0-1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up gawk (1:5.2.1-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libyaml-0-2:arm64 (0.2.5-1) ... Setting up libglib2.0-0:arm64 (2.74.6-2) ... No schema files found: doing nothing. Setting up libglvnd0:arm64 (1.6.0-1) ... Setting up libpython3.11-stdlib:arm64 (3.11.2-6) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:arm64 (1.0.9-2+b6) ... Setting up libfontbox-java (1:1.8.16-2) ... Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libsensors-config (1:3.6.0-7.1) ... Setting up libtcmalloc-minimal4:arm64 (2.10-1) ... Setting up libmagic1:arm64 (1:5.44-3) ... Setting up libdeflate0:arm64 (1.14-1) ... Setting up liblog4j1.2-java (1.2.17-11) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libzzip-0-13:arm64 (0.13.72+dfsg.1-1.1) ... Setting up file (1:5.44-3) ... Setting up libossp-uuid16:arm64 (1.6.2-1.5+b11) ... Setting up libjbig0:arm64 (2.1-6.1) ... Setting up libcommons-collections3-java (3.2.2-2) ... Setting up libasound2-data (1.2.8-1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:arm64 (4.8.12-3.1) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-2) ... Setting up libx11-data (2:1.8.4-2+deb12u2) ... Setting up libnspr4:arm64 (2:4.35-1) ... Setting up libteckit0:arm64 (2.5.11+ds1-1+b1) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:arm64 (0.8-10) ... Setting up libncurses6:arm64 (6.4-4) ... Setting up libatinject-jsr330-api-java (1.0+ds1-5) ... Setting up libdbus-1-3:arm64 (1.14.10-1~deb12u1) ... Setting up ruby-net-telnet (0.2.0-1) ... Setting up libfribidi0:arm64 (1.0.8-2.1) ... Setting up t1utils (1.41-4) ... Setting up libtexlua53-5:arm64 (2022.20220321.62855-5.1+deb12u1) ... Setting up libpng16-16:arm64 (1.6.39-2) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up swi-prolog-core (9.0.4+dfsg-2) ... update-alternatives: using /usr/bin/swipl to provide /usr/bin/prolog (prolog) in auto mode Setting up libcommons-pool-java (1.6-4) ... Setting up autopoint (0.21-12) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libpcsclite1:arm64 (1.9.9-2) ... Setting up libsensors5:arm64 (1:3.6.0-7.1) ... Setting up libjgraph-java (5.12.4.2+dfsg-7) ... Setting up libactivation-java (1.2.0-2) ... Setting up libhamcrest-java (2.2-1) ... Setting up libglapi-mesa:arm64 (22.3.6-1+deb12u1) ... Setting up libkpathsea6:arm64 (2022.20220321.62855-5.1+deb12u1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:arm64 (1.2.4-0.2+deb12u1) ... Setting up ruby-webrick (1.8.1-1) ... Setting up libboost-serialization1.74.0:arm64 (1.74.0+ds1-21) ... Setting up libgif7:arm64 (5.2.1-2.5) ... Setting up libantlr3-runtime-java (3.5.3-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libxshmfence1:arm64 (1.3-1) ... Setting up libmail-java (1.6.5-2) ... Setting up at-spi2-common (2.46.0-5) ... Setting up libtiff6:arm64 (4.5.0-6+deb12u1) ... Setting up swi-prolog-core-packages (9.0.4+dfsg-2) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up libxml-commons-external-java (1.4.01-5) ... Setting up libasound2:arm64 (1.2.8-1+b1) ... Setting up fonts-lmodern (2.005-1) ... Setting up libsub-override-perl (0.09-4) ... Setting up libthai-data (0.1.29-1) ... Setting up libgtk2.0-common (2.24.33-2) ... Setting up libatk1.0-0:arm64 (2.46.0-5) ... Setting up libxerces2-java (2.12.2-1) ... Setting up openssl (3.0.11-1~deb12u2) ... Setting up libbsd0:arm64 (0.11.7-2) ... Setting up libdrm-common (2.4.114-1) ... Setting up libelf1:arm64 (0.188-2.1) ... Setting up ruby-text (1.3.1-1) ... Setting up ruby-xmlrpc (0.3.2-2) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.3~deb12u1) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up chrpath (0.16-2+b1) ... Setting up libsynctex2:arm64 (2022.20220321.62855-5.1+deb12u1) ... Setting up libpython3-stdlib:arm64 (3.11.2-1+b1) ... Setting up libgflags2.2 (2.2.2-2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libcommons-dbcp-java (1.4-8) ... Setting up python3.11 (3.11.2-6) ... Setting up libice6:arm64 (2:1.0.10-1) ... Setting up libxdmcp6:arm64 (1:1.1.2-3) ... Setting up libxcb1:arm64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libxcb-xfixes0:arm64 (1.15-1) ... Setting up libpdfbox-java (1:1.8.16-2) ... Setting up libgoogle-glog0v6 (0.6.0-2) ... Setting up libstringtemplate4-java (4.0.8-2.1) ... Setting up libjgrapht0.8-java (0.8.3-6) ... Setting up libcassie1v5 (1.0.9-3+b2) ... Setting up libtool (2.4.7-5) ... Setting up libarchive13:arm64 (3.6.2-1) ... Setting up libxcb-render0:arm64 (1.15-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libxcb-glx0:arm64 (1.15-1) ... Setting up libedit2:arm64 (3.1-20221030-2) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:arm64 (0.8-10) ... Setting up cassiopee (1.0.9-3+b2) ... Setting up swi-prolog-doc (9.0.4+dfsg-2) ... Setting up libcommons-logging-java (1.2-3) ... Setting up python3 (3.11.2-1+b1) ... Setting up libnss3:arm64 (2:3.87.1-1) ... Setting up libxcb-shm0:arm64 (1.15-1) ... Setting up libcommons-lang-java (2.6-10) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libxcb-present0:arm64 (1.15-1) ... Setting up dh-autoreconf (20) ... Setting up libthai0:arm64 (0.1.29-1) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libptexenc1:arm64 (2022.20220321.62855-5.1+deb12u1) ... Setting up libfreetype6:arm64 (2.12.1+dfsg-5) ... Setting up libxcb-sync1:arm64 (1.15-1) ... Setting up libxalan2-java (2.7.2-4) ... Setting up shared-mime-info (2.2-1) ... Setting up ucf (3.0043+nmu1) ... Setting up libxcb-dri2-0:arm64 (1.15-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libdrm2:arm64 (2.4.114-1+b1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libxcb-randr0:arm64 (1.15-1) ... Setting up libllvm15:arm64 (1:15.0.6-4+b1) ... Setting up swi-prolog-nox (9.0.4+dfsg-2) ... Setting up libx11-6:arm64 (2:1.8.4-2+deb12u2) ... Setting up libharfbuzz0b:arm64 (6.0.0+dfsg-3) ... Setting up libgdk-pixbuf-2.0-0:arm64 (2.42.10+dfsg-1+b1) ... Setting up libfontconfig1:arm64 (2.14.1-4) ... Setting up ca-certificates-java (20230710~deb12u1) ... No JRE found. Skipping Java certificates setup. Setting up libcommons-configuration-java (1.10-6) ... Setting up libxcomposite1:arm64 (1:0.4.5-1) ... Setting up libsm6:arm64 (2:1.2.3-1) ... Setting up libavahi-client3:arm64 (0.8-10) ... Setting up libdrm-amdgpu1:arm64 (2.4.114-1+b1) ... Setting up libxcb-dri3-0:arm64 (1.15-1) ... Setting up libpaper1:arm64 (1.1.29) ... Creating config file /etc/papersize with new version Setting up gtk-update-icon-cache (3.24.38-2~deb12u1) ... Setting up libx11-xcb1:arm64 (2:1.8.4-2+deb12u2) ... Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:arm64 (2.4.114-1+b1) ... Setting up libxdamage1:arm64 (1:1.1.6-1) ... Setting up libxpm4:arm64 (1:3.5.12-1.1+deb12u1) ... Setting up libxrender1:arm64 (1:0.9.10-1.1) ... Setting up libdrm-radeon1:arm64 (2.4.114-1+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpango-1.0-0:arm64 (1.50.12+ds-1) ... Setting up libgl1-mesa-dri:arm64 (22.3.6-1+deb12u1) ... Setting up libxext6:arm64 (2:1.3.4-1+b1) ... Setting up rubygems-integration (1.18) ... Setting up libpaper-utils (1.1.29) ... Setting up man-db (2.11.2-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libcairo2:arm64 (1.16.0-7) ... Setting up libxxf86vm1:arm64 (1:1.1.4-1+b2) ... Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up adwaita-icon-theme (43-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libxfixes3:arm64 (1:6.0.0-2) ... Setting up libxinerama1:arm64 (2:1.1.4-3) ... Setting up libxrandr2:arm64 (2:1.5.2-2+b1) ... Setting up libxt6:arm64 (1:1.2.1-1.1) ... Setting up libcups2:arm64 (2.4.2-3+deb12u5) ... Setting up libpangoft2-1.0-0:arm64 (1.50.12+ds-1) ... Setting up libpangocairo-1.0-0:arm64 (1.50.12+ds-1) ... Setting up libxft2:arm64 (2.3.6-1) ... Setting up libxmu6:arm64 (2:1.1.3-3) ... Setting up libglx-mesa0:arm64 (22.3.6-1+deb12u1) ... Setting up libxi6:arm64 (2:1.8-1+b1) ... Setting up libglx0:arm64 (1.6.0-1) ... Setting up libxtst6:arm64 (2:1.2.3-1.1) ... Setting up preview-latex-style (12.2-1) ... Setting up libxcursor1:arm64 (1:1.2.1-1) ... Setting up debhelper (13.11.4) ... Setting up libxaw7:arm64 (2:1.0.14-1) ... Setting up libgl1:arm64 (1.6.0-1) ... Setting up openjdk-17-jre-headless:arm64 (17.0.9+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up texlive-binaries (2022.20220321.62855-5.1+deb12u1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up texlive-base (2022.20230122-3) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up swi-prolog-x (9.0.4+dfsg-2) ... Setting up libgtk2.0-0:arm64 (2.24.33-2) ... Setting up texlive-plain-generic (2022.20230122-4) ... Setting up texlive-latex-base (2022.20230122-3) ... Setting up texlive-latex-recommended (2022.20230122-3) ... Setting up texlive-pictures (2022.20230122-3) ... Setting up texlive-fonts-recommended (2022.20230122-3) ... Setting up swi-prolog (9.0.4+dfsg-2) ... Setting up texlive (2022.20230122-3) ... Setting up texlive-latex-extra (2022.20230122-4) ... Setting up rake (13.0.6-3) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libruby:arm64 (1:3.1) ... Setting up ruby-rubygems (3.3.15-2) ... Setting up libguava-java (31.1-1) ... Setting up libbiojava1.9-java (1:1.9.5+dfsg-3) ... Setting up ruby-sdbm:arm64 (1.0.0-5+b1) ... Setting up libruby3.1:arm64 (3.1.2-7) ... Setting up libbiojava-java (1:1.9.5+dfsg-3) ... Setting up ruby3.1 (3.1.2-7) ... Setting up ruby (1:3.1) ... Setting up ruby-cassiopee (0.1.13-1.1) ... Processing triggers for libc-bin (2.36-9+deb12u3) ... Processing triggers for ca-certificates-java (20230710~deb12u1) ... 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 openjdk-17-jdk-headless:arm64 (17.0.9+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up antlr3 (3.5.3-1) ... Setting up ant (1.10.13-1) ... Setting up junit4 (4.13.2-3) ... Setting up default-jre-headless (2:1.17-74) ... Setting up openjdk-17-jre:arm64 (17.0.9+9-1~deb12u1) ... Setting up default-jre (2:1.17-74) ... Setting up openjdk-17-jdk:arm64 (17.0.9+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up ant-optional (1.10.13-1) ... Setting up default-jdk-headless (2:1.17-74) ... Setting up default-jdk (2:1.17-74) ... 