I: pbuilder: network access will be disabled during build I: Current time: Sat Jan 7 19:15:44 -12 2023 I: pbuilder-time-stamp: 1673162144 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [logol_1.7.9-1.dsc] I: copying [./logol_1.7.9.orig.tar.bz2] I: copying [./logol_1.7.9-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Wed Dec 26 02:26:55 2018 -12 gpgv: using RSA key 5FB46F83D3B952046335D26D78DC68DB326D8438 gpgv: issuer "osallou@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./logol_1.7.9-1.dsc dpkg-source: info: extracting logol in logol-1.7.9 dpkg-source: info: unpacking logol_1.7.9.orig.tar.bz2 dpkg-source: info: unpacking logol_1.7.9-1.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 I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2561471/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='55f42a2ee44c4ae68805d4de7c71d1e5' 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='2561471' 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/tmp.mmpfPRlhOF/pbuilderrc_poWF --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.mmpfPRlhOF/b1 --logfile b1/build.log logol_1.7.9-1.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos5-amd64 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5116 -rwxr-xr-x 1 root root 1168776 Apr 17 2019 bash -rwxr-xr-x 3 root root 38984 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38984 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 14328 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 43744 Feb 28 2019 cat -rwxr-xr-x 1 root root 64320 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 64288 Feb 28 2019 chmod -rwxr-xr-x 1 root root 72512 Feb 28 2019 chown -rwxr-xr-x 1 root root 146880 Feb 28 2019 cp -rwxr-xr-x 1 root root 121464 Jan 17 2019 dash -rwxr-xr-x 1 root root 109408 Feb 28 2019 date -rwxr-xr-x 1 root root 76712 Feb 28 2019 dd -rwxr-xr-x 1 root root 93744 Feb 28 2019 df -rwxr-xr-x 1 root root 138856 Feb 28 2019 dir -rwxr-xr-x 1 root root 84288 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 39520 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 35424 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 68880 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 34896 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 198976 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 98048 Jan 5 2019 gzip -rwxr-xr-x 1 root root 26696 Sep 26 2018 hostname -rwxr-xr-x 1 root root 68552 Feb 28 2019 ln -rwxr-xr-x 1 root root 56760 Jul 26 2018 login -rwxr-xr-x 1 root root 138856 Feb 28 2019 ls -rwxr-xr-x 1 root root 108624 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 89088 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 68544 Feb 28 2019 mknod -rwxr-xr-x 1 root root 43808 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 43008 Jan 9 2019 more -rwsr-xr-x 1 root root 51280 Jan 9 2019 mount -rwxr-xr-x 1 root root 14408 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 138728 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 39616 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 47776 Feb 28 2019 readlink -rwxr-xr-x 1 root root 68416 Feb 28 2019 rm -rwxr-xr-x 1 root root 47776 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 23312 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Dec 10 16:21 sh -> dash -rwxr-xr-x 1 root root 39552 Feb 28 2019 sleep -rwxr-xr-x 1 root root 80672 Feb 28 2019 stty -rwsr-xr-x 1 root root 63568 Jan 9 2019 su -rwxr-xr-x 1 root root 35488 Feb 28 2019 sync -rwxr-xr-x 1 root root 445560 Apr 23 2019 tar -rwxr-xr-x 1 root root 14440 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 97152 Feb 28 2019 touch -rwxr-xr-x 1 root root 35424 Feb 28 2019 true -rwxr-xr-x 1 root root 14328 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 34888 Jan 9 2019 umount -rwxr-xr-x 1 root root 39584 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 138856 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34896 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/2561471/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 (>= 11~), default-jdk, ant, ruby, gawk, swi-prolog (>= 6.4.1-3), libbiojava-java, 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 ... 19195 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 (>= 11~); however: Package debhelper 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 (>= 6.4.1-3); however: Package swi-prolog is not installed. pbuilder-satisfydepends-dummy depends on libbiojava-java; 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: ant{a} ant-optional{a} antlr3{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{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-config{a} fonts-dejavu-core{a} fonts-lmodern{a} gawk{a} gettext{a} gettext-base{a} groff-base{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} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libbiojava-java{a} libbiojava1.7-java{a} libboost-regex1.67.0{a} libboost-serialization1.67.0{a} libbrotli1{a} libbsd-dev{a} libbsd0{a} libbytecode-java{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} libcroco3{a} libcups2{a} libcupsimage2{a} libdbus-1-3{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-nouveau2{a} libdrm-radeon1{a} libdrm2{a} libedit-dev{a} libedit2{a} libel-api-java{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{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} libgmp-dev{a} libgmpxx4ldbl{a} libgoogle-glog0v5{a} libgraphite2-3{a} libgs9{a} libgs9-common{a} libgssapi-krb5-2{a} libhamcrest-java{a} libharfbuzz-icu0{a} libharfbuzz0b{a} libhsqldb-java{a} libice6{a} libicu63{a} libidn11{a} libijs-0.35{a} libjaxp1.3-java{a} libjbig0{a} libjbig2dec0{a} libjpeg62-turbo{a} libjs-jquery{a} libjsp-api-java{a} libk5crypto3{a} libkeyutils1{a} libkpathsea6{a} libkrb5-3{a} libkrb5support0{a} liblcms2-2{a} libllvm7{a} liblog4j1.2-java{a} libmagic-mgc{a} libmagic1{a} libmail-java{a} libncurses-dev{a} libncurses6{a} libnspr4{a} libnss3{a} libopenjp2-7{a} libossp-uuid16{a} libpaper-utils{a} libpaper1{a} libpciaccess0{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libpotrace0{a} libptexenc1{a} libpython-stdlib{a} libpython2-stdlib{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libreadline-dev{a} libreadline7{a} libruby2.5{a} libsensors-config{a} libsensors5{a} libservlet-api-java{a} libservlet3.1-java{a} libsigsegv2{a} libsm6{a} libssl1.1{a} libstringtemplate4-java{a} libsynctex2{a} libteckit0{a} libtexlua52{a} libtexlua53{a} libtexluajit2{a} libtiff5{a} libtool{a} libuchardet0{a} libunwind8{a} libwebp6{a} libwebsocket-api-java{a} libwoff1{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-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb1{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} libxrender1{a} libxshmfence1{a} libxt6{a} libxtst6{a} libxxf86vm1{a} libxxhash0{a} libyaml-0-2{a} libzzip-0-13{a} lsb-base{a} m4{a} man-db{a} mime-support{a} openjdk-11-jdk{a} openjdk-11-jdk-headless{a} openjdk-11-jre{a} openjdk-11-jre-headless{a} openssl{a} po-debconf{a} poppler-data{a} preview-latex-style{a} python{a} python-minimal{a} python2{a} python2-minimal{a} python2.7{a} python2.7-minimal{a} rake{a} readline-common{a} ruby{a} ruby-cassiopee{a} ruby-did-you-mean{a} ruby-minitest{a} ruby-net-telnet{a} ruby-power-assert{a} ruby-test-unit{a} ruby-text{a} ruby-xmlrpc{a} ruby2.5{a} rubygems-integration{a} sensible-utils{a} swi-prolog{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: curl