I: pbuilder: network access will be disabled during build I: Current time: Tue Feb 11 11:28:53 -12 2025 I: pbuilder-time-stamp: 1739316533 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/7095/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='893fb7a5e3774549a2f54e8bd5eccb4c' 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='7095' 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.52iNWs5B/pbuilderrc_rJlx --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.52iNWs5B/b1 --logfile b1/build.log logol_1.7.9+dfsg-6.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos5-amd64 6.5.0-0.deb12.4-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.5.10-1~bpo12+1 (2023-11-23) x86_64 GNU/Linux I: ls -l /bin total 5632 -rwxr-xr-x 1 root root 1265648 Apr 23 2023 bash -rwxr-xr-x 3 root root 39224 Sep 19 2022 bunzip2 -rwxr-xr-x 3 root root 39224 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 39224 Sep 19 2022 bzip2 -rwxr-xr-x 1 root root 14568 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 44016 Sep 20 2022 cat -rwxr-xr-x 1 root root 68656 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 64496 Sep 20 2022 chmod -rwxr-xr-x 1 root root 72752 Sep 20 2022 chown -rwxr-xr-x 1 root root 151152 Sep 20 2022 cp -rwxr-xr-x 1 root root 125640 Jan 5 2023 dash -rwxr-xr-x 1 root root 121904 Sep 20 2022 date -rwxr-xr-x 1 root root 89240 Sep 20 2022 dd -rwxr-xr-x 1 root root 102200 Sep 20 2022 df -rwxr-xr-x 1 root root 151344 Sep 20 2022 dir -rwxr-xr-x 1 root root 88656 Mar 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 43856 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 2023 egrep -rwxr-xr-x 1 root root 35664 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 2023 fgrep -rwxr-xr-x 1 root root 85600 Mar 23 2023 findmnt -rwsr-xr-x 1 root root 35128 Mar 23 2023 fusermount -rwxr-xr-x 1 root root 203152 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 98136 Apr 10 2022 gzip -rwxr-xr-x 1 root root 22680 Dec 19 2022 hostname -rwxr-xr-x 1 root root 72824 Sep 20 2022 ln -rwxr-xr-x 1 root root 53024 Mar 23 2023 login -rwxr-xr-x 1 root root 151344 Sep 20 2022 ls -rwxr-xr-x 1 root root 207168 Mar 23 2023 lsblk -rwxr-xr-x 1 root root 97552 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 72912 Sep 20 2022 mknod -rwxr-xr-x 1 root root 43952 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 59712 Mar 23 2023 more -rwsr-xr-x 1 root root 59704 Mar 23 2023 mount -rwxr-xr-x 1 root root 18744 Mar 23 2023 mountpoint -rwxr-xr-x 1 root root 142968 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 43952 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 2023 rbash -> bash -rwxr-xr-x 1 root root 52112 Sep 20 2022 readlink -rwxr-xr-x 1 root root 72752 Sep 20 2022 rm -rwxr-xr-x 1 root root 56240 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 27560 Jul 28 2023 run-parts -rwxr-xr-x 1 root root 126424 Jan 5 2023 sed lrwxrwxrwx 1 root root 4 Jan 5 2023 sh -> dash -rwxr-xr-x 1 root root 43888 Sep 20 2022 sleep -rwxr-xr-x 1 root root 85008 Sep 20 2022 stty -rwsr-xr-x 1 root root 72000 Mar 23 2023 su -rwxr-xr-x 1 root root 39824 Sep 20 2022 sync -rwxr-xr-x 1 root root 531984 Apr 6 2023 tar -rwxr-xr-x 1 root root 14520 Jul 28 2023 tempfile -rwxr-xr-x 1 root root 109616 Sep 20 2022 touch -rwxr-xr-x 1 root root 35664 Sep 20 2022 true -rwxr-xr-x 1 root root 14568 Mar 23 2023 ulockmgr_server -rwsr-xr-x 1 root root 35128 Mar 23 2023 umount -rwxr-xr-x 1 root root 43888 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress -rwxr-xr-x 1 root root 151344 Sep 20 2022 vdir -rwxr-xr-x 1 root root 72024 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/7095/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 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 ... 18148 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-intel1{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} libpciaccess0{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} libtexluajit2{a} libthai-data{a} libthai0{a} libtiff6{a} libtool{a} libuchardet0{a} libunwind8{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, 244 newly installed, 0 to remove and 0 not upgraded. Need to get 366 MB of archives. After unpacking 1133 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get: 2 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get: 3 http://deb.debian.org/debian bookworm/main amd64 libsigsegv2 amd64 2.14-1 [37.2 kB] Get: 4 http://deb.debian.org/debian bookworm/main amd64 gawk amd64 1:5.2.1-2 [673 kB] Get: 5 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get: 6 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get: 7 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get: 8 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get: 9 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get: 10 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get: 11 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get: 12 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get: 13 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get: 14 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 15 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.11-1~deb12u2 [1419 kB] Get: 16 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get: 17 http://deb.debian.org/debian bookworm/main amd64 libmagic-mgc amd64 1:5.44-3 [305 kB] Get: 18 http://deb.debian.org/debian bookworm/main amd64 libmagic1 amd64 1:5.44-3 [104 kB] Get: 19 http://deb.debian.org/debian bookworm/main amd64 file amd64 1:5.44-3 [42.5 kB] Get: 20 http://deb.debian.org/debian bookworm/main amd64 gettext-base amd64 0.21-12 [160 kB] Get: 21 http://deb.debian.org/debian bookworm/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 22 http://deb.debian.org/debian bookworm/main amd64 groff-base amd64 1.22.4-10 [916 kB] Get: 23 http://deb.debian.org/debian bookworm/main amd64 bsdextrautils amd64 2.38.1-5+b1 [86.6 kB] Get: 24 http://deb.debian.org/debian bookworm/main amd64 libpipeline1 amd64 1.5.7-1 [38.5 kB] Get: 25 http://deb.debian.org/debian bookworm/main amd64 man-db amd64 2.11.2-2 [1386 kB] Get: 26 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get: 27 http://deb.debian.org/debian bookworm/main amd64 hicolor-icon-theme all 0.17-2 [11.4 kB] Get: 28 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf2.0-common all 2.42.10+dfsg-1 [306 kB] Get: 29 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2 [1398 kB] Get: 30 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get: 31 http://deb.debian.org/debian bookworm/main amd64 libxml2 amd64 2.9.14+dfsg-1.3~deb12u1 [687 kB] Get: 32 http://deb.debian.org/debian bookworm/main amd64 shared-mime-info amd64 2.2-1 [729 kB] Get: 33 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get: 34 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get: 35 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get: 36 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get: 37 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get: 38 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get: 39 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get: 40 http://deb.debian.org/debian bookworm/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.10+dfsg-1+b1 [139 kB] Get: 41 http://deb.debian.org/debian bookworm/main amd64 gtk-update-icon-cache amd64 3.24.38-2~deb12u1 [44.0 kB] Get: 42 http://deb.debian.org/debian bookworm/main amd64 adwaita-icon-theme all 43-1 [5124 kB] Get: 43 http://deb.debian.org/debian bookworm/main amd64 ca-certificates-java all 20230710~deb12u1 [11.9 kB] Get: 44 http://deb.debian.org/debian bookworm/main amd64 java-common all 0.74 [6388 B] Get: 45 http://deb.debian.org/debian bookworm/main amd64 libavahi-common-data amd64 0.8-10 [107 kB] Get: 46 http://deb.debian.org/debian bookworm/main amd64 libavahi-common3 amd64 0.8-10 [41.6 kB] Get: 47 http://deb.debian.org/debian bookworm/main amd64 libdbus-1-3 amd64 1.14.10-1~deb12u1 [201 kB] Get: 48 http://deb.debian.org/debian bookworm/main amd64 libavahi-client3 amd64 0.8-10 [45.5 kB] Get: 49 http://deb.debian.org/debian bookworm/main amd64 libcups2 amd64 2.4.2-3+deb12u5 [245 kB] Get: 50 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get: 51 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get: 