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 tex-common (6.18) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Processing triggers for ca-certificates-java (20230710~deb12u1) ... 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/reproducible-path/logol-1.7.9+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 > ../logol_1.7.9+dfsg-6_source.changes dpkg-buildpackage: info: source package logol dpkg-buildpackage: info: source version 1.7.9+dfsg-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Olivier Sallou dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/logol-1.7.9+dfsg' if [ ! -e test/tmp ]; then mkdir -p test/tmp; fi if [ ! -e test/results ]; then mkdir -p test/results; fi if [ -e prolog/process.so ]; then rm -f prolog/process.so; fi dh_auto_clean ant clean Buildfile: /build/reproducible-path/logol-1.7.9+dfsg/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. clean: BUILD SUCCESSFUL Total time: 0 seconds make[1]: Leaving directory '/build/reproducible-path/logol-1.7.9+dfsg' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/logol-1.7.9+dfsg' if [ -e tools/pldoc.sty.upstream ]; then mv tools/pldoc.sty.upstream tools/pldoc.sty; fi if [ ! -e test/tmp ]; then mkdir -p test/tmp; fi if [ ! -e test/results ]; then mkdir -p test/results; fi dh_clean rm -f Swi*.xml rm -f prolog/*.exe rm -f lib/*.jar rm -f *.log rm -f src/org/irisa/genouest/logol/parser/* rm -f tools/suffixSearch.sh rm -rf test/tmp rm -rf test/results make[1]: Leaving directory '/build/reproducible-path/logol-1.7.9+dfsg' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/logol-1.7.9+dfsg' if [ ! -e lib ]; then mkdir -p lib; fi if [ ! -e prolog/process.so ]; then ln -s /usr/lib/swi-prolog/lib/aarch64-linux/process.so prolog/process.so; fi mv tools/pldoc.sty tools/pldoc.sty.upstream dh_auto_build -- -Dant.build.javac.source=1.5 -Dant.build.javac.target=1.5 ant -Duser.name debian -Dant.build.javac.source=1.5 -Dant.build.javac.target=1.5 Buildfile: /build/reproducible-path/logol-1.7.9+dfsg/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. updatemod: setup: compile_swi_exe: [exec] PLBASE="/usr/lib/swi-prolog" [exec] PLARCH="aarch64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/aarch64-linux" [exec] PLLIB="-lswipl" [exec] PLTHREADS="yes" [exec] logolSwiMain.c: In function 'main': [exec] logolSwiMain.c:50:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 50 | PL_put_string_chars(ResultFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:52:18: warning: ignoring return value of 'PL_next_solution' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 52 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:58:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 58 | PL_put_string_chars(File,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:62:18: warning: ignoring return value of 'PL_put_integer' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 62 | PL_put_integer(HeaderSize, header); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:67:18: warning: ignoring return value of 'PL_next_solution' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 67 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:76:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 76 | PL_put_string_chars(LogolFile,argv[6]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:78:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 78 | PL_put_string_chars(InFile,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:80:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 80 | PL_put_string_chars(OutFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:82:18: warning: ignoring return value of 'PL_put_integer' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 82 | PL_put_integer(Offset,offset); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:102:18: warning: ignoring return value of 'PL_next_solution' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 102 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:120:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 120 | PL_put_string_chars(ResultFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:122:18: warning: ignoring return value of 'PL_next_solution' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 122 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/sicstus.pl:495: [exec] Warning: Singleton variables: [Before,Length,CountPos,CountLength] [exec] ERROR: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] ERROR: catch/3: Unknown procedure: module/3 [exec] ERROR: However, there are definitions for: [exec] ERROR: module/1 [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] Warning: Goal (directive) failed: user:module(logol,[writeFinalMatches/0,isMin/5,replaceMatch/4,appendMatch/3,getCounter/1,config/1,optimalmatch/5,matchstore/2,isMax/3,parseResults/2,checkAlphabetPercentage/3,mapListExact/2,mapListGlobal/2,mapListLocal/2,mapListLocal0/2,matchExist/2,mapModels/3,notpred_pos/6,between/3,notexact_pos/6,notexact/3,matchExist/1,mapModels/2,mapList/2,mydb/1,matchlist/2,isexactwithgaponly/5,isexactwithgaponly_pos/5,setParent/2,getParent/2,logData/2,logolMain/5,cut_sequence/3,isequal/2,isexact_pos/4,isexactwithgapanderror_pos/5,isexactwitherroronly_pos/5,spacer_withresult_pos/5,wordSize_pos/4,wordContent_pos/4,checkPosition_pos/4,anySpacer_pos/7,repeatPredicate_pos/14,testOverlap_pos/5,getsuffixmatch_pos/12,getWordContent/4,openSequenceStream/2,closeSequenceStream/0,getCharsFromPosition/3,getNChar/3,resetParamList/3,getKnownVariables/2,getPosition/3,myCost/4,getDistance/3,initResultFile/1,closeResultFile/1,getParentVariable/2,is4me/5,outputfile/1,writeallresult/2,maxsize/1,getresult/2,offset/1,setSequence/2,computeCost/2,getsuffixmatch/12,writeSequence/2,sequenceData/3,suffixmatch/9,repeatPredicate/14,anySpacer/5,anySpacer/7,any/2,isoverlap/5,morphism/3,spacer_withresult/5,isexact/3,isexact/4,isexact/5,isexactwithgapanderror/4,isexactwithgapanderror/5,isexactwitherroronly/4,isexactwitherroronly/5,matrix/3,iscompequal/2,getcomplement/2,getreversecomplement/2,applymorphism/4,checkCost/4,cost/4,parentalCost/4,varDefinition/5,saveVariable/8,getVariable/9,removeVariable/1,wordSize/3,wordSize/4,percent/3,percent2int/3,checkCost/4,checkCost/5,checkPosition/3,checkPosition/5,checkRelativePosition/4,getContent/3,getContent/4,pushResult/2,countAlphabet/4,isexactwithdistinctgapanderror_pos/7,logolShell/1,cassiopee_pos/14,cassiopee/11],[]) [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:206: [exec] Warning: Singleton variables: [Max] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:221: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:394: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:408: [exec] Warning: Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:434: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variables: [NewPos] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variable in branch: NewPos [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:514: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:517: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:556: [exec] Warning: Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:575: [exec] Warning: Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: IntermediateSpacer [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:673: [exec] Warning: Singleton variables: [InputLength] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:679: [exec] Warning: Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:724: [exec] Warning: Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:964: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:993: [exec] Warning: Singleton variables: [Word] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1024: [exec] Warning: Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1068: [exec] Warning: Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1162: [exec] Warning: Singleton variables: [Errors] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1266: [exec] Warning: Singleton variables: [Morph,Reverse] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1270: [exec] Warning: Singleton variables: [Morph] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1281: [exec] Warning: Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1317: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1341: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1645: [exec] Warning: Singleton variables: [Name] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2036: [exec] Warning: Singleton variables: [Matrix] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2077: [exec] Warning: Singleton variables: [Type] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2180: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2335: [exec] Warning: Singleton variables: [FilterPredicate] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2350: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2380: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2395: [exec] Warning: Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variable in branch: Max [exec] Warning: Singleton variable in branch: Z [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2470: [exec] Warning: Singleton variables: [VarId] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2498: [exec] Warning: Singleton variables: [X,Y,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2516: [exec] Warning: Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2534: [exec] Warning: Singleton variables: [ALPHABET] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2576: [exec] Warning: Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2604: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2608: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2624: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2644: [exec] Warning: Singleton variables: [ID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2647: [exec] Warning: Singleton variables: [OPTVAR] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2653: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2701: [exec] Warning: Singleton variables: [DATA] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2752: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2755: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2758: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2761: [exec] Warning: Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2766: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2769: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] % Disabled autoloading (loaded 42 files) [exec] % Disabled autoloading (loaded 2 files) [exec] % Disabled autoloading (loaded 0 files) [exec] eval `swipl --dump-runtime-variables` [exec] /usr/bin/cc -c -D_REENTRANT -D__SWI_PROLOG__ -D__SWI_EMBEDDED__ -I/usr/lib/swi-prolog/include -o logolSwiMain.o logolSwiMain.c [exec] /usr/bin/cc -o logol.exe -Wl,-rpath=/usr/lib/swi-prolog/lib/aarch64-linux logolSwiMain.o -L/usr/lib/swi-prolog/lib/aarch64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-1914045',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-1914045 >> logol.exe [exec] chmod 755 logol.exe [exec] rm logolSwiMain.o [exec] rm pltmp-1914045 [exec] % halt [exec] PLBASE="/usr/lib/swi-prolog" [exec] PLARCH="aarch64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/aarch64-linux" [exec] PLLIB="-lswipl" [exec] PLTHREADS="yes" [exec] preSwiMain.c: In function 'main': [exec] preSwiMain.c:40:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 40 | PL_put_string_chars(LogolFile1,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:42:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 42 | PL_put_string_chars(LogolFile2,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:44:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 44 | PL_put_string_chars(LogolFile3,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:46:18: warning: ignoring return value of 'PL_put_string_chars' declared with attribute 'warn_unused_result' [-Wunused-result] [exec] 46 | PL_put_string_chars(LogolFile4,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/sicstus.pl:495: [exec] Warning: Singleton variables: [Before,Length,CountPos,CountLength] [exec] ERROR: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] ERROR: catch/3: Unknown procedure: module/3 [exec] ERROR: However, there are definitions for: [exec] ERROR: module/1 [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] Warning: Goal (directive) failed: user:module(logol,[writeFinalMatches/0,isMin/5,replaceMatch/4,appendMatch/3,getCounter/1,config/1,optimalmatch/5,matchstore/2,isMax/3,parseResults/2,checkAlphabetPercentage/3,mapListExact/2,mapListGlobal/2,mapListLocal/2,mapListLocal0/2,matchExist/2,mapModels/3,notpred_pos/6,between/3,notexact_pos/6,notexact/3,matchExist/1,mapModels/2,mapList/2,mydb/1,matchlist/2,isexactwithgaponly/5,isexactwithgaponly_pos/5,setParent/2,getParent/2,logData/2,logolMain/5,cut_sequence/3,isequal/2,isexact_pos/4,isexactwithgapanderror_pos/5,isexactwitherroronly_pos/5,spacer_withresult_pos/5,wordSize_pos/4,wordContent_pos/4,checkPosition_pos/4,anySpacer_pos/7,repeatPredicate_pos/14,testOverlap_pos/5,getsuffixmatch_pos/12,getWordContent/4,openSequenceStream/2,closeSequenceStream/0,getCharsFromPosition/3,getNChar/3,resetParamList/3,getKnownVariables/2,getPosition/3,myCost/4,getDistance/3,initResultFile/1,closeResultFile/1,getParentVariable/2,is4me/5,outputfile/1,writeallresult/2,maxsize/1,getresult/2,offset/1,setSequence/2,computeCost/2,getsuffixmatch/12,writeSequence/2,sequenceData/3,suffixmatch/9,repeatPredicate/14,anySpacer/5,anySpacer/7,any/2,isoverlap/5,morphism/3,spacer_withresult/5,isexact/3,isexact/4,isexact/5,isexactwithgapanderror/4,isexactwithgapanderror/5,isexactwitherroronly/4,isexactwitherroronly/5,matrix/3,iscompequal/2,getcomplement/2,getreversecomplement/2,applymorphism/4,checkCost/4,cost/4,parentalCost/4,varDefinition/5,saveVariable/8,getVariable/9,removeVariable/1,wordSize/3,wordSize/4,percent/3,percent2int/3,checkCost/4,checkCost/5,checkPosition/3,checkPosition/5,checkRelativePosition/4,getContent/3,getContent/4,pushResult/2,countAlphabet/4,isexactwithdistinctgapanderror_pos/7,logolShell/1,cassiopee_pos/14,cassiopee/11],[]) [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:206: [exec] Warning: Singleton variables: [Max] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:221: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:394: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:408: [exec] Warning: Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:434: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variables: [NewPos] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variable in branch: NewPos [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:514: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:517: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:556: [exec] Warning: Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:575: [exec] Warning: Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: IntermediateSpacer [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:673: [exec] Warning: Singleton variables: [InputLength] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:679: [exec] Warning: Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:724: [exec] Warning: Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:964: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:993: [exec] Warning: Singleton variables: [Word] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1024: [exec] Warning: Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1068: [exec] Warning: Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1162: [exec] Warning: Singleton variables: [Errors] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1266: [exec] Warning: Singleton variables: [Morph,Reverse] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1270: [exec] Warning: Singleton variables: [Morph] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1281: [exec] Warning: Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1317: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1341: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:1645: [exec] Warning: Singleton variables: [Name] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2036: [exec] Warning: Singleton variables: [Matrix] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2077: [exec] Warning: Singleton variables: [Type] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2180: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2335: [exec] Warning: Singleton variables: [FilterPredicate] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2350: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2380: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2395: [exec] Warning: Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variable in branch: Max [exec] Warning: Singleton variable in branch: Z [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2470: [exec] Warning: Singleton variables: [VarId] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2498: [exec] Warning: Singleton variables: [X,Y,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2516: [exec] Warning: Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2534: [exec] Warning: Singleton variables: [ALPHABET] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2576: [exec] Warning: Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2604: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2608: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2624: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2644: [exec] Warning: Singleton variables: [ID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2647: [exec] Warning: Singleton variables: [OPTVAR] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2653: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2701: [exec] Warning: Singleton variables: [DATA] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2752: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2755: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2758: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2761: [exec] Warning: Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2766: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/logol.pl:2769: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] % Disabled autoloading (loaded 42 files) [exec] % Disabled autoloading (loaded 2 files) [exec] % Disabled autoloading (loaded 0 files) [exec] eval `swipl --dump-runtime-variables` [exec] /usr/bin/cc -c -D_REENTRANT -D__SWI_PROLOG__ -D__SWI_EMBEDDED__ -I/usr/lib/swi-prolog/include -o preSwiMain.o preSwiMain.c [exec] /usr/bin/cc -o preanalyse.exe -Wl,-rpath=/usr/lib/swi-prolog/lib/aarch64-linux preSwiMain.o -L/usr/lib/swi-prolog/lib/aarch64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-1914338',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-1914338 >> preanalyse.exe [exec] chmod 755 preanalyse.exe [exec] rm preSwiMain.o [exec] rm pltmp-1914338 [exec] % halt clean: antlr: [java] /build/reproducible-path/logol-1.7.9+dfsg/src/logol.g [java] ANTLR Parser Generator Version 3.5.3 compile: [mkdir] Created dir: /build/reproducible-path/logol-1.7.9+dfsg/bin [javac] /build/reproducible-path/logol-1.7.9+dfsg/build.xml:91: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds [javac] Compiling 62 source files to /build/reproducible-path/logol-1.7.9+dfsg/bin [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/parser/logolParser.java:1393: warning: [removal] Boolean(boolean) in Boolean has been deprecated and marked for removal [javac] LogolVariable.mainModels.put(token.getText(),new Boolean(true)); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/test/GrammarTest.java:1995: warning: unreachable catch clause [javac] } catch (IOException e) { [javac] ^ [javac] thrown type FileNotFoundException