dbus fonts-dejavu-extra fonts-droid-fallback fonts-lato javascript-common krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libcupsfilters1 libfile-mimeinfo-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libnet-dbus-perl libstringtemplate-java libx11-protocol-perl libxt-dev lmodern lynx shared-mime-info 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 466 MB of archives. After unpacking 1193 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get: 2 http://deb.debian.org/debian buster/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get: 3 http://deb.debian.org/debian buster/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get: 4 http://deb.debian.org/debian buster/main amd64 groff-base amd64 1.22.4-3+deb10u1 [916 kB] Get: 5 http://deb.debian.org/debian buster/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get: 6 http://deb.debian.org/debian buster/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get: 7 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get: 9 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1d-0+deb10u7 [1539 kB] Get: 12 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u1 [106 kB] Get: 14 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get: 16 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get: 17 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get: 23 http://deb.debian.org/debian buster/main amd64 gawk amd64 1:4.2.1+dfsg-1 [660 kB] Get: 24 http://deb.debian.org/debian buster/main amd64 poppler-data all 0.4.9-2 [1473 kB] Get: 25 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get: 26 http://deb.debian.org/debian buster/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get: 27 http://deb.debian.org/debian buster/main amd64 tex-common all 6.11 [53.1 kB] Get: 28 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get: 29 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get: 30 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get: 31 http://deb.debian.org/debian buster/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get: 32 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1d-0+deb10u7 [845 kB] Get: 33 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get: 34 http://deb.debian.org/debian buster/main amd64 libnspr4 amd64 2:4.20-1 [112 kB] Get: 35 http://deb.debian.org/debian buster/main amd64 libnss3 amd64 2:3.42.1-1+deb10u3 [1159 kB] Get: 36 http://deb.debian.org/debian buster/main amd64 ca-certificates-java all 20190405 [15.7 kB] Get: 37 http://deb.debian.org/debian buster/main amd64 java-common all 0.71 [14.4 kB] Get: 38 http://deb.debian.org/debian buster/main amd64 libavahi-common-data amd64 0.7-4+deb10u1 [122 kB] Get: 39 http://deb.debian.org/debian buster/main amd64 libavahi-common3 amd64 0.7-4+deb10u1 [54.4 kB] Get: 40 http://deb.debian.org/debian buster/main amd64 libdbus-1-3 amd64 1.12.20-0+deb10u1 [215 kB] Get: 41 http://deb.debian.org/debian buster/main amd64 libavahi-client3 amd64 0.7-4+deb10u1 [58.2 kB] Get: 42 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get: 43 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u3 [65.8 kB] Get: 44 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u3 [122 kB] Get: 45 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u3 [370 kB] Get: 46 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u3 [158 kB] Get: 47 http://deb.debian.org/debian buster/main amd64 libcups2 amd64 2.2.10-6+deb10u4 [324 kB] Get: 48 http://deb.debian.org/debian buster/main amd64 liblcms2-2 amd64 2.9-3 [145 kB] Get: 49 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get: 50 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get: 51 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u2 [380 kB] Get: 52 http://deb.debian.org/debian buster/main amd64 fonts-dejavu-core all 2.37-1 [1068 kB] Get: 53 http://deb.debian.org/debian buster/main amd64 fontconfig-config all 2.13.1-2 [280 kB] Get: 54 http://deb.debian.org/debian buster/main amd64 libfontconfig1 amd64 2.13.1-2 [346 kB] Get: 55 http://deb.debian.org/debian buster/main amd64 libasound2-data all 1.1.8-1 [59.6 kB] Get: 56 http://deb.debian.org/debian buster/main amd64 libasound2 amd64 1.1.8-1 [361 kB] Get: 57 http://deb.debian.org/debian buster/main amd64 libglib2.0-0 amd64 2.58.3-2+deb10u3 [1259 kB] Get: 58 http://deb.debian.org/debian buster/main amd64 libgraphite2-3 amd64 1.3.13-7 [80.7 kB] Get: 59 http://deb.debian.org/debian buster/main amd64 libharfbuzz0b amd64 2.3.1-1 [1187 kB] Get: 60 http://deb.debian.org/debian buster/main amd64 libpcsclite1 amd64 1.8.24-1 [58.5 kB] Get: 61 http://deb.debian.org/debian buster/main amd64 openjdk-11-jre-headless amd64 11.0.12+7-2~deb10u1 [37.2 MB] Get: 62 http://deb.debian.org/debian buster/main amd64 default-jre-headless amd64 2:1.11-71 [10.9 kB] Get: 63 http://deb.debian.org/debian buster/main amd64 ant all 1.10.5-2 [2082 kB] Get: 64 http://deb.debian.org/debian buster/main amd64 ant-optional all 1.10.5-2 [379 kB] Get: 65 http://deb.debian.org/debian buster/main amd64 libantlr3-runtime-java all 3.5.2-9 [166 kB] Get: 66 http://deb.debian.org/debian buster/main amd64 libstringtemplate4-java all 4.0.8-2 [232 kB] Get: 67 http://deb.debian.org/debian buster/main amd64 antlr3 all 3.5.2-9 [1142 kB] Get: 68 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get: 69 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get: 70 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get: 71 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get: 72 http://deb.debian.org/debian buster/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get: 73 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u1 [8300 kB] Get: 74 http://deb.debian.org/debian buster/main amd64 libboost-regex1.67.0 amd64 1.67.0-13+deb10u1 [485 kB] Get: 75 http://deb.debian.org/debian buster/main amd64 libboost-serialization1.67.0 amd64 1.67.0-13+deb10u1 [319 kB] Get: 76 http://deb.debian.org/debian buster/main amd64 libgflags2.2 amd64 2.2.2-1 [76.7 kB] Get: 77 http://deb.debian.org/debian buster/main amd64 libunwind8 amd64 1.2.1-10~deb10u1 [51.1 kB] Get: 78 http://deb.debian.org/debian buster/main amd64 libgoogle-glog0v5 amd64 0.3.5-1 [52.9 kB] Get: 79 http://deb.debian.org/debian buster/main amd64 libcassie1v5 amd64 1.0.9-2 [39.7 kB] Get: 80 http://deb.debian.org/debian buster/main amd64 cassiopee amd64 1.0.9-2 [17.9 kB] Get: 81 http://deb.debian.org/debian buster/main amd64 chrpath amd64 0.16-2+b1 [17.1 kB] Get: 82 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get: 83 http://deb.debian.org/debian buster/main amd64 dh-autoreconf all 19 [16.9 kB] Get: 84 http://deb.debian.org/debian buster/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 85 http://deb.debian.org/debian buster/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 86 http://deb.debian.org/debian buster/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 87 http://deb.debian.org/debian buster/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get: 88 http://deb.debian.org/debian buster/main amd64 dwz amd64 0.12-3 [78.0 kB] Get: 89 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u2 [689 kB] Get: 90 http://deb.debian.org/debian buster/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get: 91 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get: 92 http://deb.debian.org/debian buster/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get: 93 http://deb.debian.org/debian buster/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 