52 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5 [399 kB] Get: 53 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get: 54 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get: 55 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get: 56 http://deb.debian.org/debian bookworm/main amd64 libnspr4 amd64 2:4.35-1 [113 kB] Get: 57 http://deb.debian.org/debian bookworm/main amd64 libnss3 amd64 2:3.87.1-1 [1331 kB] Get: 58 http://deb.debian.org/debian bookworm/main amd64 libasound2-data all 1.2.8-1 [20.5 kB] Get: 59 http://deb.debian.org/debian bookworm/main amd64 libasound2 amd64 1.2.8-1+b1 [362 kB] Get: 60 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get: 61 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get: 62 http://deb.debian.org/debian bookworm/main amd64 libpcsclite1 amd64 1.9.9-2 [49.7 kB] Get: 63 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre-headless amd64 17.0.9+9-1~deb12u1 [43.7 MB] Get: 64 http://deb.debian.org/debian bookworm/main amd64 default-jre-headless amd64 2:1.17-74 [2936 B] Get: 65 http://deb.debian.org/debian bookworm/main amd64 ant all 1.10.13-1 [2161 kB] Get: 66 http://deb.debian.org/debian bookworm/main amd64 ant-optional all 1.10.13-1 [449 kB] Get: 67 http://deb.debian.org/debian bookworm/main amd64 libantlr3-runtime-java all 3.5.3-1 [165 kB] Get: 68 http://deb.debian.org/debian bookworm/main amd64 libstringtemplate4-java all 4.0.8-2.1 [241 kB] Get: 69 http://deb.debian.org/debian bookworm/main amd64 antlr3 all 3.5.3-1 [1151 kB] Get: 70 http://deb.debian.org/debian bookworm/main amd64 at-spi2-common all 2.46.0-5 [162 kB] Get: 71 http://deb.debian.org/debian bookworm/main amd64 m4 amd64 1.4.19-3 [287 kB] Get: 72 http://deb.debian.org/debian bookworm/main amd64 autoconf all 2.71-3 [332 kB] Get: 73 http://deb.debian.org/debian bookworm/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 74 http://deb.debian.org/debian bookworm/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 75 http://deb.debian.org/debian bookworm/main amd64 autopoint all 0.21-12 [495 kB] Get: 76 http://deb.debian.org/debian bookworm/main amd64 libboost-serialization1.74.0 amd64 1.74.0+ds1-21 [317 kB] Get: 77 http://deb.debian.org/debian bookworm/main amd64 libgflags2.2 amd64 2.2.2-2 [83.5 kB] Get: 78 http://deb.debian.org/debian bookworm/main amd64 libunwind8 amd64 1.6.2-3 [51.2 kB] Get: 79 http://deb.debian.org/debian bookworm/main amd64 libgoogle-glog0v6 amd64 0.6.0-2 [64.5 kB] Get: 80 http://deb.debian.org/debian bookworm/main amd64 libcassie1v5 amd64 1.0.9-3+b2 [40.7 kB] Get: 81 http://deb.debian.org/debian bookworm/main amd64 cassiopee amd64 1.0.9-3+b2 [18.2 kB] Get: 82 http://deb.debian.org/debian bookworm/main amd64 chrpath amd64 0.16-2+b1 [17.1 kB] Get: 83 http://deb.debian.org/debian bookworm/main amd64 libdebhelper-perl all 13.11.4 [81.2 kB] Get: 84 http://deb.debian.org/debian bookworm/main amd64 libtool all 2.4.7-5 [517 kB] Get: 85 http://deb.debian.org/debian bookworm/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 86 http://deb.debian.org/debian bookworm/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 87 http://deb.debian.org/debian bookworm/main amd64 libsub-override-perl all 0.09-4 [9304 B] Get: 88 http://deb.debian.org/debian bookworm/main amd64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 89 http://deb.debian.org/debian bookworm/main amd64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 90 http://deb.debian.org/debian bookworm/main amd64 libelf1 amd64 0.188-2.1 [174 kB] Get: 91 http://deb.debian.org/debian bookworm/main amd64 dwz amd64 0.15-1 [109 kB] Get: 92 http://deb.debian.org/debian bookworm/main amd64 gettext amd64 0.21-12 [1300 kB] Get: 93 http://deb.debian.org/debian bookworm/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 94 http://deb.debian.org/debian bookworm/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 95 http://deb.debian.org/debian bookworm/main amd64 debhelper all 13.11.4 [942 kB] Get: 96 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-common all 2.24.33-2 [2700 kB] Get: 97 http://deb.debian.org/debian bookworm/main amd64 libatk1.0-0 amd64 2.46.0-5 [49.6 kB] Get: 98 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get: 99 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get: 100 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get: 101 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 102 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get: 103 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get: 104 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB] Get: 105 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get: 106 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get: 107 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get: 108 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get: 109 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get: 110 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get: 111 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get: 112 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get: 113 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get: 114 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get: 115 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get: 116 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get: 117 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get: 118 http://deb.debian.org/debian bookworm/main amd64 libxcomposite1 amd64 1:0.4.5-1 [16.6 kB] Get: 119 http://deb.debian.org/debian bookworm/main amd64 libxfixes3 amd64 1:6.0.0-2 [22.7 kB] Get: 120 http://deb.debian.org/debian bookworm/main amd64 libxcursor1 amd64 1:1.2.1-1 [40.9 kB] Get: 121 http://deb.debian.org/debian bookworm/main amd64 libxdamage1 amd64 1:1.1.6-1 [15.1 kB] Get: 122 http://deb.debian.org/debian bookworm/main amd64 libxi6 amd64 2:1.8-1+b1 [84.2 kB] Get: 123 http://deb.debian.org/debian bookworm/main amd64 libxinerama1 amd64 2:1.1.4-3 [17.8 kB] Get: 124 http://deb.debian.org/debian bookworm/main amd64 libxrandr2 amd64 2:1.5.2-2+b1 [39.2 kB] Get: 125 http://deb.debian.org/debian bookworm/main amd64 libgtk2.0-0 amd64 2.24.33-2 [1855 kB] Get: 126 http://deb.debian.org/debian bookworm/main amd64 libglvnd0 amd64 1.6.0-1 [51.8 kB] Get: 127 http://deb.debian.org/debian bookworm/main amd64 libdrm-common all 2.4.114-1 [7112 B] Get: 128 http://deb.debian.org/debian bookworm/main amd64 libdrm2 amd64 2.4.114-1+b1 [37.5 kB] Get: 129 http://deb.debian.org/debian bookworm/main amd64 libglapi-mesa amd64 22.3.6-1+deb12u1 [35.7 kB] Get: 130 http://deb.debian.org/debian bookworm/main amd64 libx11-xcb1 amd64 2:1.8.4-2+deb12u2 [192 kB] Get: 131 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri2-0 amd64 1.15-1 [107 kB] Get: 132 http://deb.debian.org/debian bookworm/main amd64 libxcb-dri3-0 amd64 1.15-1 [107 kB] Get: 133 http://deb.debian.org/debian bookworm/main amd64 libxcb-glx0 amd64 1.15-1 [122 kB] Get: 134 http://deb.debian.org/debian bookworm/main amd64 libxcb-present0 amd64 1.15-1 [105 kB] Get: 135 http://deb.debian.org/debian bookworm/main amd64 libxcb-randr0 amd64 1.15-1 [117 kB] Get: 136 http://deb.debian.org/debian bookworm/main amd64 libxcb-sync1 amd64 1.15-1 [109 kB] Get: 137 http://deb.debian.org/debian bookworm/main amd64 libxcb-xfixes0 amd64 1.15-1 [109 kB] Get: 138 http://deb.debian.org/debian bookworm/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get: 139 http://deb.debian.org/debian bookworm/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get: 140 http://deb.debian.org/debian bookworm/main amd64 libdrm-amdgpu1 amd64 2.4.114-1+b1 [20.9 kB] Get: 141 http://deb.debian.org/debian bookworm/main amd64 libpciaccess0 amd64 0.17-2 [51.4 kB] Get: 142 http://deb.debian.org/debian bookworm/main amd64 libdrm-intel1 amd64 2.4.114-1+b1 [64.0 kB] Get: 143 http://deb.debian.org/debian bookworm/main amd64 libdrm-nouveau2 amd64 2.4.114-1+b1 [19.1 kB] Get: 144 http://deb.debian.org/debian bookworm/main amd64 libdrm-radeon1 amd64 2.4.114-1+b1 [21.8 kB] Get: 145 http://deb.debian.org/debian bookworm/main amd64 libedit2 amd64 3.1-20221030-2 [93.0 kB] Get: 146 http://deb.debian.org/debian bookworm/main amd64 libz3-4 amd64 4.8.12-3.1 [7216 kB] Get: 147 http://deb.debian.org/debian bookworm/main amd64 libllvm15 amd64 1:15.0.6-4+b1 [23.1 MB] Get: 148 http://deb.debian.org/debian bookworm/main amd64 libsensors-config all 1:3.6.0-7.1 [14.3 kB] Get: 149 http://deb.debian.org/debian bookworm/main amd64 libsensors5 amd64 1:3.6.0-7.1 [34.2 kB] Get: 150 http://deb.debian.org/debian bookworm/main amd64 libgl1-mesa-dri amd64 22.3.6-1+deb12u1 [7239 kB] Get: 151 http://deb.debian.org/debian bookworm/main amd64 libglx-mesa0 amd64 22.3.6-1+deb12u1 [147 kB] Get: 152 http://deb.debian.org/debian bookworm/main amd64 libglx0 amd64 1.6.0-1 [34.4 kB] Get: 153 http://deb.debian.org/debian bookworm/main amd64 libgl1 amd64 1.6.0-1 [88.4 kB] Get: 154 http://deb.debian.org/debian bookworm/main amd64 libgif7 amd64 5.2.1-2.5 [46.9 kB] Get: 155 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get: 156 http://deb.debian.org/debian bookworm/main amd64 libxtst6 amd64 2:1.2.3-1.1 [28.0 kB] Get: 157 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jre amd64 17.0.9+9-1~deb12u1 [184 kB] Get: 158 http://deb.debian.org/debian bookworm/main amd64 default-jre amd64 2:1.17-74 [1056 B] Get: 159 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jdk-headless amd64 17.0.9+9-1~deb12u1 [71.3 MB] Get: 160 http://deb.debian.org/debian bookworm/main amd64 default-jdk-headless amd64 2:1.17-74 [1108 B] Get: 161 http://deb.debian.org/debian bookworm/main amd64 openjdk-17-jdk amd64 17.0.9+9-1~deb12u1 [2777 kB] Get: 162 http://deb.debian.org/debian bookworm/main amd64 default-jdk amd64 2:1.17-74 [1068 B] Get: 163 http://deb.debian.org/debian bookworm/main amd64 fonts-lmodern all 2.005-1 [4540 kB] Get: 164 http://deb.debian.org/debian bookworm/main amd64 libhamcrest-java all 2.2-1 [121 kB] Get: 165 http://deb.debian.org/debian bookworm/main amd64 junit4 all 4.13.2-3 [348 kB] Get: 166 http://deb.debian.org/debian bookworm/main amd64 libactivation-java all 1.2.0-2 [84.7 kB] Get: 167 http://deb.debian.org/debian bookworm/main amd64 libapache-pom-java all 29-2 [5276 B] Get: 168 http://deb.debian.org/debian bookworm/main amd64 libarchive13 amd64 3.6.2-1 [343 kB] Get: 169 http://deb.debian.org/debian bookworm/main amd64 libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get: 170 http://deb.debian.org/debian bookworm/main amd64 libcommons-pool-java all 1.6-4 [109 kB] Get: 171 http://deb.debian.org/debian bookworm/main amd64 libcommons-dbcp-java all 1.4-8 [157 kB] Get: 172 http://deb.debian.org/debian bookworm/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 173 http://deb.debian.org/debian bookworm/main amd64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get: 174 http://deb.debian.org/debian bookworm/main amd64 libguava-java all 31.1-1 [2613 kB] Get: 175 http://deb.debian.org/debian bookworm/main amd64 libjgraph-java all 5.12.4.2+dfsg-7 [207 kB] Get: 176 http://deb.debian.org/debian bookworm/main amd64 libjgrapht0.8-java all 0.8.3-6 [214 kB] Get: 177 http://deb.debian.org/debian bookworm/main amd64 libbiojava1.9-java all 1:1.9.5+dfsg-3 [3154 kB] Get: 178 http://deb.debian.org/debian bookworm/main amd64 libbiojava-java all 1:1.9.5+dfsg-3 [5428 B] Get: 179 http://deb.debian.org/debian bookworm/main amd64 libcommons-cli-java all 1.5.0-1 [60.0 kB] Get: 180 http://deb.debian.org/debian bookworm/main amd64 libcommons-collections3-java all 3.2.2-2 [526 kB] Get: 181 http://deb.debian.org/debian bookworm/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get: 182 http://deb.debian.org/debian bookworm/main amd64 libcommons-lang-java all 2.6-10 [273 kB] Get: 183 http://deb.debian.org/debian bookworm/main amd64 libcommons-logging-java all 1.2-3 [62.4 kB] Get: 184 http://deb.debian.org/debian bookworm/main amd64 libcommons-configuration-java all 1.10-6 [347 kB] Get: 185 http://deb.debian.org/debian bookworm/main amd64 libfontbox-java all 1:1.8.16-2 [211 kB] Get: 186 http://deb.debian.org/debian bookworm/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB] Get: 187 http://deb.debian.org/debian bookworm/main amd64 libkpathsea6 amd64 2022.20220321.62855-5.1+deb12u1 [152 kB] Get: 188 http://deb.debian.org/debian bookworm/main amd64 liblog4j1.2-java all 1.2.17-11 [444 kB] Get: 189 http://deb.debian.org/debian bookworm/main amd64 libmail-java all 1.6.5-2 [701 kB] Get: 190 http://deb.debian.org/debian bookworm/main amd64 libncurses6 amd64 6.4-4 [103 kB] Get: 191 http://deb.debian.org/debian bookworm/main amd64 libossp-uuid16 amd64 1.6.2-1.5+b11 [37.1 kB] Get: 192 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get: 193 http://deb.debian.org/debian bookworm/main amd64 libpaper-utils amd64 1.1.29 [8868 B] Get: 194 http://deb.debian.org/debian bookworm/main amd64 libpdfbox-java all 1:1.8.16-2 [5205 kB] Get: 195 http://deb.debian.org/debian bookworm/main amd64 libptexenc1 amd64 2022.20220321.62855-5.1+deb12u1 [43.7 kB] Get: 196 http://deb.debian.org/debian bookworm/main amd64 rubygems-integration all 1.18 [6704 B] Get: 197 http://deb.debian.org/debian bookworm/main amd64 ruby3.1 amd64 3.1.2-7 [663 kB] Get: 198 http://deb.debian.org/debian bookworm/main amd64 ruby-rubygems all 3.3.15-2 [293 kB] Get: 199 http://deb.debian.org/debian bookworm/main amd64 ruby amd64 1:3.1 [5868 B] Get: 200 http://deb.debian.org/debian bookworm/main amd64 rake all 13.0.6-3 [83.9 kB] Get: 201 http://deb.debian.org/debian bookworm/main amd64 ruby-net-telnet all 0.2.0-1 [13.1 kB] Get: 202 http://deb.debian.org/debian bookworm/main amd64 ruby-webrick all 1.8.1-1 [51.4 kB] Get: 203 http://deb.debian.org/debian bookworm/main amd64 ruby-xmlrpc all 0.3.2-2 [24.4 kB] Get: 204 http://deb.debian.org/debian bookworm/main amd64 ruby-sdbm amd64 1.0.0-5+b1 [15.4 kB] Get: 205 http://deb.debian.org/debian bookworm/main amd64 libyaml-0-2 amd64 0.2.5-1 [53.6 kB] Get: 206 http://deb.debian.org/debian bookworm/main amd64 libruby3.1 amd64 3.1.2-7 [5401 kB] Get: 207 http://deb.debian.org/debian bookworm/main amd64 libruby amd64 1:3.1 [4972 B] Get: 208 http://deb.debian.org/debian bookworm/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get: 209 http://deb.debian.org/debian bookworm/main amd64 libsynctex2 amd64 2022.20220321.62855-5.1+deb12u1 [59.8 kB] Get: 210 http://deb.debian.org/debian bookworm/main amd64 libtcmalloc-minimal4 amd64 2.10-1 [93.4 kB] Get: 211 http://deb.debian.org/debian bookworm/main amd64 libteckit0 amd64 2.5.11+ds1-1+b1 [335 kB] Get: 212 http://deb.debian.org/debian bookworm/main amd64 libtexlua53-5 amd64 2022.20220321.62855-5.1+deb12u1 [111 kB] Get: 213 http://deb.debian.org/debian bookworm/main amd64 libtexluajit2 amd64 2022.20220321.62855-5.1+deb12u1 [246 kB] Get: 214 http://deb.debian.org/debian bookworm/main amd64 libxml-commons-external-java all 1.4.01-5 [240 kB] Get: 215 http://deb.debian.org/debian bookworm/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 216 http://deb.debian.org/debian bookworm/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 217 http://deb.debian.org/debian bookworm/main amd64 libxalan2-java all 2.7.2-4 [3419 kB] Get: 218 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1.1 [186 kB] Get: 219 http://deb.debian.org/debian bookworm/main amd64 libxmu6 amd64 2:1.1.3-3 [60.1 kB] Get: 220 http://deb.debian.org/debian bookworm/main amd64 libxpm4 amd64 1:3.5.12-1.1+deb12u1 [48.6 kB] Get: 221 http://deb.debian.org/debian bookworm/main amd64 libxaw7 amd64 2:1.0.14-1 [201 kB] Get: 222 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get: 223 http://deb.debian.org/debian bookworm/main amd64 libzzip-0-13 amd64 0.13.72+dfsg.1-1.1 [58.3 kB] Get: 224 http://deb.debian.org/debian bookworm/main amd64 tex-common all 6.18 [32.5 kB] Get: 225 http://deb.debian.org/debian bookworm/main amd64 preview-latex-style all 12.2-1 [201 kB] Get: 226 http://deb.debian.org/debian bookworm/main amd64 ruby-text all 1.3.1-1 [13.4 kB] Get: 227 http://deb.debian.org/debian bookworm/main amd64 ruby-cassiopee all 0.1.13-1.1 [11.7 kB] Get: 228 http://deb.debian.org/debian bookworm/main amd64 swi-prolog-core amd64 9.0.4+dfsg-2 [1448 kB] Get: 229 http://deb.debian.org/debian bookworm/main amd64 swi-prolog-doc all 9.0.4+dfsg-2 [1557 kB] Get: 230 http://deb.debian.org/debian bookworm/main amd64 swi-prolog-core-packages amd64 9.0.4+dfsg-2 [1336 kB] Get: 231 