has already been caught [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/GrammarTools.java:215: warning: [removal] Integer(String) in Integer has been deprecated and marked for removal [javac] return new Integer(expr); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/GrammarTools.java:221: warning: [removal] Integer(String) in Integer has been deprecated and marked for removal [javac] return new Integer(expression[2]); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/GrammarTools.java:225: warning: [removal] Integer(String) in Integer has been deprecated and marked for removal [javac] return new Integer(expression[2])*(-1); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/GrammarTools.java:229: warning: [removal] Integer(int) in Integer has been deprecated and marked for removal [javac] return new Integer(0); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/MyRevCompSequence.java:16: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] static final Character achar = new Character('a'); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/MyRevCompSequence.java:17: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] static final Character cchar = new Character('c'); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/MyRevCompSequence.java:18: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] static final Character gchar = new Character('g'); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/MyRevCompSequence.java:19: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] static final Character tchar = new Character('t'); [javac] ^ [javac] /build/reproducible-path/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/utils/MyRevCompSequence.java:20: warning: [removal] Character(char) in Character has been deprecated and marked for removal [javac] static final Character uchar = new Character('u'); [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] 12 warnings create-jar: [jar] Building jar: /build/reproducible-path/logol-1.7.9+dfsg/lib/LogolExec.jar test_swi: [mkdir] Created dir: /build/reproducible-path/logol-1.7.9+dfsg/test/tmp [mkdir] Created dir: /build/reproducible-path/logol-1.7.9+dfsg/test/results [exec] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:1: [exec] Warning: Singleton variables: [UnitPath,Lib] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:1: [exec] Warning: Goal (directive) failed: user:(prolog_flag(argv,[_7438,_7460,_7482,_7504,_7526,_7548,_7570,_7592,_7614,_7636]),ensure_loaded(_7548)) [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:5: [exec] Warning: Singleton variables: [SicPath,Lib] [exec] Warning: /build/reproducible-path/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:5: [exec] Warning: Goal (directive) failed: user:(prolog_flag(argv,[_9750,_9772,_9794,_9816,_9838,_9860,_9882,_9904,_9926,_9948]),ensure_loaded(_9838)) [exec] Welcome to SWI-Prolog (threaded, 64 bits, version 9.0.4) [exec] SWI-Prolog comes with ABSOLUTELY NO WARRANTY. This is free software. [exec] Please run ?- license. for legal details. [exec] [exec] For online help and background, visit https://www.swi-prolog.org [exec] For built-in help, use ?- help(Topic). or ?- apropos(Word). [exec] [exec] % halt [junit] Running org.irisa.genouest.logol.test.GrammarTest [junit] Testsuite: org.irisa.genouest.logol.test.GrammarTest [junit] Tests run: 78, Failures: 0, Errors: 0, Skipped: 4, Time elapsed: 25.55 sec [junit] Tests run: 78, Failures: 0, Errors: 0, Skipped: 4, Time elapsed: 25.55 sec [junit] [junit] ------------- Standard Output --------------- [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/anyspacer.logol.9a75a765-c268-41ee-98e2-5f2286b2b409.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/anyspacer.logol.9a75a765-c268-41ee-98e2-5f2286b2b409.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.logol.9a75a765-c268-41ee-98e2-5f2286b2b409.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/repeat_overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_overlap.logol.6ef7450c-2f13-4889-8077-1761d6e5aa8a.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/repeat_overlap.logol.6ef7450c-2f13-4889-8077-1761d6e5aa8a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_overlap.logol.6ef7450c-2f13-4889-8077-1761d6e5aa8a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/partialcomplement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.Logol - option offset called with 1000 [junit] INFO org.irisa.genouest.logol.Logol - option start called with 5 [junit] INFO org.irisa.genouest.logol.Logol - option end called with 35 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/partialcomplement.logol.1c567702-a512-430e-b937-3ff136ee2ca2.1005-1035.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/partialcomplement.logol.1c567702-a512-430e-b937-3ff136ee2ca2.reverse.1005-1035.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/partialcomplement.logol.1c567702-a512-430e-b937-3ff136ee2ca2.5-35-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/partialcomplement.logol.1c567702-a512-430e-b937-3ff136ee2ca2.5-35-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/alphabet.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/alphabet.logol.05c4d5de-5ea9-4376-aba1-5b0218ffb1af.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/alphabet.logol.05c4d5de-5ea9-4376-aba1-5b0218ffb1af.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/alphabet.logol.05c4d5de-5ea9-4376-aba1-5b0218ffb1af.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/optimal.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/optimal.logol.c4fcd720-5d55-4e83-a26a-e74af64f3fcc.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/optimal.logol.c4fcd720-5d55-4e83-a26a-e74af64f3fcc.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.logol.c4fcd720-5d55-4e83-a26a-e74af64f3fcc.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/repeat_startspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_startspacer.logol.7dd1b741-3ac4-4153-9a38-e4a284d46637.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/repeat_startspacer.logol.7dd1b741-3ac4-4153-9a38-e4a284d46637.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_startspacer.logol.7dd1b741-3ac4-4153-9a38-e4a284d46637.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/overlap.logol.eec786f1-51ff-4b98-a328-8d1d26d6ee32.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/overlap.logol.eec786f1-51ff-4b98-a328-8d1d26d6ee32.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/overlap.logol.eec786f1-51ff-4b98-a328-8d1d26d6ee32.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/end.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end.logol.2b68ae9e-d4cf-46d1-93bc-bb2a28c5813d.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/end.logol.2b68ae9e-d4cf-46d1-93bc-bb2a28c5813d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end.logol.2b68ae9e-d4cf-46d1-93bc-bb2a28c5813d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/negcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent.logol.7eaa440b-b6b3-4ef6-9f13-b6cbf20ab726.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/negcontent.logol.7eaa440b-b6b3-4ef6-9f13-b6cbf20ab726.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.logol.7eaa440b-b6b3-4ef6-9f13-b6cbf20ab726.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/begin.logol.c7b074be-fb6a-4671-a9b3-d567ea53dc5f.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/begin.logol.c7b074be-fb6a-4671-a9b3-d567ea53dc5f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.logol.c7b074be-fb6a-4671-a9b3-d567ea53dc5f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/1799.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/1799.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1799.logol.9ec5b561-8b9b-4add-8f36-e9ab8145424f.1-4.xml: 3 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 3 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/1799.logol.9ec5b561-8b9b-4add-8f36-e9ab8145424f.0-4-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1799.logol.9ec5b561-8b9b-4add-8f36-e9ab8145424f.0-4-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/1800.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/1800.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1800.logol.27441d18-efa6-457f-97e1-43e67db5137e.1-19.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/1800.logol.27441d18-efa6-457f-97e1-43e67db5137e.0-19-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1800.logol.27441d18-efa6-457f-97e1-43e67db5137e.0-19-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/1806.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1806.logol.2fb53586-dd84-421c-8243-3ee200217be3.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/1806.logol.2fb53586-dd84-421c-8243-3ee200217be3.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1806.logol.2fb53586-dd84-421c-8243-3ee200217be3.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/2244.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2244.logol.019eab65-80d2-4305-a7fe-22717ebc5b06.1-31.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 0 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/2244.logol.019eab65-80d2-4305-a7fe-22717ebc5b06.0-31-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2244.logol.019eab65-80d2-4305-a7fe-22717ebc5b06.0-31-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/2235.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/2235.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2235.logol.104bfd92-a676-4799-9269-0914fb0eacdf.1-26.xml: 6 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 6 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/2235.logol.104bfd92-a676-4799-9269-0914fb0eacdf.0-26-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2235.logol.104bfd92-a676-4799-9269-0914fb0eacdf.0-26-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/2242.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/2242.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2242.logol.73fa0260-454c-4d57-9ef3-508c24596b75.1-29.