94 http://deb.debian.org/debian buster/main amd64 po-debconf all 1.0.21 [248 kB] Get: 95 http://deb.debian.org/debian buster/main amd64 debhelper all 12.1.1 [1016 kB] Get: 96 http://deb.debian.org/debian buster/main amd64 libglvnd0 amd64 1.1.0-1 [48.6 kB] Get: 97 http://deb.debian.org/debian buster/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get: 98 http://deb.debian.org/debian buster/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get: 99 http://deb.debian.org/debian buster/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get: 100 http://deb.debian.org/debian buster/main amd64 libx11-data all 2:1.6.7-1+deb10u2 [299 kB] Get: 101 http://deb.debian.org/debian buster/main amd64 libx11-6 amd64 2:1.6.7-1+deb10u2 [757 kB] Get: 102 http://deb.debian.org/debian buster/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get: 103 http://deb.debian.org/debian buster/main amd64 libdrm-common all 2.4.97-1 [13.8 kB] Get: 104 http://deb.debian.org/debian buster/main amd64 libdrm2 amd64 2.4.97-1 [39.7 kB] Get: 105 http://deb.debian.org/debian buster/main amd64 libglapi-mesa amd64 18.3.6-2+deb10u1 [66.3 kB] Get: 106 http://deb.debian.org/debian buster/main amd64 libx11-xcb1 amd64 2:1.6.7-1+deb10u2 [191 kB] Get: 107 http://deb.debian.org/debian buster/main amd64 libxcb-dri2-0 amd64 1.13.1-2 [101 kB] Get: 108 http://deb.debian.org/debian buster/main amd64 libxcb-dri3-0 amd64 1.13.1-2 [100 kB] Get: 109 http://deb.debian.org/debian buster/main amd64 libxcb-glx0 amd64 1.13.1-2 [116 kB] Get: 110 http://deb.debian.org/debian buster/main amd64 libxcb-present0 amd64 1.13.1-2 [99.1 kB] Get: 111 http://deb.debian.org/debian buster/main amd64 libxcb-sync1 amd64 1.13.1-2 [103 kB] Get: 112 http://deb.debian.org/debian buster/main amd64 libxfixes3 amd64 1:5.0.3-1 [21.9 kB] Get: 113 http://deb.debian.org/debian buster/main amd64 libxdamage1 amd64 1:1.1.4-3+b3 [14.9 kB] Get: 114 http://deb.debian.org/debian buster/main amd64 libxshmfence1 amd64 1.3-1 [8820 B] Get: 115 http://deb.debian.org/debian buster/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get: 116 http://deb.debian.org/debian buster/main amd64 libdrm-amdgpu1 amd64 2.4.97-1 [27.3 kB] Get: 117 http://deb.debian.org/debian buster/main amd64 libpciaccess0 amd64 0.14-1 [53.5 kB] Get: 118 http://deb.debian.org/debian buster/main amd64 libdrm-intel1 amd64 2.4.97-1 [69.8 kB] Get: 119 http://deb.debian.org/debian buster/main amd64 libdrm-nouveau2 amd64 2.4.97-1 [26.3 kB] Get: 120 http://deb.debian.org/debian buster/main amd64 libdrm-radeon1 amd64 2.4.97-1 [31.1 kB] Get: 121 http://deb.debian.org/debian buster/main amd64 libedit2 amd64 3.1-20181209-1 [94.0 kB] Get: 122 http://deb.debian.org/debian buster/main amd64 libllvm7 amd64 1:7.0.1-8+deb10u2 [13.1 MB] Get: 123 http://deb.debian.org/debian buster/main amd64 libsensors-config all 1:3.5.0-3 [31.6 kB] Get: 124 http://deb.debian.org/debian buster/main amd64 libsensors5 amd64 1:3.5.0-3 [52.6 kB] Get: 125 http://deb.debian.org/debian buster/main amd64 libgl1-mesa-dri amd64 18.3.6-2+deb10u1 [6685 kB] Get: 126 http://deb.debian.org/debian buster/main amd64 libglx-mesa0 amd64 18.3.6-2+deb10u1 [180 kB] Get: 127 http://deb.debian.org/debian buster/main amd64 libglx0 amd64 1.1.0-1 [30.0 kB] Get: 128 http://deb.debian.org/debian buster/main amd64 libgl1 amd64 1.1.0-1 [91.1 kB] Get: 129 http://deb.debian.org/debian buster/main amd64 libgif7 amd64 5.1.4-3 [43.3 kB] Get: 130 http://deb.debian.org/debian buster/main amd64 libxi6 amd64 2:1.7.9-1 [82.6 kB] Get: 131 http://deb.debian.org/debian buster/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get: 132 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get: 133 http://deb.debian.org/debian buster/main amd64 x11-common all 1:7.7+19 [251 kB] Get: 134 http://deb.debian.org/debian buster/main amd64 libxtst6 amd64 2:1.2.3-1 [27.8 kB] Get: 135 http://deb.debian.org/debian buster/main amd64 openjdk-11-jre amd64 11.0.12+7-2~deb10u1 [174 kB] Get: 136 http://deb.debian.org/debian buster/main amd64 default-jre amd64 2:1.11-71 [1044 B] Get: 137 http://deb.debian.org/debian buster/main amd64 openjdk-11-jdk-headless amd64 11.0.12+7-2~deb10u1 [221 MB] Get: 138 http://deb.debian.org/debian buster/main amd64 default-jdk-headless amd64 2:1.11-71 [1104 B] Get: 139 http://deb.debian.org/debian buster/main amd64 openjdk-11-jdk amd64 11.0.12+7-2~deb10u1 [2693 kB] Get: 140 http://deb.debian.org/debian buster/main amd64 default-jdk amd64 2:1.11-71 [1056 B] Get: 141 http://deb.debian.org/debian buster/main amd64 fonts-lmodern all 2.004.5-6 [4539 kB] Get: 142 http://deb.debian.org/debian buster/main amd64 libhamcrest-java all 1.3-9 [388 kB] Get: 143 http://deb.debian.org/debian buster/main amd64 junit4 all 4.12-8 [292 kB] Get: 144 http://deb.debian.org/debian buster/main amd64 libactivation-java all 1.2.0-2 [84.7 kB] Get: 145 http://deb.debian.org/debian buster/main amd64 libapache-pom-java all 18-1 [4676 B] Get: 146 http://deb.debian.org/debian buster/main amd64 libarchive13 amd64 3.3.3-4+deb10u1 [313 kB] Get: 147 http://deb.debian.org/debian buster/main amd64 libcommons-pool-java all 1.6-3 [104 kB] Get: 148 http://deb.debian.org/debian buster/main amd64 libcommons-collections3-java all 3.2.2-2 [526 kB] Get: 149 http://deb.debian.org/debian buster/main amd64 libcommons-dbcp-java all 1.4-6 [157 kB] Get: 150 http://deb.debian.org/debian buster/main amd64 libservlet-api-java all 4.0.1-2 [81.0 kB] Get: 151 http://deb.debian.org/debian buster/main amd64 libjsp-api-java all 2.3.4-2+deb10u1 [53.7 kB] Get: 152 http://deb.debian.org/debian buster/main amd64 libel-api-java all 3.0.0-2+deb10u1 [64.9 kB] Get: 153 http://deb.debian.org/debian buster/main amd64 libwebsocket-api-java all 1.1-1+deb10u1 [40.0 kB] Get: 154 http://deb.debian.org/debian buster/main amd64 libservlet3.1-java all 1:4.0.1-2 [9516 B] Get: 155 http://deb.debian.org/debian buster/main amd64 libhsqldb-java all 2.4.1-2 [1633 kB] Get: 156 http://deb.debian.org/debian buster/main amd64 libbytecode-java all 0.92.svn.20090106-2 [89.1 kB] Get: 157 http://deb.debian.org/debian buster/main amd64 libbiojava1.7-java all 1:1.7.1-8 [3274 kB] Get: 158 http://deb.debian.org/debian buster/main amd64 libbiojava-java all 1:1.7.1-8 [48.5 kB] Get: 159 http://deb.debian.org/debian buster/main amd64 libbrotli1 amd64 1.0.7-2+deb10u1 [269 kB] Get: 160 http://deb.debian.org/debian buster/main amd64 libbsd-dev amd64 0.9.1-2+deb10u1 [219 kB] Get: 161 http://deb.debian.org/debian buster/main amd64 libpixman-1-0 amd64 0.36.0-1 [537 kB] Get: 162 http://deb.debian.org/debian buster/main amd64 libxcb-render0 amd64 1.13.1-2 [109 kB] Get: 163 http://deb.debian.org/debian buster/main amd64 libxcb-shm0 amd64 1.13.1-2 [99.2 kB] Get: 164 http://deb.debian.org/debian buster/main amd64 libcairo2 amd64 1.16.0-4+deb10u1 [688 kB] Get: 165 http://deb.debian.org/debian buster/main amd64 libcommons-cli-java all 1.4-1 [55.2 kB] Get: 166 http://deb.debian.org/debian buster/main amd64 libcommons-parent-java all 43-1 [10.8 kB] Get: 167 http://deb.debian.org/debian buster/main amd64 libcommons-lang-java all 2.6-8 [273 kB] Get: 168 http://deb.debian.org/debian buster/main amd64 libcommons-logging-java all 1.2-2 [62.2 kB] Get: 169 http://deb.debian.org/debian buster/main amd64 libcommons-configuration-java all 1.10-5 [330 kB] Get: 170 http://deb.debian.org/debian buster/main amd64 libcupsimage2 amd64 2.2.10-6+deb10u4 [133 kB] Get: 171 