http://deb.debian.org/debian bookworm/main amd64 swi-prolog-nox amd64 9.0.4+dfsg-2 [167 kB] Get: 232 http://deb.debian.org/debian bookworm/main amd64 swi-prolog-x amd64 9.0.4+dfsg-2 [2136 kB] Get: 233 http://deb.debian.org/debian bookworm/main amd64 swi-prolog amd64 9.0.4+dfsg-2 [12.9 kB] Get: 234 http://deb.debian.org/debian bookworm/main amd64 t1utils amd64 1.41-4 [62.1 kB] Get: 235 http://deb.debian.org/debian bookworm/main amd64 texlive-binaries amd64 2022.20220321.62855-5.1+deb12u1 [10.5 MB] Get: 236 http://deb.debian.org/debian bookworm/main amd64 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 237 http://deb.debian.org/debian bookworm/main amd64 texlive-base all 2022.20230122-3 [21.9 MB] Get: 238 http://deb.debian.org/debian bookworm/main amd64 texlive-fonts-recommended all 2022.20230122-3 [4988 kB] Get: 239 http://deb.debian.org/debian bookworm/main amd64 texlive-latex-base all 2022.20230122-3 [1182 kB] Get: 240 http://deb.debian.org/debian bookworm/main amd64 texlive-latex-recommended all 2022.20230122-3 [8880 kB] Get: 241 http://deb.debian.org/debian bookworm/main amd64 texlive all 2022.20230122-3 [18.2 kB] Get: 242 http://deb.debian.org/debian bookworm/main amd64 texlive-pictures all 2022.20230122-3 [15.8 MB] Get: 243 http://deb.debian.org/debian bookworm/main amd64 texlive-latex-extra all 2022.20230122-4 [19.2 MB] Get: 244 http://deb.debian.org/debian bookworm/main amd64 texlive-plain-generic all 2022.20230122-4 [28.9 MB] Fetched 366 MB in 5s (77.7 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 ... 18148 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:amd64. Preparing to unpack .../libreadline8_8.2-1.3_amd64.deb ... Unpacking libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../libsigsegv2_2.14-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.14-1) ... Setting up readline-common (8.2-1.3) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libsigsegv2:amd64 (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 ... 18181 files and directories currently installed.) Preparing to unpack .../gawk_1%3a5.2.1-2_amd64.deb ... Unpacking gawk (1:5.2.1-2) ... Selecting previously unselected package libpython3.11-minimal:amd64. Preparing to unpack .../libpython3.11-minimal_3.11.2-6_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.5.0-1_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.2-6_amd64.deb ... Unpacking python3.11-minimal (3.11.2-6) ... Setting up libpython3.11-minimal:amd64 (3.11.2-6) ... Setting up libexpat1:amd64 (2.5.0-1) ... Setting up python3.11-minimal (3.11.2-6) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18685 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.11.2-1+b1_amd64.deb ... Unpacking python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package libpython3.11-stdlib:amd64. Preparing to unpack .../libpython3.11-stdlib_3.11.2-6_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../python3.11_3.11.2-6_amd64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../libpython3-stdlib_3.11.2-1+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3-minimal (3.11.2-1+b1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19095 files and directories currently installed.) Preparing to unpack .../000-python3_3.11.2-1+b1_amd64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package 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_amd64.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_amd64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../005-libmagic1_1%3a5.44-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../006-file_1%3a5.44-3_amd64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../007-gettext-base_0.21-12_amd64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../008-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.22.4-10_amd64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../010-bsdextrautils_2.38.1-5+b1_amd64.deb ... Unpacking bsdextrautils (2.38.1-5+b1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../011-libpipeline1_1.5.7-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../012-man-db_2.11.2-2_amd64.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:amd64. Preparing to unpack .../016-libglib2.0-0_2.74.6-2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.74.6-2) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../017-libicu72_72.1-3_amd64.deb ... Unpacking libicu72:amd64 (72.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../018-libxml2_2.9.14+dfsg-1.3~deb12u1_amd64.deb ... Unpacking libxml2:amd64 (2.9.14+dfsg-1.3~deb12u1) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../019-shared-mime-info_2.2-1_amd64.deb ... Unpacking shared-mime-info (2.2-1) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../020-libjpeg62-turbo_1%3a2.1.5-2_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-2) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../021-libpng16-16_1.6.39-2_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.39-2) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../022-libdeflate0_1.14-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.14-1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../023-libjbig0_2.1-6.1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6.1) ... Selecting previously unselected package liblerc4:amd64. Preparing to unpack .../024-liblerc4_4.0.0+ds-2_amd64.deb ... Unpacking liblerc4:amd64 (4.0.0+ds-2) ... Selecting previously unselected package libwebp7:amd64. Preparing to unpack .../025-libwebp7_1.2.4-0.2+deb12u1_amd64.deb ... Unpacking libwebp7:amd64 (1.2.4-0.2+deb12u1) ... Selecting previously unselected package libtiff6:amd64. Preparing to unpack .../026-libtiff6_4.5.0-6+deb12u1_amd64.deb ... Unpacking libtiff6:amd64 (4.5.0-6+deb12u1) ... Selecting previously unselected package libgdk-pixbuf-2.0-0:amd64. Preparing to unpack .../027-libgdk-pixbuf-2.0-0_2.42.10+dfsg-1+b1_amd64.deb ... Unpacking libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+b1) ... Selecting previously unselected package gtk-update-icon-cache. Preparing to unpack .../028-gtk-update-icon-cache_3.24.38-2~deb12u1_amd64.deb ... Unpacking gtk-update-icon-cache (3.24.38-2~deb12u1) ... Selecting previously unselected package adwaita-icon-theme. Preparing to unpack .../029-adwaita-icon-theme_43-1_all.deb ... Unpacking adwaita-icon-theme (43-1) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../030-ca-certificates-java_20230710~deb12u1_all.deb ... Unpacking ca-certificates-java (20230710~deb12u1) ... Selecting previously unselected package java-common. Preparing to unpack .../031-java-common_0.74_all.deb ... Unpacking java-common (0.74) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../032-libavahi-common-data_0.8-10_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.8-10) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../033-libavahi-common3_0.8-10_amd64.deb ... Unpacking libavahi-common3:amd64 (0.8-10) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../034-libdbus-1-3_1.14.10-1~deb12u1_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../035-libavahi-client3_0.8-10_amd64.deb ... Unpacking libavahi-client3:amd64 (0.8-10) ... Selecting previously unselected package libcups2:amd64. Preparing to unpack .../036-libcups2_2.4.2-3+deb12u5_amd64.deb ... Unpacking libcups2:amd64 (2.4.2-3+deb12u5) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../037-liblcms2-2_2.14-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.14-2) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../038-libbrotli1_1.0.9-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b6) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../039-libfreetype6_2.12.1+dfsg-5_amd64.deb ... Unpacking libfreetype6:amd64 (2.12.1+dfsg-5) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../040-fonts-dejavu-core_2.37-6_all.deb ... Unpacking fonts-dejavu-core (2.37-6) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../041-fontconfig-config_2.14.1-4_amd64.deb ... Unpacking fontconfig-config (2.14.1-4) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../042-libfontconfig1_2.14.1-4_amd64.deb ... Unpacking libfontconfig1:amd64 (2.14.1-4) ... Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../043-libnspr4_2%3a4.35-1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.35-1) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../044-libnss3_2%3a3.87.1-1_amd64.deb ... Unpacking libnss3:amd64 (2:3.87.1-1) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../045-libasound2-data_1.2.8-1_all.deb ... Unpacking libasound2-data (1.2.8-1) ... Selecting previously unselected package libasound2:amd64. Preparing to unpack .../046-libasound2_1.2.8-1+b1_amd64.deb ... Unpacking libasound2:amd64 (1.2.8-1+b1) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../047-libgraphite2-3_1.3.14-1_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../048-libharfbuzz0b_6.0.0+dfsg-3_amd64.deb ... Unpacking libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../049-libpcsclite1_1.9.9-2_amd64.deb ... Unpacking libpcsclite1:amd64 (1.9.9-2) ... Selecting previously unselected package openjdk-17-jre-headless:amd64. Preparing to unpack .../050-openjdk-17-jre-headless_17.0.9+9-1~deb12u1_amd64.deb ... Unpacking openjdk-17-jre-headless:amd64 (17.0.9+9-1~deb12u1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../051-default-jre-headless_2%3a1.17-74_amd64.deb ... Unpacking default-jre-headless (2:1.17-74) ... Selecting previously unselected package ant. Preparing to unpack .../052-ant_1.10.13-1_all.deb ... Unpacking ant (1.10.13-1) ... Selecting previously unselected package ant-optional. Preparing to unpack .../053-ant-optional_1.10.13-1_all.deb ... Unpacking ant-optional (1.10.13-1) ... Selecting previously unselected package libantlr3-runtime-java. Preparing to unpack .../054-libantlr3-runtime-java_3.5.3-1_all.deb ... 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Setting up liblcms2-2:amd64 (2.14-2) ... Setting up libpixman-1-0:amd64 (0.42.2-1) ... Setting up libpciaccess0:amd64 (0.17-2) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libicu72:amd64 (72.1-3) ... Setting up liblerc4:amd64 (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:amd64 (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:amd64 (0.2.5-1) ... Setting up libglib2.0-0:amd64 (2.74.6-2) ... No schema files found: doing nothing. Setting up libglvnd0:amd64 (1.6.0-1) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up libtexluajit2:amd64 (2022.20220321.62855-5.1+deb12u1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:amd64 (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:amd64 (2.10-1) ... Setting up libmagic1:amd64 (1:5.44-3) ... Setting up libdeflate0:amd64 (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:amd64 (0.13.72+dfsg.1-1.1) ... Setting up file (1:5.44-3) ... Setting up libossp-uuid16:amd64 (1.6.2-1.5+b11) ... Setting up libunwind8:amd64 (1.6.2-3) ... Setting up libjbig0:amd64 (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:amd64 (4.8.12-3.1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up libx11-data (2:1.8.4-2+deb12u2) ... Setting up libnspr4:amd64 (2:4.35-1) ... Setting up libteckit0:amd64 (2.5.11+ds1-1+b1) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:amd64 (0.8-10) ... Setting up libncurses6:amd64 (6.4-4) ... Setting up libatinject-jsr330-api-java (1.0+ds1-5) ... Setting up libdbus-1-3:amd64 (1.14.10-1~deb12u1) ... Setting up ruby-net-telnet (0.2.0-1) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up t1utils (1.41-4) ... Setting up libtexlua53-5:amd64 (2022.20220321.62855-5.1+deb12u1) ... Setting up libpng16-16:amd64 (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:amd64 (1.9.9-2) ... Setting up libsensors5:amd64 (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:amd64 (22.3.6-1+deb12u1) ... Setting up libkpathsea6:amd64 (2022.20220321.62855-5.1+deb12u1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:amd64 (1.2.4-0.2+deb12u1) ... Setting up ruby-webrick (1.8.1-1) ... Setting up libboost-serialization1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libgif7:amd64 (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:amd64 (1.3-1) ... Setting up libmail-java (1.6.5-2) ... Setting up at-spi2-common (2.46.0-5) ... Setting up libtiff6:amd64 (4.5.0-6+deb12u1) ... Setting up swi-prolog-core-packages (9.0.4+dfsg-2) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libxml-commons-external-java (1.4.01-5) ... Setting up libasound2:amd64 (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:amd64 (2.46.0-5) ... Setting up libxerces2-java (2.12.2-1) ... Setting up openssl (3.0.11-1~deb12u2) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up libdrm-common (2.4.114-1) ... Setting up libelf1:amd64 (0.188-2.1) ... Setting up ruby-text (1.3.1-1) ... Setting up ruby-xmlrpc (0.3.2-2) ... Setting up libxml2:amd64 (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:amd64 (2022.20220321.62855-5.1+deb12u1) ... Setting up libpython3-stdlib:amd64 (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:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libxcb-xfixes0:amd64 (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:amd64 (3.6.2-1) ... Setting up libxcb-render0:amd64 (1.15-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libxcb-glx0:amd64 (1.15-1) ... Setting up libedit2:amd64 (3.1-20221030-2) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (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:amd64 (2:3.87.1-1) ... Setting up libxcb-shm0:amd64 (1.15-1) ... Setting up libcommons-lang-java (2.6-10) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libxcb-present0:amd64 (1.15-1) ... Setting up dh-autoreconf (20) ... Setting up libthai0:amd64 (0.1.29-1) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 140 added, 0 removed; done. Setting up libptexenc1:amd64 (2022.20220321.62855-5.1+deb12u1) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5) ... Setting up libxcb-sync1:amd64 (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:amd64 (1.15-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libdrm2:amd64 (2.4.114-1+b1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libxcb-randr0:amd64 (1.15-1) ... Setting up libllvm15:amd64 (1:15.0.6-4+b1) ... Setting up swi-prolog-nox (9.0.4+dfsg-2) ... Setting up libx11-6:amd64 (2:1.8.4-2+deb12u2) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.10+dfsg-1+b1) ... Setting up libfontconfig1:amd64 (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:amd64 (1:0.4.5-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libavahi-client3:amd64 (0.8-10) ... Setting up libdrm-amdgpu1:amd64 (2.4.114-1+b1) ... Setting up libxcb-dri3-0:amd64 (1.15-1) ... Setting up libpaper1:amd64 (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:amd64 (2:1.8.4-2+deb12u2) ... Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:amd64 (2.4.114-1+b1) ... Setting up libxdamage1:amd64 (1:1.1.6-1) ... Setting up libxpm4:amd64 (1:3.5.12-1.1+deb12u1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1) ... Setting up libdrm-radeon1:amd64 (2.4.114-1+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpango-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libdrm-intel1:amd64 (2.4.114-1+b1) ... Setting up libgl1-mesa-dri:amd64 (22.3.6-1+deb12u1) ... Setting up libxext6:amd64 (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:amd64 (1.16.0-7) ... Setting up libxxf86vm1:amd64 (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:amd64 (1:6.0.0-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3) ... Setting up libxrandr2:amd64 (2:1.5.2-2+b1) ... Setting up libxt6:amd64 (1:1.2.1-1.1) ... Setting up libcups2:amd64 (2.4.2-3+deb12u5) ... Setting up libpangoft2-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.50.12+ds-1) ... Setting up libxft2:amd64 (2.3.6-1) ... Setting up libxmu6:amd64 (2:1.1.3-3) ... Setting up libglx-mesa0:amd64 (22.3.6-1+deb12u1) ... Setting up libxi6:amd64 (2:1.8-1+b1) ... Setting up libglx0:amd64 (1.6.0-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1) ... Setting up preview-latex-style (12.2-1) ... Setting up libxcursor1:amd64 (1:1.2.1-1) ... Setting up debhelper (13.11.4) ... Setting up libxaw7:amd64 (2:1.0.14-1) ... Setting up libgl1:amd64 (1.6.0-1) ... Setting up openjdk-17-jre-headless:amd64 (17.0.9+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up 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:amd64 (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:amd64 (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:amd64 (1.0.0-5+b1) ... Setting up libruby3.1:amd64 (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:amd64 (17.0.9+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up 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:amd64 (17.0.9+9-1~deb12u1) ... Setting up default-jre (2:1.17-74) ... Setting up openjdk-17-jdk:amd64 (17.0.9+9-1~deb12u1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-amd64/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 amd64 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/x86_64-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="x86_64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/x86_64-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/x86_64-linux logolSwiMain.o -L/usr/lib/swi-prolog/lib/x86_64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-72463',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-72463 >> logol.exe [exec] chmod 755 logol.exe [exec] rm logolSwiMain.o [exec] rm pltmp-72463 [exec] % halt [exec] PLBASE="/usr/lib/swi-prolog" [exec] PLARCH="x86_64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/x86_64-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/x86_64-linux preSwiMain.o -L/usr/lib/swi-prolog/lib/x86_64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-72983',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-72983 >> preanalyse.exe [exec] chmod 755 preanalyse.exe [exec] rm preSwiMain.o [exec] rm pltmp-72983 [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] 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 [exec] [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: 39.909 sec [junit] Tests run: 78, Failures: 0, Errors: 0, Skipped: 4, Time elapsed: 39.909 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.561d58e5-bcbc-4740-9244-3b6a80e2fd5a.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.561d58e5-bcbc-4740-9244-3b6a80e2fd5a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.logol.561d58e5-bcbc-4740-9244-3b6a80e2fd5a.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.feb03564-c316-43cc-bb48-b9713eec8a4e.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.feb03564-c316-43cc-bb48-b9713eec8a4e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_overlap.logol.feb03564-c316-43cc-bb48-b9713eec8a4e.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.838ac6f5-824c-4611-9627-bbc913ca9045.1005-1035.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/partialcomplement.logol.838ac6f5-824c-4611-9627-bbc913ca9045.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.838ac6f5-824c-4611-9627-bbc913ca9045.5-35-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/partialcomplement.logol.838ac6f5-824c-4611-9627-bbc913ca9045.5-35-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.c85eba97-12bc-4fd3-9472-32b9c577189d.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.c85eba97-12bc-4fd3-9472-32b9c577189d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/alphabet.logol.c85eba97-12bc-4fd3-9472-32b9c577189d.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.5269b0c5-8676-4627-8265-93707526bed7.1-41.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.5269b0c5-8676-4627-8265-93707526bed7.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.logol.5269b0c5-8676-4627-8265-93707526bed7.0-41-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.19147fb4-7d99-4ee7-93e0-e43ebccb0645.1-41.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.19147fb4-7d99-4ee7-93e0-e43ebccb0645.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_startspacer.logol.19147fb4-7d99-4ee7-93e0-e43ebccb0645.0-41-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.c8b44dc5-2008-4203-bf8f-83c47ec55b47.1-41.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.c8b44dc5-2008-4203-bf8f-83c47ec55b47.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/overlap.logol.c8b44dc5-2008-4203-bf8f-83c47ec55b47.0-41-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.e3842132-2f07-4954-ace5-6e0dba6bf9da.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.e3842132-2f07-4954-ace5-6e0dba6bf9da.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end.logol.e3842132-2f07-4954-ace5-6e0dba6bf9da.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.06d6efcf-2f63-4308-bb6b-13fa6b430814.1-41.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.06d6efcf-2f63-4308-bb6b-13fa6b430814.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.logol.06d6efcf-2f63-4308-bb6b-13fa6b430814.0-41-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.57c01695-102f-4bc2-ab20-de230a92267b.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.57c01695-102f-4bc2-ab20-de230a92267b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.logol.57c01695-102f-4bc2-ab20-de230a92267b.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.2918564e-6b4a-456a-8f83-af2a14ae6ca3.1-4.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.2918564e-6b4a-456a-8f83-af2a14ae6ca3.0-4-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1799.logol.2918564e-6b4a-456a-8f83-af2a14ae6ca3.0-4-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.73f0ae11-7247-4d63-beff-d38586596fae.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.73f0ae11-7247-4d63-beff-d38586596fae.0-19-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1800.logol.73f0ae11-7247-4d63-beff-d38586596fae.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.34c116e4-38e2-460c-bc33-7fb27eea4f71.1-41.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.34c116e4-38e2-460c-bc33-7fb27eea4f71.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1806.logol.34c116e4-38e2-460c-bc33-7fb27eea4f71.0-41-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.ae3cf4ba-7f98-4e95-99ba-054d2b257723.1-31.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.ae3cf4ba-7f98-4e95-99ba-054d2b257723.0-31-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2244.logol.ae3cf4ba-7f98-4e95-99ba-054d2b257723.0-31-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.39e415c5-cef4-4ce5-8e7d-1b86e6f1413e.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.39e415c5-cef4-4ce5-8e7d-1b86e6f1413e.0-26-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2235.logol.39e415c5-cef4-4ce5-8e7d-1b86e6f1413e.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.904349fb-e60d-4b36-8a5e-5d28fbd67d16.1-29.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.904349fb-e60d-4b36-8a5e-5d28fbd67d16.0-29-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2242.logol.904349fb-e60d-4b36-8a5e-5d28fbd67d16.0-29-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.8c8030eb-d555-4cc2-a85c-f62267d05e4a.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.8c8030eb-d555-4cc2-a85c-f62267d05e4a.0-15-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2243.logol.8c8030eb-d555-4cc2-a85c-f62267d05e4a.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.d4bb9536-ff67-47da-9e7b-437dccf50d94.1-41.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.d4bb9536-ff67-47da-9e7b-437dccf50d94.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/fix2244.logol.d4bb9536-ff67-47da-9e7b-437dccf50d94.0-41-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.84efb659-097f-4749-a8b7-4e46a775df1a.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.84efb659-097f-4749-a8b7-4e46a775df1a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/halt.logol.84efb659-097f-4749-a8b7-4e46a775df1a.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.c2d54d90-7838-4001-9187-f38d374fc81f.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.c2d54d90-7838-4001-9187-f38d374fc81f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent2.logol.c2d54d90-7838-4001-9187-f38d374fc81f.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.d60aa6f3-fd1c-4dbe-99c0-036c83be454d.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.d60aa6f3-fd1c-4dbe-99c0-036c83be454d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent3.logol.d60aa6f3-fd1c-4dbe-99c0-036c83be454d.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.bb4a3160-d83b-49a1-a221-acda14e3edd5.1-41.