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/2242.logol.73fa0260-454c-4d57-9ef3-508c24596b75.0-29-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2242.logol.73fa0260-454c-4d57-9ef3-508c24596b75.0-29-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/2243.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/2243.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2243.logol.b1229495-0605-47c8-8aec-9bfdefb76b2a.1-15.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/2243.logol.b1229495-0605-47c8-8aec-9bfdefb76b2a.0-15-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2243.logol.b1229495-0605-47c8-8aec-9bfdefb76b2a.0-15-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/fix2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/fix2244.logol.b04a93ba-e47c-41ab-aacf-6d2e6aa92c63.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/fix2244.logol.b04a93ba-e47c-41ab-aacf-6d2e6aa92c63.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/fix2244.logol.b04a93ba-e47c-41ab-aacf-6d2e6aa92c63.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/halt.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/halt.logol.0c0ad62c-957b-4866-bdf5-5826ae3ce07f.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/halt.logol.0c0ad62c-957b-4866-bdf5-5826ae3ce07f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/halt.logol.0c0ad62c-957b-4866-bdf5-5826ae3ce07f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/negcontent2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent2.logol.2f6f784e-eca7-41b1-8c88-6961390fc1cd.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/negcontent2.logol.2f6f784e-eca7-41b1-8c88-6961390fc1cd.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent2.logol.2f6f784e-eca7-41b1-8c88-6961390fc1cd.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/negcontent3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent3.logol.bcc799dd-fc3a-40ab-ba54-e88d125bf34d.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/negcontent3.logol.bcc799dd-fc3a-40ab-ba54-e88d125bf34d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent3.logol.bcc799dd-fc3a-40ab-ba54-e88d125bf34d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/external.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/external.logol.7822fd21-3eba-4478-9554-066acd1c0c4e.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/external.logol.7822fd21-3eba-4478-9554-066acd1c0c4e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external.logol.7822fd21-3eba-4478-9554-066acd1c0c4e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/end_of_stream1.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end_of_stream1.logol.13c5b542-dd50-4b82-87a8-a29ca4bf3720.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/end_of_stream1.logol.13c5b542-dd50-4b82-87a8-a29ca4bf3720.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream1.logol.13c5b542-dd50-4b82-87a8-a29ca4bf3720.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/end_of_stream2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end_of_stream2.logol.d0b64aa7-0dd0-415f-8502-204b07cae123.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 0 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/end_of_stream2.logol.d0b64aa7-0dd0-415f-8502-204b07cae123.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream2.logol.d0b64aa7-0dd0-415f-8502-204b07cae123.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/metacontrol.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/metacontrol.logol.b29fd712-6098-499c-b14c-59c6c3ffcf38.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/metacontrol.logol.b29fd712-6098-499c-b14c-59c6c3ffcf38.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/metacontrol.logol.b29fd712-6098-499c-b14c-59c6c3ffcf38.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/view_begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/view_begin.logol.34cad060-8b50-4f84-b206-93882fc14ce8.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/view_begin.logol.34cad060-8b50-4f84-b206-93882fc14ce8.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/view_begin.logol.34cad060-8b50-4f84-b206-93882fc14ce8.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/begin_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/begin_postpone.logol.197fba3c-cf52-42fe-9d72-620bd5c8e0ef.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/begin_postpone.logol.197fba3c-cf52-42fe-9d72-620bd5c8e0ef.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin_postpone.logol.197fba3c-cf52-42fe-9d72-620bd5c8e0ef.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/complement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.8b173ef4-ec05-49e3-883d-7256c7f231cc.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.8b173ef4-ec05-49e3-883d-7256c7f231cc.reverse.1-41.xml: 3 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 3 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/complement.logol.8b173ef4-ec05-49e3-883d-7256c7f231cc.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complement.logol.8b173ef4-ec05-49e3-883d-7256c7f231cc.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/protein.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/protein.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option protein called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/protein.logol.1c9fcd34-3e11-4ced-a6bf-e18505b6665e.1-23.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/protein.logol.1c9fcd34-3e11-4ced-a6bf-e18505b6665e.0-23-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/protein.logol.1c9fcd34-3e11-4ced-a6bf-e18505b6665e.0-23-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/morphism_var.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/morphism_var.logol.c502d552-25ce-40ac-9a28-98676fafe226.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/morphism_var.logol.c502d552-25ce-40ac-9a28-98676fafe226.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism_var.logol.c502d552-25ce-40ac-9a28-98676fafe226.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.04c2c75a-a11b-4282-a6f8-69cbf20d934e.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variable.logol.04c2c75a-a11b-4282-a6f8-69cbf20d934e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.04c2c75a-a11b-4282-a6f8-69cbf20d934e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/cost_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/cost_postpone.logol.4b4983fd-e2e9-43e5-ba5b-347c306ac963.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/cost_postpone.logol.4b4983fd-e2e9-43e5-ba5b-347c306ac963.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/cost_postpone.logol.4b4983fd-e2e9-43e5-ba5b-347c306ac963.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/call_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model.logol.ecc74643-3da3-4718-b48a-26b83a79be52.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/call_model.logol.ecc74643-3da3-4718-b48a-26b83a79be52.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model.logol.ecc74643-3da3-4718-b48a-26b83a79be52.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variablewithdistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewithdistance.logol.67a5322d-9c1e-46f6-b84b-8bada2f40454.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variablewithdistance.logol.67a5322d-9c1e-46f6-b84b-8bada2f40454.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance.logol.67a5322d-9c1e-46f6-b84b-8bada2f40454.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/reproducible-path/logol-1.7.9+dfsg/test/optimal.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR1)==>LOGOLVAR2%mydata%:{?"aaaa"},LOGOLVAR3%X1%:{#OPT[2,8]} [junit] mod1(LOGOLVAR4)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/optimal.lgd.13fcb6e8-f579-4d68-9ee9-26340c318d81.logol [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/optimal.lgd.13fcb6e8-f579-4d68-9ee9-26340c318d81.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/optimal.lgd.13fcb6e8-f579-4d68-9ee9-26340c318d81.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.lgd.13fcb6e8-f579-4d68-9ee9-26340c318d81.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variablewitherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewitherror.logol.62f88d6a-c690-4db6-a322-f002eb72895f.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variablewitherror.logol.62f88d6a-c690-4db6-a322-f002eb72895f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherror.logol.62f88d6a-c690-4db6-a322-f002eb72895f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/reproducible-path/logol-1.7.9+dfsg/test/anyspacer.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR4)==>LOGOLVAR5%X1%:{@[0,20]},"ccc" [junit] mod1(LOGOLVAR6)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/anyspacer.lgd.8162fe59-def4-467b-b593-17c84443f1fa.logol [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/anyspacer.lgd.8162fe59-def4-467b-b593-17c84443f1fa.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/anyspacer.lgd.8162fe59-def4-467b-b593-17c84443f1fa.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.lgd.8162fe59-def4-467b-b593-17c84443f1fa.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/reproducible-path/logol-1.7.9+dfsg/test/all.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR6)==>"ccc",.*,"ccc" [junit] mod1(LOGOLVAR7)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/all.lgd.510bfef4-0f2c-44cd-83f7-9e8109295225.logol [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/all.lgd.510bfef4-0f2c-44cd-83f7-9e8109295225.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/all.lgd.510bfef4-0f2c-44cd-83f7-9e8109295225.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.lgd.510bfef4-0f2c-44cd-83f7-9e8109295225.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/repeat_any.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_any.logol.a235502f-464e-4a37-ba9f-5ca1f9415b50.1-41.xml: 3 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 3 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/repeat_any.logol.a235502f-464e-4a37-ba9f-5ca1f9415b50.