http://deb.debian.org/debian buster/main amd64 libncurses-dev amd64 6.1+20181013-2+deb10u2 [333 kB] Get: 172 http://deb.debian.org/debian buster/main amd64 libedit-dev amd64 3.1-20181209-1 [114 kB] Get: 173 http://deb.debian.org/debian buster/main amd64 libgmpxx4ldbl amd64 2:6.1.2+dfsg-4 [22.9 kB] Get: 174 http://deb.debian.org/debian buster/main amd64 libgmp-dev amd64 2:6.1.2+dfsg-4 [628 kB] Get: 175 http://deb.debian.org/debian buster/main amd64 libgs9-common all 9.27~dfsg-2+deb10u4 [5136 kB] Get: 176 http://deb.debian.org/debian buster/main amd64 libidn11 amd64 1.33-2.2 [116 kB] Get: 177 http://deb.debian.org/debian buster/main amd64 libijs-0.35 amd64 0.35-14 [18.3 kB] Get: 178 http://deb.debian.org/debian buster/main amd64 libjbig2dec0 amd64 0.16-1 [62.0 kB] Get: 179 http://deb.debian.org/debian buster/main amd64 libopenjp2-7 amd64 2.3.0-2+deb10u2 [158 kB] Get: 180 http://deb.debian.org/debian buster/main amd64 libpaper1 amd64 1.1.28 [21.3 kB] Get: 181 http://deb.debian.org/debian buster/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get: 182 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get: 183 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u2 [271 kB] Get: 184 http://deb.debian.org/debian buster/main amd64 libgs9 amd64 9.27~dfsg-2+deb10u4 [2195 kB] Get: 185 http://deb.debian.org/debian buster/main amd64 libharfbuzz-icu0 amd64 2.3.1-1 [834 kB] Get: 186 http://deb.debian.org/debian buster/main amd64 libice6 amd64 2:1.0.9-2 [58.7 kB] Get: 187 http://deb.debian.org/debian buster/main amd64 libjaxp1.3-java all 1.3.05-5 [226 kB] Get: 188 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get: 189 http://deb.debian.org/debian buster/main amd64 libkpathsea6 amd64 2018.20181218.49446-1 [167 kB] Get: 190 http://deb.debian.org/debian buster/main amd64 liblog4j1.2-java all 1.2.17-8+deb10u1 [438 kB] Get: 191 http://deb.debian.org/debian buster/main amd64 libmail-java all 1.6.2-1 [696 kB] Get: 192 http://deb.debian.org/debian buster/main amd64 libossp-uuid16 amd64 1.6.2-1.5+b7 [38.1 kB] Get: 193 http://deb.debian.org/debian buster/main amd64 libpaper-utils amd64 1.1.28 [18.0 kB] Get: 194 http://deb.debian.org/debian buster/main amd64 libpotrace0 amd64 1.15-1 [26.3 kB] Get: 195 http://deb.debian.org/debian buster/main amd64 libptexenc1 amd64 2018.20181218.49446-1 [61.0 kB] Get: 196 http://deb.debian.org/debian buster/main amd64 libreadline-dev amd64 7.0-5 [133 kB] Get: 197 http://deb.debian.org/debian buster/main amd64 rubygems-integration all 1.11+deb10u1 [5212 B] Get: 198 http://deb.debian.org/debian buster/main amd64 ruby2.5 amd64 2.5.5-3+deb10u3 [400 kB] Get: 199 http://deb.debian.org/debian buster/main amd64 ruby amd64 1:2.5.1 [11.3 kB] Get: 200 http://deb.debian.org/debian buster/main amd64 rake all 12.3.1-3+deb10u1 [67.1 kB] Get: 201 http://deb.debian.org/debian buster/main amd64 ruby-did-you-mean all 1.2.1-1 [14.4 kB] Get: 202 http://deb.debian.org/debian buster/main amd64 ruby-minitest all 5.11.3-1 [54.8 kB] Get: 203 http://deb.debian.org/debian buster/main amd64 ruby-net-telnet all 0.1.1-2 [12.5 kB] Get: 204 http://deb.debian.org/debian buster/main amd64 ruby-power-assert all 1.1.1-1 [10.9 kB] Get: 205 http://deb.debian.org/debian buster/main amd64 ruby-test-unit all 3.2.8-1 [72.4 kB] Get: 206 http://deb.debian.org/debian buster/main amd64 ruby-xmlrpc all 0.3.0-2 [23.7 kB] Get: 207 http://deb.debian.org/debian buster/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get: 208 http://deb.debian.org/debian buster/main amd64 libruby2.5 amd64 2.5.5-3+deb10u3 [3438 kB] Get: 209 http://deb.debian.org/debian buster/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB] Get: 210 http://deb.debian.org/debian buster/main amd64 libsynctex2 amd64 2018.20181218.49446-1 [80.5 kB] Get: 211 http://deb.debian.org/debian buster/main amd64 libteckit0 amd64 2.5.8+ds2-5 [318 kB] Get: 212 http://deb.debian.org/debian buster/main amd64 libtexlua52 amd64 2018.20181218.49446-1 [112 kB] Get: 213 http://deb.debian.org/debian buster/main amd64 libtexlua53 amd64 2018.20181218.49446-1 [126 kB] Get: 214 http://deb.debian.org/debian buster/main amd64 libtexluajit2 amd64 2018.20181218.49446-1 [256 kB] Get: 215 http://deb.debian.org/debian buster/main amd64 libwoff1 amd64 1.0.2-1 [43.2 kB] Get: 216 http://deb.debian.org/debian buster/main amd64 libxml-commons-external-java all 1.4.01-3 [240 kB] Get: 217 http://deb.debian.org/debian buster/main amd64 libxml-commons-resolver1.1-java all 1.2-9 [91.6 kB] Get: 218 http://deb.debian.org/debian buster/main amd64 libxerces2-java all 2.12.0-1 [1440 kB] Get: 219 http://deb.debian.org/debian buster/main amd64 libxalan2-java all 2.7.2-2 [3380 kB] Get: 220 http://deb.debian.org/debian buster/main amd64 libxt6 amd64 1:1.1.5-1+b3 [190 kB] Get: 221 http://deb.debian.org/debian buster/main amd64 libxmu6 amd64 2:1.1.2-2+b3 [60.8 kB] Get: 222 http://deb.debian.org/debian buster/main amd64 libxpm4 amd64 1:3.5.12-1 [49.1 kB] Get: 223 http://deb.debian.org/debian buster/main amd64 libxaw7 amd64 2:1.0.13-1+b2 [201 kB] Get: 224 http://deb.debian.org/debian buster/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get: 225 http://deb.debian.org/debian buster/main amd64 libxinerama1 amd64 2:1.1.4-2 [17.7 kB] Get: 226 http://deb.debian.org/debian buster/main amd64 libxxhash0 amd64 0.6.5-2 [7156 B] Get: 227 http://deb.debian.org/debian buster/main amd64 libzzip-0-13 amd64 0.13.62-3.2 [55.4 kB] Get: 228 http://deb.debian.org/debian buster/main amd64 preview-latex-style all 11.91-2 [201 kB] Get: 229 http://deb.debian.org/debian buster/main amd64 ruby-text all 1.3.0-1 [13.0 kB] Get: 230 http://deb.debian.org/debian buster/main amd64 ruby-cassiopee all 0.1.13-1 [11.5 kB] Get: 231 http://deb.debian.org/debian buster/main amd64 swi-prolog-nox amd64 8.0.2+dfsg-3+deb10u1 [3712 kB] Get: 232 http://deb.debian.org/debian buster/main amd64 swi-prolog-x amd64 8.0.2+dfsg-3+deb10u1 [2114 kB] Get: 233 http://deb.debian.org/debian buster/main amd64 swi-prolog amd64 8.0.2+dfsg-3+deb10u1 [24.3 kB] Get: 234 http://deb.debian.org/debian buster/main amd64 t1utils amd64 1.41-3 [62.3 kB] Get: 235 http://deb.debian.org/debian buster/main amd64 texlive-binaries amd64 2018.20181218.49446-1 [11.3 MB] Get: 236 http://deb.debian.org/debian buster/main amd64 xdg-utils all 1.1.3-1+deb10u1 [73.7 kB] Get: 237 http://deb.debian.org/debian buster/main amd64 texlive-base all 2018.20190227-2 [19.7 MB] Get: 238 http://deb.debian.org/debian buster/main amd64 texlive-fonts-recommended all 2018.20190227-2 [5228 kB] Get: 239 http://deb.debian.org/debian buster/main amd64 texlive-latex-base all 2018.20190227-2 [984 kB] Get: 240 http://deb.debian.org/debian buster/main amd64 texlive-latex-recommended all 2018.20190227-2 [15.2 MB] Get: 241 http://deb.debian.org/debian buster/main amd64 texlive all 2018.20190227-2 [32.6 kB] Get: 242 http://deb.debian.org/debian buster/main amd64 texlive-pictures all 2018.20190227-2 [8201 kB] Get: 243 http://deb.debian.org/debian buster/main amd64 texlive-latex-extra all 2018.20190227-2 [12.3 MB] Get: 244 http://deb.debian.org/debian buster/main amd64 texlive-plain-generic all 2018.20190227-2 [24.3 MB] Fetched 466 MB in 6s (83.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19195 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2+deb10u1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-2+deb10u1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. 