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.bb4a3160-d83b-49a1-a221-acda14e3edd5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external.logol.bb4a3160-d83b-49a1-a221-acda14e3edd5.0-41-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.344d7d25-f183-4160-9fc3-b20d944293a3.1-41.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.344d7d25-f183-4160-9fc3-b20d944293a3.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream1.logol.344d7d25-f183-4160-9fc3-b20d944293a3.0-41-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.bbe834fc-730d-4bea-a80c-dcc7847857e2.1-41.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.bbe834fc-730d-4bea-a80c-dcc7847857e2.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream2.logol.bbe834fc-730d-4bea-a80c-dcc7847857e2.0-41-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.3f6a1411-1b12-4e71-91a6-a4c80eeee428.1-41.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.3f6a1411-1b12-4e71-91a6-a4c80eeee428.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/metacontrol.logol.3f6a1411-1b12-4e71-91a6-a4c80eeee428.0-41-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.347a6c88-eeaa-4ebb-a060-eb4b8f58db09.1-41.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.347a6c88-eeaa-4ebb-a060-eb4b8f58db09.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/view_begin.logol.347a6c88-eeaa-4ebb-a060-eb4b8f58db09.0-41-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.c5f4b71b-f59b-4af6-809a-eb11c963b83d.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.c5f4b71b-f59b-4af6-809a-eb11c963b83d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin_postpone.logol.c5f4b71b-f59b-4af6-809a-eb11c963b83d.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.fb051412-4d7d-4443-8c0e-60bbba7c0dac.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.fb051412-4d7d-4443-8c0e-60bbba7c0dac.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.fb051412-4d7d-4443-8c0e-60bbba7c0dac.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complement.logol.fb051412-4d7d-4443-8c0e-60bbba7c0dac.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.f8f3652a-057c-49d3-be1f-035c6da8aa99.1-23.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.f8f3652a-057c-49d3-be1f-035c6da8aa99.0-23-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/protein.logol.f8f3652a-057c-49d3-be1f-035c6da8aa99.0-23-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.173e7f45-14d4-4ec2-9f61-22656dbb9a1e.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.173e7f45-14d4-4ec2-9f61-22656dbb9a1e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism_var.logol.173e7f45-14d4-4ec2-9f61-22656dbb9a1e.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.e9293d71-f109-442e-914f-7a6066cf9421.1-41.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.e9293d71-f109-442e-914f-7a6066cf9421.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.e9293d71-f109-442e-914f-7a6066cf9421.0-41-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.85a10867-2a3c-4fb8-b7da-bdc5a046c802.1-41.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.85a10867-2a3c-4fb8-b7da-bdc5a046c802.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/cost_postpone.logol.85a10867-2a3c-4fb8-b7da-bdc5a046c802.0-41-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.7d78b7e7-524f-47e6-8b27-627a8b9c1ed6.1-41.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.7d78b7e7-524f-47e6-8b27-627a8b9c1ed6.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model.logol.7d78b7e7-524f-47e6-8b27-627a8b9c1ed6.0-41-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.39b9ad95-199b-4f65-bc2f-a69429f838ff.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.39b9ad95-199b-4f65-bc2f-a69429f838ff.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance.logol.39b9ad95-199b-4f65-bc2f-a69429f838ff.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.50585941-6118-4b68-a232-3dc425d92f91.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.50585941-6118-4b68-a232-3dc425d92f91.1-41.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.50585941-6118-4b68-a232-3dc425d92f91.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.lgd.50585941-6118-4b68-a232-3dc425d92f91.0-41-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.c2dd26ca-2f12-48f3-a5f0-547ce4c78a07.1-41.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.c2dd26ca-2f12-48f3-a5f0-547ce4c78a07.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherror.logol.c2dd26ca-2f12-48f3-a5f0-547ce4c78a07.0-41-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.96e114ea-8ffd-4bdd-b2dd-df5920d88aed.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.96e114ea-8ffd-4bdd-b2dd-df5920d88aed.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.96e114ea-8ffd-4bdd-b2dd-df5920d88aed.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.lgd.96e114ea-8ffd-4bdd-b2dd-df5920d88aed.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.4620e79b-f0f1-43fe-80f1-1d9e1b66998a.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.4620e79b-f0f1-43fe-80f1-1d9e1b66998a.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.4620e79b-f0f1-43fe-80f1-1d9e1b66998a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.lgd.4620e79b-f0f1-43fe-80f1-1d9e1b66998a.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.eed2b72c-753d-4c59-9654-5d4d437e0ee4.1-41.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.eed2b72c-753d-4c59-9654-5d4d437e0ee4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_any.logol.eed2b72c-753d-4c59-9654-5d4d437e0ee4.0-41-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.c7624811-e62d-4d47-8549-ba53c9bbf328.1-41.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.c7624811-e62d-4d47-8549-ba53c9bbf328.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment2.logol.c7624811-e62d-4d47-8549-ba53c9bbf328.0-41-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.9ac75410-c430-4cbf-9549-36af4611a292.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.9ac75410-c430-4cbf-9549-36af4611a292.1-41.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.9ac75410-c430-4cbf-9549-36af4611a292.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.lgd.9ac75410-c430-4cbf-9549-36af4611a292.0-41-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.f361b8a1-f307-4d21-9688-316cf2b6412f.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.f361b8a1-f307-4d21-9688-316cf2b6412f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror.logol.f361b8a1-f307-4d21-9688-316cf2b6412f.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.257bab2d-c9c6-4140-9f05-fd2bff6fb4de.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.257bab2d-c9c6-4140-9f05-fd2bff6fb4de.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_exact.logol.257bab2d-c9c6-4140-9f05-fd2bff6fb4de.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.55df16f3-dadb-4c3c-92f4-82e635882185.1-41.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.55df16f3-dadb-4c3c-92f4-82e635882185.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.logol.55df16f3-dadb-4c3c-92f4-82e635882185.0-41-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.9ced4a60-98ca-4da5-aa02-9f5a832c3fdb.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.9ced4a60-98ca-4da5-aa02-9f5a832c3fdb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_unknown.logol.9ced4a60-98ca-4da5-aa02-9f5a832c3fdb.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.835f6a7e-e556-4012-bf78-20f68f5f27df.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.835f6a7e-e556-4012-bf78-20f68f5f27df.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.logol.835f6a7e-e556-4012-bf78-20f68f5f27df.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.5c9ac4f2-c3e8-4d98-8462-57a0e42c8f1a.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.5c9ac4f2-c3e8-4d98-8462-57a0e42c8f1a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition2.logol.5c9ac4f2-c3e8-4d98-8462-57a0e42c8f1a.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.6729a697-ceb4-4727-92fa-7de0e284f2ba.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.6729a697-ceb4-4727-92fa-7de0e284f2ba.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment.logol.6729a697-ceb4-4727-92fa-7de0e284f2ba.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.6bc98412-efd1-4515-ab27-ac4ce51b21f3.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.6bc98412-efd1-4515-ab27-ac4ce51b21f3.1-41.