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_any.logol.a235502f-464e-4a37-ba9f-5ca1f9415b50.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/comment2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/comment2.logol.21b42292-efa9-4b85-a0a0-0bac98372e3d.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/comment2.logol.21b42292-efa9-4b85-a0a0-0bac98372e3d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment2.logol.21b42292-efa9-4b85-a0a0-0bac98372e3d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/reproducible-path/logol-1.7.9+dfsg/test/negcontent.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR7)==>"aaaa",! "cgta":{#[3,5]} [junit] mod1(LOGOLVAR8)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/negcontent.lgd.1b34d2b2-44b7-40bd-8af8-bae95fe0d759.logol [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent.lgd.1b34d2b2-44b7-40bd-8af8-bae95fe0d759.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/negcontent.lgd.1b34d2b2-44b7-40bd-8af8-bae95fe0d759.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.lgd.1b34d2b2-44b7-40bd-8af8-bae95fe0d759.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/parent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_witherror.logol.3add61de-b04e-4347-a049-b28874489040.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/parent_witherror.logol.3add61de-b04e-4347-a049-b28874489040.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror.logol.3add61de-b04e-4347-a049-b28874489040.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/parent_exact.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_exact.logol.e4a4d883-2c82-4e99-a810-5b8c4ff77a62.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/parent_exact.logol.e4a4d883-2c82-4e99-a810-5b8c4ff77a62.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_exact.logol.e4a4d883-2c82-4e99-a810-5b8c4ff77a62.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/all.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/all.logol.ce27a491-7d65-43a0-881b-46b503a6801c.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/all.logol.ce27a491-7d65-43a0-881b-46b503a6801c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.logol.ce27a491-7d65-43a0-881b-46b503a6801c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variable_unknown.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_unknown.logol.248ccfa9-a5d7-4fd6-a69d-58bfe814051b.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variable_unknown.logol.248ccfa9-a5d7-4fd6-a69d-58bfe814051b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_unknown.logol.248ccfa9-a5d7-4fd6-a69d-58bfe814051b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/morphism.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/morphism.logol.3db168ac-a357-4245-929f-a2bf6bc208d6.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/morphism.logol.3db168ac-a357-4245-929f-a2bf6bc208d6.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.logol.3db168ac-a357-4245-929f-a2bf6bc208d6.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/or_condition2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/or_condition2.logol.61ed0452-ad51-48c7-96ce-3e93201857ac.1-41.xml: 4 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 4 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/or_condition2.logol.61ed0452-ad51-48c7-96ce-3e93201857ac.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition2.logol.61ed0452-ad51-48c7-96ce-3e93201857ac.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/comment.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/comment.logol.36eabdea-c1fe-4524-908b-3810a3326f0b.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/comment.logol.36eabdea-c1fe-4524-908b-3810a3326f0b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment.logol.36eabdea-c1fe-4524-908b-3810a3326f0b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/reproducible-path/logol-1.7.9+dfsg/test/variable.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR8)==>"aaa","acgt":{_LOGOLVAR9%R1%},?LOGOLVAR9%R1% [junit] mod1(LOGOLVAR10)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/variable.lgd.ab319280-edd5-42bc-8130-74051e4c4eff.logol [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.lgd.ab319280-edd5-42bc-8130-74051e4c4eff.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variable.lgd.ab319280-edd5-42bc-8130-74051e4c4eff.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.lgd.ab319280-edd5-42bc-8130-74051e4c4eff.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/call_model2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model2.logol.19efa9b9-dea9-44aa-8d5b-79ad12fe1e44.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/call_model2.logol.19efa9b9-dea9-44aa-8d5b-79ad12fe1e44.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model2.logol.19efa9b9-dea9-44aa-8d5b-79ad12fe1e44.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/call_model3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model3.logol.8ff176ac-7178-489a-b178-3169ffdb0c12.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/call_model3.logol.8ff176ac-7178-489a-b178-3169ffdb0c12.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model3.logol.8ff176ac-7178-489a-b178-3169ffdb0c12.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/call_model4.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model4.logol.13931539-e8fd-423f-8034-93af7a0cf665.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/call_model4.logol.13931539-e8fd-423f-8034-93af7a0cf665.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model4.logol.13931539-e8fd-423f-8034-93af7a0cf665.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/repeat0.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat0.logol.a9dc1130-084e-42dc-ba51-ccd4bc2df439.1-41.xml: 4 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 4 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/repeat0.logol.a9dc1130-084e-42dc-ba51-ccd4bc2df439.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat0.logol.a9dc1130-084e-42dc-ba51-ccd4bc2df439.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/reverse.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/reverse.logol.3988fc63-f265-498e-bfa3-5ed18ebfa47e.1-41.xml: 4 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 4 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/reverse.logol.3988fc63-f265-498e-bfa3-5ed18ebfa47e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/reverse.logol.3988fc63-f265-498e-bfa3-5ed18ebfa47e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variable_postcontent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_postcontent_witherror.logol.0b576c54-d6e5-427d-8c61-a20dcc393968.1-41.xml: 4 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 4 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variable_postcontent_witherror.logol.0b576c54-d6e5-427d-8c61-a20dcc393968.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent_witherror.logol.0b576c54-d6e5-427d-8c61-a20dcc393968.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variablewitherroranddistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewitherroranddistance.logol.2b66445d-e009-45f5-bd35-5491fbf30082.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variablewitherroranddistance.logol.2b66445d-e009-45f5-bd35-5491fbf30082.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherroranddistance.logol.2b66445d-e009-45f5-bd35-5491fbf30082.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/complex.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complex.logol.6a40ea43-ea63-418b-8f42-554f6f581d30.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/complex.logol.6a40ea43-ea63-418b-8f42-554f6f581d30.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complex.logol.6a40ea43-ea63-418b-8f42-554f6f581d30.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variablewithdistance2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewithdistance2.logol.0a239750-af81-4186-8981-948fb6a9c432.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 0 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variablewithdistance2.logol.0a239750-af81-4186-8981-948fb6a9c432.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance2.logol.0a239750-af81-4186-8981-948fb6a9c432.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variable_postcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_postcontent.logol.11d9d45f-15b1-4e19-b7b2-ac71783d93be.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variable_postcontent.logol.11d9d45f-15b1-4e19-b7b2-ac71783d93be.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent.logol.11d9d45f-15b1-4e19-b7b2-ac71783d93be.0-41-all.xml [junit] cgttttgggg [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/multiple_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/multiple_model.logol.b6805df6-46b3-4d78-97da-0c13d731aaac.1-41.xml: 3 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 3 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/multiple_model.logol.b6805df6-46b3-4d78-97da-0c13d731aaac.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/multiple_model.logol.b6805df6-46b3-4d78-97da-0c13d731aaac.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.272b7e47-39b1-4d7e-b6d7-9d3bb3bbd355.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variable.logol.272b7e47-39b1-4d7e-b6d7-9d3bb3bbd355.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.272b7e47-39b1-4d7e-b6d7-9d3bb3bbd355.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.272b7e47-39b1-4d7e-b6d7-9d3bb3bbd355.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/reproducible-path/logol-1.7.9+dfsg/test/begin.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR10)==>"aaaa",.*,LOGOLVAR11%X1%:{@[10,12],#[2,8]} [junit] mod1(LOGOLVAR12)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/begin.lgd.86f44f52-21da-49ca-98df-a034d25e3602.logol [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/begin.lgd.86f44f52-21da-49ca-98df-a034d25e3602.1-41.xml: 10 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 10 [junit] WARN org.irisa.genouest.logol.Logol - Max number of match reached, other matches may be avaible. [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/begin.lgd.86f44f52-21da-49ca-98df-a034d25e3602.