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Setting up python2.7-minimal (2.7.16-2+deb10u1) ... Setting up python2-minimal (2.7.16-1) ... Selecting previously unselected package python2. (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 ... 20658 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_amd64.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... Selecting previously unselected package python. (Reading database ... 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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 ... 20714 files and directories currently installed.) Preparing to unpack .../000-gawk_1%3a4.2.1+dfsg-1_amd64.deb ... Unpacking gawk (1:4.2.1+dfsg-1) ... Selecting previously unselected package poppler-data. Preparing to unpack .../001-poppler-data_0.4.9-2_all.deb ... Unpacking poppler-data (0.4.9-2) ... Selecting previously unselected package sensible-utils. 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Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libcommons-dbcp-java (1.4-6) ... Setting up libice6:amd64 (2:1.0.9-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libncurses-dev:amd64 (6.1+20181013-2+deb10u2) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libboost-regex1.67.0:amd64 (1.67.0-13+deb10u1) ... Setting up libgmp-dev:amd64 (2:6.1.2+dfsg-4) ... Setting up libstringtemplate4-java (4.0.8-2) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libwoff1:amd64 (1.0.2-1) ... Setting up libtool (2.4.6-9) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libhsqldb-java (2.4.1-2) ... Setting up libarchive13:amd64 (3.3.3-4+deb10u1) ... Setting up libxcb-render0:amd64 (1.13.1-2) ... Setting up libxcb-glx0:amd64 (1.13.1-2) ... Setting up libedit2:amd64 (3.1-20181209-1) ... Setting up libcommons-parent-java (43-1) ... Setting up libavahi-common3:amd64 (0.7-4+deb10u1) ... Setting up libcommons-logging-java (1.2-2) ... Setting up libnss3:amd64 (2:3.42.1-1+deb10u3) ... Setting up libxcb-shm0:amd64 (1.13.1-2) ... Setting up libreadline-dev:amd64 (7.0-5) ... Setting up libcommons-lang-java (2.6-8) ... Setting up python2 (2.7.16-1) ... Setting up libxcb-present0:amd64 (1.13.1-2) ... Setting up ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 137 added, 0 removed; done. Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up libptexenc1:amd64 (2018.20181218.49446-1) ... Setting up libfreetype6:amd64 (2.9.1-3+deb10u2) ... Setting up libxcb-sync1:amd64 (1.13.1-2) ... Setting up libxalan2-java (2.7.2-2) ... Setting up libedit-dev:amd64 (3.1-20181209-1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u3) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up ucf (3.0038+nmu1) ... Setting up libxcb-dri2-0:amd64 (1.13.1-2) ... Setting up libdrm2:amd64 (2.4.97-1) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3+deb10u1) ... Setting up swi-prolog-nox (8.0.2+dfsg-3+deb10u1) ... update-alternatives: using /usr/bin/swipl to provide /usr/bin/prolog (prolog) in auto mode Setting up libllvm7:amd64 (1:7.0.1-8+deb10u2) ... Setting up libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Setting up libharfbuzz0b:amd64 (2.3.1-1) ... Setting up libcommons-configuration-java (1.10-5) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up python (2.7.16-1) ... Setting up libgoogle-glog0v5 (0.3.5-1) ... Setting up libavahi-client3:amd64 (0.7-4+deb10u1) ... Setting up libdrm-amdgpu1:amd64 (2.4.97-1) ... Setting up libxcb-dri3-0:amd64 (1.13.1-2) ... Setting up libpaper1:amd64 (1.1.28) ... Creating config file /etc/papersize with new version Setting up libdrm-nouveau2:amd64 (2.4.97-1) ... Setting up gettext (0.19.8.1-9) ... Setting up libharfbuzz-icu0:amd64 (2.3.1-1) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libcassie1v5 (1.0.9-2) ... Setting up libdrm-radeon1:amd64 (2.4.97-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up libdrm-intel1:amd64 (2.4.97-1) ... Setting up libgl1-mesa-dri:amd64 (18.3.6-2+deb10u1) ... Setting up cassiopee (1.0.9-2) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up rubygems-integration (1.11+deb10u1) ... Setting up libpaper-utils (1.1.28) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up tex-common (6.11) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libxfixes3:amd64 (1:5.0.3-1) ... Setting up libxinerama1:amd64 (2:1.1.4-2) ... Setting up libxt6:amd64 (1:1.1.5-1+b3) ... Setting up libcups2:amd64 (2.2.10-6+deb10u4) ... Setting up libfontconfig1:amd64 (2.13.1-2) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up libxmu6:amd64 (2:1.1.2-2+b3) ... Setting up libxdamage1:amd64 (1:1.1.4-3+b3) ... Setting up libxi6:amd64 (2:1.7.9-1) ... Setting up libxtst6:amd64 (2:1.2.3-1) ... Setting up po-debconf (1.0.21) ... Setting up preview-latex-style (11.91-2) ... Setting up libxaw7:amd64 (2:1.0.13-1+b2) ... Setting up libcairo2:amd64 (1.16.0-4+deb10u1) ... Setting up libcupsimage2:amd64 (2.2.10-6+deb10u4) ... Setting up swi-prolog-x (8.0.2+dfsg-3+deb10u1) ... Setting up libglx-mesa0:amd64 (18.3.6-2+deb10u1) ... Setting up libgs9:amd64 (9.27~dfsg-2+deb10u4) ... Setting up libglx0:amd64 (1.1.0-1) ... Setting up libgl1:amd64 (1.1.0-1) ... Setting up texlive-binaries (2018.20181218.49446-1) ... 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 swi-prolog (8.0.2+dfsg-3+deb10u1) ... Setting up texlive-base (2018.20190227-2) ... 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/config/pdftexconfig.tex Setting up texlive-plain-generic (2018.20190227-2) ... Setting up texlive-latex-base (2018.20190227-2) ... Setting up texlive-latex-recommended (2018.20190227-2) ... Setting up texlive-pictures (2018.20190227-2) ... Setting up texlive-fonts-recommended (2018.20190227-2) ... Setting up texlive (2018.20190227-2) ... Setting up texlive-latex-extra (2018.20190227-2) ... Setting up rake (12.3.1-3+deb10u1) ... Setting up default-jre-headless (2:1.11-71) ... Setting up libruby2.5:amd64 (2.5.5-3+deb10u3) ... Setting up openjdk-11-jre-headless:amd64 (11.0.12+7-2~deb10u1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up debhelper (12.1.1) ... Setting up openjdk-11-jre:amd64 (11.0.12+7-2~deb10u1) ... Setting up openjdk-11-jdk-headless:amd64 (11.0.12+7-2~deb10u1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/rmic to provide /usr/bin/rmic (rmic) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jaotc to provide /usr/bin/jaotc (jaotc) in auto mode update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre (2:1.11-71) ... Setting up dh-autoreconf (19) ... Setting up default-jdk-headless (2:1.11-71) ... Setting up antlr3 (3.5.2-9) ... Setting up ant (1.10.5-2) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Setting up openjdk-11-jdk:amd64 (11.0.12+7-2~deb10u1) ... update-alternatives: using /usr/lib/jvm/java-11-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up ca-certificates-java (20190405) ... head: cannot open '/etc/ssl/certs/java/cacerts' for reading: No such file or directory Adding debian:thawte_Primary_Root_CA_-_G3.pem Adding debian:thawte_Primary_Root_CA_-_G2.pem Adding debian:thawte_Primary_Root_CA.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G3.pem Adding debian:VeriSign_Universal_Root_Certification_Authority.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G5.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G4.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Taiwan_GRCA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G2.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Secure_Global_CA.pem Adding debian:SecureTrust_CA.