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.6bc98412-efd1-4515-ab27-ac4ce51b21f3.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.lgd.6bc98412-efd1-4515-ab27-ac4ce51b21f3.0-41-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.407e2dd8-c563-4b03-969f-d1e7a6b0054f.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.407e2dd8-c563-4b03-969f-d1e7a6b0054f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model2.logol.407e2dd8-c563-4b03-969f-d1e7a6b0054f.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.df65b146-3b69-499b-bb91-2d3f444f1823.1-41.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.df65b146-3b69-499b-bb91-2d3f444f1823.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model3.logol.df65b146-3b69-499b-bb91-2d3f444f1823.0-41-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.2af2efe6-7756-447b-b7c4-fd89654e5ecb.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.2af2efe6-7756-447b-b7c4-fd89654e5ecb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model4.logol.2af2efe6-7756-447b-b7c4-fd89654e5ecb.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.12f733a6-cf70-416e-a52d-4687b98df51a.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.12f733a6-cf70-416e-a52d-4687b98df51a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat0.logol.12f733a6-cf70-416e-a52d-4687b98df51a.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.1100805b-58a9-416d-b29c-4976b34f4fb4.1-41.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.1100805b-58a9-416d-b29c-4976b34f4fb4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/reverse.logol.1100805b-58a9-416d-b29c-4976b34f4fb4.0-41-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.74402c66-b3fc-4c75-94f4-44327b95a60a.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.74402c66-b3fc-4c75-94f4-44327b95a60a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent_witherror.logol.74402c66-b3fc-4c75-94f4-44327b95a60a.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.e6cf4c00-a3f4-433d-bf8c-85e734382701.1-41.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.e6cf4c00-a3f4-433d-bf8c-85e734382701.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherroranddistance.logol.e6cf4c00-a3f4-433d-bf8c-85e734382701.0-41-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.f2bdd91d-caff-4357-b431-ed29ca48eeaa.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.f2bdd91d-caff-4357-b431-ed29ca48eeaa.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complex.logol.f2bdd91d-caff-4357-b431-ed29ca48eeaa.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.7511f732-42c3-4bdf-b49c-faedac0a5ecd.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.7511f732-42c3-4bdf-b49c-faedac0a5ecd.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance2.logol.7511f732-42c3-4bdf-b49c-faedac0a5ecd.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.89412966-b4fa-4c3d-b16e-41eb12902ffe.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.89412966-b4fa-4c3d-b16e-41eb12902ffe.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent.logol.89412966-b4fa-4c3d-b16e-41eb12902ffe.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.3425a3a6-918b-48b8-aeca-bff46598b60e.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.3425a3a6-918b-48b8-aeca-bff46598b60e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/multiple_model.logol.3425a3a6-918b-48b8-aeca-bff46598b60e.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.34f29ad8-0a1f-4ad4-877a-55d541afa50d.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.34f29ad8-0a1f-4ad4-877a-55d541afa50d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.34f29ad8-0a1f-4ad4-877a-55d541afa50d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.34f29ad8-0a1f-4ad4-877a-55d541afa50d.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.ce04a2cd-b5e2-493e-8a74-0fb6dd3c2484.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.ce04a2cd-b5e2-493e-8a74-0fb6dd3c2484.1-41.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.ce04a2cd-b5e2-493e-8a74-0fb6dd3c2484.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.lgd.ce04a2cd-b5e2-493e-8a74-0fb6dd3c2484.0-41-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.fe407386-ab39-453c-a8df-376882e85505.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.fe407386-ab39-453c-a8df-376882e85505.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.fe407386-ab39-453c-a8df-376882e85505.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.fe407386-ab39-453c-a8df-376882e85505.0-41-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.15a9be57-2fda-408f-974a-66fd68b90de4.1-41.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.15a9be57-2fda-408f-974a-66fd68b90de4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/mycost.logol.15a9be57-2fda-408f-974a-66fd68b90de4.0-41-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.6a29619a-ab44-492a-9591-26abcb44d6d0.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.6a29619a-ab44-492a-9591-26abcb44d6d0.1-41.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.6a29619a-ab44-492a-9591-26abcb44d6d0.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.lgd.6a29619a-ab44-492a-9591-26abcb44d6d0.0-41-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.2d8e5fbf-bcfb-485e-a40b-02ec78e6ca4c.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.2d8e5fbf-bcfb-485e-a40b-02ec78e6ca4c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat.logol.2d8e5fbf-bcfb-485e-a40b-02ec78e6ca4c.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.0f73a1e2-5fef-482f-91a7-9922d200d009.1-41.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.0f73a1e2-5fef-482f-91a7-9922d200d009.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror2.logol.0f73a1e2-5fef-482f-91a7-9922d200d009.0-41-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.fbfc2217-377b-4c42-accb-51a3e25a7461.1-41.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.fbfc2217-377b-4c42-accb-51a3e25a7461.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external2.logol.fbfc2217-377b-4c42-accb-51a3e25a7461.0-41-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.47f49852-f506-4e4d-91b3-fb2c4539b4c3.1-41.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.47f49852-f506-4e4d-91b3-fb2c4539b4c3.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_interspacer.logol.47f49852-f506-4e4d-91b3-fb2c4539b4c3.0-41-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.f341b211-1328-4ad9-b533-994a018680a6.1-41.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.f341b211-1328-4ad9-b533-994a018680a6.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notview.logol.f341b211-1328-4ad9-b533-994a018680a6.0-41-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.4627975a-5e7f-4efb-a067-e162fe6debbb.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.4627975a-5e7f-4efb-a067-e162fe6debbb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_anyspacer.logol.4627975a-5e7f-4efb-a067-e162fe6debbb.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.ef5496c7-5b34-4f75-80e5-1c58c1852176.1-41.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.ef5496c7-5b34-4f75-80e5-1c58c1852176.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notrepeat.logol.ef5496c7-5b34-4f75-80e5-1c58c1852176.0-41-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.02adcf90-7766-46a3-9f55-a44875a8f2cf.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.02adcf90-7766-46a3-9f55-a44875a8f2cf.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition.logol.02adcf90-7766-46a3-9f55-a44875a8f2cf.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: 1 minute 1 second 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. 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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: 8 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/x86_64-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_amd64.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_amd64.buildinfo dpkg-genchanges --build=binary -O../logol_1.7.9+dfsg-6_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: 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/7095 and its subdirectories I: Current time: Tue Feb 11 11:34:51 -12 2025 I: pbuilder-time-stamp: 1739316891