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.lgd.86f44f52-21da-49ca-98df-a034d25e3602.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.0f3fbcd6-41fc-467a-b91b-b6ada9bb5e03.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.0f3fbcd6-41fc-467a-b91b-b6ada9bb5e03.reverse.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/variable.logol.0f3fbcd6-41fc-467a-b91b-b6ada9bb5e03.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.0f3fbcd6-41fc-467a-b91b-b6ada9bb5e03.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/mycost.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/mycost.logol.6db706cf-3668-4f20-a76e-49da3fd54d6e.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/mycost.logol.6db706cf-3668-4f20-a76e-49da3fd54d6e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/mycost.logol.6db706cf-3668-4f20-a76e-49da3fd54d6e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/reproducible-path/logol-1.7.9+dfsg/test/morphism.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR12)==>"aaa",+"wc" "tgca" [junit] mod1(LOGOLVAR13)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/morphism.lgd.719c3a55-e927-4d48-843b-3ff340304115.logol [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/morphism.lgd.719c3a55-e927-4d48-843b-3ff340304115.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/morphism.lgd.719c3a55-e927-4d48-843b-3ff340304115.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.lgd.719c3a55-e927-4d48-843b-3ff340304115.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/repeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat.logol.14262de1-13d8-4df0-8c4f-bb1ba12b8d52.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/repeat.logol.14262de1-13d8-4df0-8c4f-bb1ba12b8d52.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat.logol.14262de1-13d8-4df0-8c4f-bb1ba12b8d52.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/parent_witherror2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_witherror2.logol.a39c910e-10f1-4b7f-b6a0-da3dbe664c59.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/parent_witherror2.logol.a39c910e-10f1-4b7f-b6a0-da3dbe664c59.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror2.logol.a39c910e-10f1-4b7f-b6a0-da3dbe664c59.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/external2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/external2.logol.a177fb04-9093-4e40-a128-9514da4f719e.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/external2.logol.a177fb04-9093-4e40-a128-9514da4f719e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external2.logol.a177fb04-9093-4e40-a128-9514da4f719e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/repeat_interspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_interspacer.logol.e8ed20e7-c3a6-4966-bf8c-0dcd0c6eb311.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/repeat_interspacer.logol.e8ed20e7-c3a6-4966-bf8c-0dcd0c6eb311.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_interspacer.logol.e8ed20e7-c3a6-4966-bf8c-0dcd0c6eb311.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/notview.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/notview.logol.8c9c4aff-bbd0-4d19-9323-d4a4a9e1ceda.1-41.xml: 2 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 2 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/notview.logol.8c9c4aff-bbd0-4d19-9323-d4a4a9e1ceda.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notview.logol.8c9c4aff-bbd0-4d19-9323-d4a4a9e1ceda.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/repeat_anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_anyspacer.logol.c9f76310-11eb-4856-b2ed-4dc57dda4693.1-41.xml: 4 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 4 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/repeat_anyspacer.logol.c9f76310-11eb-4856-b2ed-4dc57dda4693.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_anyspacer.logol.c9f76310-11eb-4856-b2ed-4dc57dda4693.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/notrepeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/notrepeat.logol.369efd9b-3f05-431b-b724-38ad3e91b5e8.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 1 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/notrepeat.logol.369efd9b-3f05-431b-b724-38ad3e91b5e8.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notrepeat.logol.369efd9b-3f05-431b-b724-38ad3e91b5e8.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/reproducible-path/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/reproducible-path/logol-1.7.9+dfsg/test/or_condition.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/reproducible-path/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/or_condition.logol.ed82ad1c-625f-4d5e-9f2e-8b4157be19c4.1-41.xml: 3 [junit] INFO org.irisa.genouest.logol.Logol - Number of output match: 3 [junit] INFO org.irisa.genouest.logol.Logol - JOB OVER !!! [junit] INFO org.irisa.genouest.logol.Logol - RESULT FILES ARE AVAILABLE: [junit] INFO org.irisa.genouest.logol.Logol - - ./test/tmp/or_condition.logol.ed82ad1c-625f-4d5e-9f2e-8b4157be19c4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition.logol.ed82ad1c-625f-4d5e-9f2e-8b4157be19c4.0-41-all.xml [junit] ------------- ---------------- --------------- [junit] ------------- Standard Error ----------------- [junit] log4j:ERROR setFile(null,true) call failed. [junit] java.io.FileNotFoundException: /var/log/logol/logol.log (No such file or directory) [junit] at java.base/java.io.FileOutputStream.open0(Native Method) [junit] at java.base/java.io.FileOutputStream.open(FileOutputStream.java:293) [junit] at java.base/java.io.FileOutputStream.(FileOutputStream.java:235) [junit] at java.base/java.io.FileOutputStream.(FileOutputStream.java:155) [junit] at org.apache.log4j.FileAppender.setFile(FileAppender.java:294) [junit] at org.apache.log4j.FileAppender.activateOptions(FileAppender.java:165) [junit] at org.apache.log4j.config.PropertySetter.activate(PropertySetter.java:307) [junit] at org.apache.log4j.config.PropertySetter.setProperties(PropertySetter.java:172) [junit] at org.apache.log4j.config.PropertySetter.setProperties(PropertySetter.java:104) [junit] at org.apache.log4j.PropertyConfigurator.parseAppender(PropertyConfigurator.java:842) [junit] at org.apache.log4j.PropertyConfigurator.parseCategory(PropertyConfigurator.java:768) [junit] at org.apache.log4j.PropertyConfigurator.parseCatsAndRenderers(PropertyConfigurator.java:672) [junit] at org.apache.log4j.PropertyConfigurator.doConfigure(PropertyConfigurator.java:516) [junit] at org.apache.log4j.PropertyConfigurator.doConfigure(PropertyConfigurator.java:580) [junit] at org.apache.log4j.helpers.OptionConverter.selectAndConfigure(OptionConverter.java:526) [junit] at org.apache.log4j.LogManager.(LogManager.java:127) [junit] at org.apache.log4j.Logger.getLogger(Logger.java:117) [junit] at org.irisa.genouest.logol.test.GrammarTest.(Unknown Source) [junit] at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) [junit] at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:77) [junit] at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [junit] at java.base/java.lang.reflect.Constructor.newInstanceWithCaller(Constructor.java:499) [junit] at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:480) [junit] at org.junit.runners.BlockJUnit4ClassRunner.createTest(BlockJUnit4ClassRunner.java:250) [junit] at org.junit.runners.BlockJUnit4ClassRunner.createTest(BlockJUnit4ClassRunner.java:260) [junit] at org.junit.runners.BlockJUnit4ClassRunner$2.runReflectiveCall(BlockJUnit4ClassRunner.java:309) [junit] at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) [junit] at org.junit.runners.BlockJUnit4ClassRunner.methodBlock(BlockJUnit4ClassRunner.java:311) [junit] at org.junit.runners.BlockJUnit4ClassRunner$1.evaluate(BlockJUnit4ClassRunner.java:100) [junit] at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:366) [junit] at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:103) [junit] at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:63) [junit] at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331) [junit] at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79) [junit] at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329) [junit] at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66) [junit] at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293) [junit] at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) [junit] at org.junit.runners.ParentRunner.run(ParentRunner.java:413) [junit] at junit.framework.JUnit4TestAdapter.run(JUnit4TestAdapter.java:50) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.run(JUnitTestRunner.java:535) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.launch(JUnitTestRunner.java:1197) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.main(JUnitTestRunner.java:1042) [junit] line 4:0 missing NEWLINE at 'mod2' [junit] line 4:0 missing NEWLINE at 'mod2' [junit] line 4:0 missing NEWLINE at 'mod2' [junit] ------------- ---------------- --------------- [junit] Testcase: testAmbiguous(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is [junit] Testcase: testVMatch2(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is [junit] Testcase: testVMatch3(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is [junit] Testcase: testVMatch(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is BUILD SUCCESSFUL Total time: 32 seconds mkdir -p test/tmp test/results ant -f build.xml doc Buildfile: /build/reproducible-path/logol-1.7.9+dfsg/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. doc: [exec] This is pdfTeX, Version 3.141592653-2.6-1.40.24 (TeX Live 2022/Debian) (preloaded format=pdflatex) [exec] restricted \write18 enabled. [exec] entering extended mode [exec] (./logol.tex [exec] LaTeX2e <2022-11-01> patch level 1 [exec] L3 programming layer <2023-01-16> [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls [exec] Document Class: article 2022/07/02 v1.4n Standard LaTeX document class [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/size11.clo)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) [exec] (/usr/share/texmf/tex/latex/swi-prolog/pldoc.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifpdf.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/kvsetkeys/kvsetkeys.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty))) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) [exec] (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) [exec] (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty))) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) [exec] (/usr/share/texlive/texmf-dist/tex/latex/a4wide/a4wide.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/ntgclass/a4.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/dcolumn.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/calc.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/mathcolor.ltx)) [exec] ! Illegal parameter number in definition of \tags. [exec] [exec] 1 [exec] l.515 {\end{description}\end{quote}} [exec] [exec] ? [exec] ! Emergency stop. [exec] [exec] 1 [exec] l.515 {\end{description}\end{quote}} [exec] [exec] ! ==> Fatal error occurred, no output PDF file produced! [exec] Transcript written on logol.log. [exec] mv: cannot stat 'logol.pdf': No such file or directory [exec] Result: 1 BUILD SUCCESSFUL Total time: 2 seconds rm -f prolog/process.so chrpath -d prolog/logol.exe chrpath -d prolog/preanalyse.exe make[1]: Leaving directory '/build/reproducible-path/logol-1.7.9+dfsg' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs dh_auto_install debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/logol-1.7.9+dfsg' dh_install rm -f debian/logol/usr/share/logol/prolog/*.c rm -f debian/logol/usr/share/logol/prolog/*.exe rm -f debian/logol/usr/share/logol/prolog/logol.properties rm -f debian/logol/usr/share/logol/tools/*.keep_old_script if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/*.sh; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/*.sh; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/*.rb; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/mycostfunction; fi if [ ! -e debian/logol-bin/usr/share/logol/prolog ]; then mkdir -p debian/logol-bin/usr/share/logol/prolog; fi ln -s /usr/lib/swi-prolog/lib/aarch64-linux/process.so debian/logol-bin/usr/share/logol/prolog/process.so make[1]: Leaving directory '/build/reproducible-path/logol-1.7.9+dfsg' dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/logol-1.7.9+dfsg' rm -f test/tmp/* rm -f test/results/* dh_installexamples make[1]: Leaving directory '/build/reproducible-path/logol-1.7.9+dfsg' dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz dwz: debian/logol-bin/usr/lib/logol/logol.exe: .debug_info section not present dwz: debian/logol-bin/usr/lib/logol/preanalyse.exe: .debug_info section not present dwz: Too few files for multifile optimization dh_dwz: warning: No dwz multifile created, but not explicitly requested either so ignoring it. dh_dwz: warning: Common issues include no debug information at all (missing -g) and dh_dwz: warning: compressed debug information (#931891). debian/rules override_dh_strip make[1]: Entering directory '/build/reproducible-path/logol-1.7.9+dfsg' dh_strip -Xlogol.exe -Xpreanalyse.exe make[1]: Leaving directory '/build/reproducible-path/logol-1.7.9+dfsg' dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package logol: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'logol-bin' in '../logol-bin_1.7.9+dfsg-6_arm64.deb'. dpkg-deb: building package 'logol' in '../logol_1.7.9+dfsg-6_all.deb'. dpkg-genbuildinfo --build=binary -O../logol_1.7.9+dfsg-6_arm64.buildinfo dpkg-genchanges --build=binary -O../logol_1.7.9+dfsg-6_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/1863926 and its subdirectories I: Current time: Sat Feb 8 15:59:55 -12 2025 I: pbuilder-time-stamp: 1739073595 Sun Jan 7 21:36:57 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink02-arm64.debian.net. Sun Jan 7 21:36:57 UTC 2024 I: Preparing to do remote build '2' on codethink02-arm64.debian.net. Sun Jan 7 21:39:47 UTC 2024 I: Deleting $TMPDIR on codethink02-arm64.debian.net. Sun Jan 7 21:39:47 UTC 2024 I: logol_1.7.9+dfsg-6_arm64.changes: Format: 1.8 Date: Wed, 14 Dec 2022 08:24:54 +0000 Source: logol Binary: logol logol-bin Architecture: arm64 all Version: 1.7.9+dfsg-6 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Olivier Sallou Description: logol - Pattern matching tool using Logol language logol-bin - Pattern matching tool using Logol language Closes: 1026056 Changes: logol (1.7.9+dfsg-6) unstable; urgency=medium . * d/tests: update tests to allow non-root testing and set DEBUG mode to ease failure analysis * rebuild against new swi-prolog (Closes: #1026056) Checksums-Sha1: c5f3db26f2cf7a206e8c4f18ed7f9a953ce415e6 362728 logol-bin_1.7.9+dfsg-6_arm64.deb 355edcf10d15831c1266067b3e48b69bc0244f23 1534936 logol_1.7.9+dfsg-6_all.deb 25949d37c6716d92e23cd119e06636cabc283ecc 11972 logol_1.7.9+dfsg-6_arm64.buildinfo Checksums-Sha256: 08bb4f2ca8dafd29f977cbf721f9bf2d03816ca36e9cb67341973b01e0a1093d 362728 logol-bin_1.7.9+dfsg-6_arm64.deb 60c914cbe16d10a9125398a1cbce19055dd09b992b6d6833ece7901691fdc156 1534936 logol_1.7.9+dfsg-6_all.deb 28ecf6e70b9dcc63d9052a766aaa376228db1741f0519a9b381fb2bdf4f879c7 11972 logol_1.7.9+dfsg-6_arm64.buildinfo Files: db0994811e4bfa8c984e7a19ec79d378 362728 science optional logol-bin_1.7.9+dfsg-6_arm64.deb ea8c59b822cd3b72a6f9565575c39937 1534936 science optional logol_1.7.9+dfsg-6_all.deb ae36dfe917308319a3e2f6fc76dccdf2 11972 science optional logol_1.7.9+dfsg-6_arm64.buildinfo Sun Jan 7 21:39:48 UTC 2024 I: diffoscope 240 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.0gChGQiu/logol_1.7.9+dfsg-6.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.0gChGQiu/logol_1.7.9+dfsg-6.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.0gChGQiu/logol_1.7.9+dfsg-6.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.0gChGQiu/b1/logol_1.7.9+dfsg-6_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.0gChGQiu/b2/logol_1.7.9+dfsg-6_arm64.changes ## close_archive (total time: 0.000s) 0.000s 10 calls diffoscope.comparators.xz.XzContainer 0.000s 8 calls diffoscope.comparators.tar.TarContainer 0.000s 2 calls diffoscope.comparators.deb.DebContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer ## command (total time: 1.207s) 0.671s 110 calls diff 0.184s 914 calls readelf 0.163s 12 calls xz 0.142s 176 calls objdump 0.020s 4 calls objcopy 0.015s 22 calls strings 0.005s 1 call cmp 0.005s 1 call cmp (external) 0.003s 38 calls cmp (internal) ## compare_files (cumulative) (total time: 13.422s) 2.704s 1 call abc.DotChangesFile 2.684s 2 calls abc.DebFile 2.611s 4 calls abc.XzFile 2.352s 2 calls abc.DebDataTarFile 1.867s 2 calls abc.ElfFile 0.683s 8 calls diffoscope.comparators.elf.ElfCodeSection 0.354s 28 calls diffoscope.comparators.elf.ElfSection 0.083s 2 calls abc.TarFile 0.042s 1 call abc.TextFile 0.023s 2 calls diffoscope.comparators.elf.ElfStringSection 0.018s 2 calls abc.Md5sumsFile ## container_extract (total time: 0.277s) 0.163s 12 calls diffoscope.comparators.xz.XzContainer 0.085s 292 calls diffoscope.comparators.deb.DebTarContainer 0.019s 16 calls diffoscope.comparators.deb.DebContainer 0.010s 14 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 0.017s) 0.017s 9 calls linediff ## has_same_content_as (total time: 0.011s) 0.005s 2 calls abc.DebDataTarFile 0.002s 18 calls diffoscope.comparators.utils.libarchive.LibarchiveSymlink 0.001s 7 calls abc.TextFile 0.001s 4 calls abc.XzFile 0.001s 4 calls abc.Md5sumsFile 0.000s 2 calls abc.DebFile 0.000s 28 calls diffoscope.comparators.elf.ElfSection 0.000s 2 calls abc.TarFile 0.000s 1 call abc.DotChangesFile 0.000s 2 calls abc.ElfFile 0.000s 8 calls diffoscope.comparators.elf.ElfCodeSection 0.000s 2 calls diffoscope.comparators.elf.ElfStringSection ## main (total time: 3.263s) 3.246s 2 calls outputs 0.017s 1 call cleanup ## open_archive (total time: 0.000s) 0.000s 12 calls diffoscope.comparators.xz.XzContainer 0.000s 8 calls diffoscope.comparators.tar.TarContainer 0.000s 4 calls diffoscope.comparators.deb.DebTarContainer 0.000s 4 calls diffoscope.comparators.deb.DebContainer ## output (total time: 0.130s) 0.128s 1 call html 0.001s 1 call text 0.001s 1 call json ## recognizes (total time: 0.292s) 0.121s 1248 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.066s 616 calls diffoscope.comparators.elf.ElfSection 0.042s 12 calls diffoscope.comparators.binary.FilesystemFile 0.033s 512 calls diffoscope.comparators.utils.archive.ArchiveMember 0.017s 176 calls diffoscope.comparators.elf.ElfCodeSection 0.008s 108 calls diffoscope.comparators.debian.DebControlMember 0.005s 44 calls diffoscope.comparators.elf.ElfStringSection 0.001s 72 calls diffoscope.comparators.utils.libarchive.LibarchiveSymlink 0.000s 32 calls abc.Md5sumsFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.225s) 0.225s 80 calls specialize Sun Jan 7 21:39:52 UTC 2024 E: logol failed to build reproducibly in bookworm on arm64. Sun Jan 7 21:39:52 UTC 2024 E: diffoscope 240 found issues, please check https://tests.reproducible-builds.org/debian/dbd/bookworm/arm64/logol_1.7.9+dfsg-6.diffoscope.html Sun Jan 7 21:39:54 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Jan 7 21:39:54 UTC 2024 I: Submitting 16K b1/logol_1.7.9+dfsg-6_arm64.buildinfo.asc Sun Jan 7 21:39:54 UTC 2024 I: Submitting 16K b2/logol_1.7.9+dfsg-6_arm64.buildinfo.asc Sun Jan 7 21:39:55 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Jan 7 21:39:55 UTC 2024 I: Done submitting .buildinfo files. Sun Jan 7 21:39:55 UTC 2024 I: Removing signed logol_1.7.9+dfsg-6_arm64.buildinfo.asc files: removed './b1/logol_1.7.9+dfsg-6_arm64.buildinfo.asc' removed './b2/logol_1.7.9+dfsg-6_arm64.buildinfo.asc'