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GA_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:LuxTrust_Global_Root_2.pem Adding debian:Izenpe.com.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:ISRG_Root_X1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GeoTrust_Universal_CA_2.pem Adding debian:GeoTrust_Universal_CA.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G3.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem Adding debian:GeoTrust_Primary_Certification_Authority.pem Adding debian:GeoTrust_Global_CA.pem Adding debian:GTS_Root_R4.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R1.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:EE_Certification_Centre_Root_CA.pem Adding debian:EC-ACC.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DST_Root_CA_X3.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certigna.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:ACCVRAIZ1.pem done. Setting up libbytecode-java (0.92.svn.20090106-2) ... Setting up junit4 (4.12-8) ... Setting up ruby2.5 (2.5.5-3+deb10u3) ... Setting up default-jdk (2:1.11-71) ... Setting up ant-optional (1.10.5-2) ... Setting up ruby (1:2.5.1) ... Setting up libbiojava1.7-java (1:1.7.1-8) ... Setting up ruby-text (1.3.0-1) ... Setting up libbiojava-java (1:1.7.1-8) ... Setting up ruby-cassiopee (0.1.13-1) ... Processing triggers for libc-bin (2.28-10) ... Processing triggers for ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. Processing triggers for tex-common (6.11) ... 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. 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/logol-1.7.9/ && 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_1.7.9-1_source.changes dpkg-buildpackage: info: source package logol dpkg-buildpackage: info: source version 1.7.9-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/logol-1.7.9' 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/logol-1.7.9/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/logol-1.7.9' debian/rules override_dh_clean make[1]: Entering directory '/build/logol-1.7.9' 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/logol-1.7.9' debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/logol-1.7.9' 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/logol-1.7.9/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:50:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(ResultFile,argv[2]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:52:4: warning: ignoring return value of 'PL_next_solution', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_next_solution(query); [exec] ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:58:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(File,argv[1]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:62:4: warning: ignoring return value of 'PL_put_integer', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_integer(HeaderSize, header); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:67:4: warning: ignoring return value of 'PL_next_solution', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_next_solution(query); [exec] ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:76:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(LogolFile,argv[6]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:78:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(InFile,argv[1]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:80:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(OutFile,argv[2]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:82:4: warning: ignoring return value of 'PL_put_integer', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_integer(Offset,offset); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:102:4: warning: ignoring return value of 'PL_next_solution', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_next_solution(query); [exec] ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:120:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(ResultFile,argv[2]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:122:4: warning: ignoring return value of 'PL_next_solution', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_next_solution(query); [exec] ^~~~~~~~~~~~~~~~~~~~~~~ [exec] Warning: /build/logol-1.7.9/prolog/sicstus.pl:495: [exec] Singleton variables: [Before,Length,CountPos,CountLength] [exec] ERROR: /build/logol-1.7.9/prolog/logol.pl:7: [exec] catch/3: Undefined procedure: module/3 [exec] However, there are definitions for: [exec] module/1 [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:7: [exec] 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/logol-1.7.9/prolog/logol.pl:206: [exec] Singleton variables: [Max] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:221: [exec] Singleton variables: [Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:304: [exec] Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:304: [exec] Singleton variable in branch: Tmp1 [exec] Singleton variable in branch: Tmp2 [exec] Singleton variable in branch: TmpOutput [exec] Singleton variable in branch: Continue [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:394: [exec] Singleton variables: [SequenceLength] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:408: [exec] Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:434: [exec] Singleton variables: [SequenceLength] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:472: [exec] Singleton variables: [NewPos] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:472: [exec] Singleton variable in branch: NewPos [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:514: [exec] Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:517: [exec] Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:556: [exec] Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:575: [exec] Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:590: [exec] Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:590: [exec] Singleton variable in branch: Tmp1 [exec] Singleton variable in branch: Tmp2 [exec] Singleton variable in branch: IntermediateSpacer [exec] Singleton variable in branch: TmpOutput [exec] Singleton variable in branch: Continue [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:673: [exec] Singleton variables: [InputLength] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:679: [exec] Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:724: [exec] Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:964: [exec] Singleton variables: [Exit] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:993: [exec] Singleton variables: [Word] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1024: [exec] Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1068: [exec] Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1162: [exec] Singleton variables: [Errors] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1266: [exec] Singleton variables: [Morph,Reverse] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1270: [exec] Singleton variables: [Morph] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1281: [exec] Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1317: [exec] Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1341: [exec] Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1645: [exec] Singleton variables: [Name] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2036: [exec] Singleton variables: [Matrix] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2077: [exec] Singleton variables: [Type] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2180: [exec] Singleton variables: [Exit] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2335: [exec] Singleton variables: [FilterPredicate] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2350: [exec] Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2380: [exec] Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2395: [exec] Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2435: [exec] Singleton variables: [Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2435: [exec] Singleton variable in branch: Max [exec] Singleton variable in branch: Z [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2470: [exec] Singleton variables: [VarId] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2498: [exec] Singleton variables: [X,Y,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2516: [exec] Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2534: [exec] Singleton variables: [ALPHABET] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2576: [exec] Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2604: [exec] Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2608: [exec] Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2624: [exec] Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2644: [exec] Singleton variables: [ID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2647: [exec] Singleton variables: [OPTVAR] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2653: [exec] Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2701: [exec] Singleton variables: [DATA] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2752: [exec] Singleton variables: [MATCH] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2755: [exec] Singleton variables: [MATCH] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2758: [exec] Singleton variables: [MATCH] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2761: [exec] Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2766: [exec] Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2769: [exec] Singleton variables: [VAR,VARFOUND] [exec] % halt [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-2600955',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-2600955 >> logol.exe [exec] chmod 755 logol.exe [exec] rm logolSwiMain.o [exec] rm pltmp-2600955 [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:40:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(LogolFile1,argv[1]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:42:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(LogolFile2,argv[1]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:44:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(LogolFile3,argv[1]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:46:4: warning: ignoring return value of 'PL_put_string_chars', declared with attribute warn_unused_result [-Wunused-result] [exec] PL_put_string_chars(LogolFile4,argv[1]); [exec] ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] Warning: /build/logol-1.7.9/prolog/sicstus.pl:495: [exec] Singleton variables: [Before,Length,CountPos,CountLength] [exec] ERROR: /build/logol-1.7.9/prolog/logol.pl:7: [exec] catch/3: Undefined procedure: module/3 [exec] However, there are definitions for: [exec] module/1 [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:7: [exec] 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/logol-1.7.9/prolog/logol.pl:206: [exec] Singleton variables: [Max] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:221: [exec] Singleton variables: [Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:304: [exec] Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:304: [exec] Singleton variable in branch: Tmp1 [exec] Singleton variable in branch: Tmp2 [exec] Singleton variable in branch: TmpOutput [exec] Singleton variable in branch: Continue [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:394: [exec] Singleton variables: [SequenceLength] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:408: [exec] Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:434: [exec] Singleton variables: [SequenceLength] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:472: [exec] Singleton variables: [NewPos] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:472: [exec] Singleton variable in branch: NewPos [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:514: [exec] Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:517: [exec] Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:556: [exec] Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:575: [exec] Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:590: [exec] Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:590: [exec] Singleton variable in branch: Tmp1 [exec] Singleton variable in branch: Tmp2 [exec] Singleton variable in branch: IntermediateSpacer [exec] Singleton variable in branch: TmpOutput [exec] Singleton variable in branch: Continue [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:673: [exec] Singleton variables: [InputLength] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:679: [exec] Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:724: [exec] Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:964: [exec] Singleton variables: [Exit] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:993: [exec] Singleton variables: [Word] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1024: [exec] Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1068: [exec] Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1162: [exec] Singleton variables: [Errors] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1266: [exec] Singleton variables: [Morph,Reverse] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1270: [exec] Singleton variables: [Morph] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1281: [exec] Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1317: [exec] Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1341: [exec] Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:1645: [exec] Singleton variables: [Name] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2036: [exec] Singleton variables: [Matrix] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2077: [exec] Singleton variables: [Type] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2180: [exec] Singleton variables: [Exit] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2335: [exec] Singleton variables: [FilterPredicate] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2350: [exec] Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2380: [exec] Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2395: [exec] Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2435: [exec] Singleton variables: [Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2435: [exec] Singleton variable in branch: Max [exec] Singleton variable in branch: Z [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2470: [exec] Singleton variables: [VarId] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2498: [exec] Singleton variables: [X,Y,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2516: [exec] Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2534: [exec] Singleton variables: [ALPHABET] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2576: [exec] Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2604: [exec] Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2608: [exec] Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2624: [exec] Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2644: [exec] Singleton variables: [ID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2647: [exec] Singleton variables: [OPTVAR] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2653: [exec] Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2701: [exec] Singleton variables: [DATA] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2752: [exec] Singleton variables: [MATCH] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2755: [exec] Singleton variables: [MATCH] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2758: [exec] Singleton variables: [MATCH] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2761: [exec] Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2766: [exec] Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/logol-1.7.9/prolog/logol.pl:2769: [exec] Singleton variables: [VAR,VARFOUND] [exec] % halt [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-2601066',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-2601066 >> preanalyse.exe [exec] chmod 755 preanalyse.exe [exec] rm preSwiMain.o [exec] rm pltmp-2601066 clean: antlr: [java] /build/logol-1.7.9/src/logol.g [java] ANTLR Parser Generator Version 3.5.2 compile: [mkdir] Created dir: /build/logol-1.7.9/bin [javac] /build/logol-1.7.9/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/logol-1.7.9/bin [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] /build/logol-1.7.9/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] 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] 2 warnings create-jar: [jar] Building jar: /build/logol-1.7.9/lib/LogolExec.jar test_swi: [mkdir] Created dir: /build/logol-1.7.9/test/tmp [mkdir] Created dir: /build/logol-1.7.9/test/results [exec] Warning: /build/logol-1.7.9/prolog/unitTest/swi-unit.pl:1: [exec] Singleton variables: [UnitPath,Lib] [exec] Warning: /build/logol-1.7.9/prolog/unitTest/swi-unit.pl:1: [exec] Goal (directive) failed: user:(prolog_flag(argv,[_3572,_3594,_3616,_3638,_3660,_3682,_3704,_3726,_3748,_3770]),ensure_loaded(_3682)) [exec] Warning: /build/logol-1.7.9/prolog/unitTest/swi-unit.pl:5: [exec] Singleton variables: [SicPath,Lib] [exec] Warning: /build/logol-1.7.9/prolog/unitTest/swi-unit.pl:5: [exec] Goal (directive) failed: user:(prolog_flag(argv,[_3572,_3594,_3616,_3638,_3660,_3682,_3704,_3726,_3748,_3770]),ensure_loaded(_3660)) [exec] Welcome to SWI-Prolog (threaded, 64 bits, version 8.0.2) [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 http://www.swi-prolog.org [exec] For built-in help, use ?- help(Topic). or ?- apropos(Word). [exec] [exec] [exec] % halt [junit] Running org.irisa.genouest.logol.test.GrammarTest [junit] Testsuite: org.irisa.genouest.logol.test.GrammarTest [junit] Tests run: 78, Failures: 0, Errors: 0, Skipped: 4, Time elapsed: 17.576 sec [junit] Tests run: 78, Failures: 0, Errors: 0, Skipped: 4, Time elapsed: 17.576 sec [junit] [junit] ------------- Standard Output --------------- [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.dd107e5e-bee1-46f1-bb81-b438c0cf3d2d.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.dd107e5e-bee1-46f1-bb81-b438c0cf3d2d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.logol.dd107e5e-bee1-46f1-bb81-b438c0cf3d2d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/repeat_overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.b5d98bea-6320-4622-bfdd-efce0cee8cc8.1-41.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.b5d98bea-6320-4622-bfdd-efce0cee8cc8.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_overlap.logol.b5d98bea-6320-4622-bfdd-efce0cee8cc8.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/partialcomplement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.ce0d1b5f-768c-4785-982e-8978f0df4450.1005-1035.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/partialcomplement.logol.ce0d1b5f-768c-4785-982e-8978f0df4450.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.ce0d1b5f-768c-4785-982e-8978f0df4450.5-35-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/partialcomplement.logol.ce0d1b5f-768c-4785-982e-8978f0df4450.5-35-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/alphabet.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.46134f37-8325-41d4-b9ce-6a730618d7a5.1-41.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.46134f37-8325-41d4-b9ce-6a730618d7a5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/alphabet.logol.46134f37-8325-41d4-b9ce-6a730618d7a5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/optimal.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.cc3d5cf5-9309-437c-809f-347af0620e58.1-41.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.cc3d5cf5-9309-437c-809f-347af0620e58.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.logol.cc3d5cf5-9309-437c-809f-347af0620e58.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/repeat_startspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.20321cbc-b48d-4ae9-9154-f497dd97336a.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.20321cbc-b48d-4ae9-9154-f497dd97336a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_startspacer.logol.20321cbc-b48d-4ae9-9154-f497dd97336a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.8adc7ae1-a158-4da6-9efe-50c41aa7accc.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.8adc7ae1-a158-4da6-9efe-50c41aa7accc.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/overlap.logol.8adc7ae1-a158-4da6-9efe-50c41aa7accc.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/end.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.26f50978-188a-4f30-b37e-5905688548b9.1-41.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.26f50978-188a-4f30-b37e-5905688548b9.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end.logol.26f50978-188a-4f30-b37e-5905688548b9.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/negcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.0ed5beb7-7154-43bb-a85e-af845b8925de.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.0ed5beb7-7154-43bb-a85e-af845b8925de.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.logol.0ed5beb7-7154-43bb-a85e-af845b8925de.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.0ef74720-2349-414c-af3a-55b2a7f1ab42.1-41.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.0ef74720-2349-414c-af3a-55b2a7f1ab42.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.logol.0ef74720-2349-414c-af3a-55b2a7f1ab42.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/1799.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.375f2653-9267-4717-9ba6-cdff9c435cb7.1-4.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.375f2653-9267-4717-9ba6-cdff9c435cb7.0-4-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1799.logol.375f2653-9267-4717-9ba6-cdff9c435cb7.0-4-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/1800.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.02cf7877-f1b7-4c2d-a5be-5ceae4ae6aea.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.02cf7877-f1b7-4c2d-a5be-5ceae4ae6aea.0-19-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1800.logol.02cf7877-f1b7-4c2d-a5be-5ceae4ae6aea.0-19-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/1806.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.a8636c1e-503d-4f79-8c35-41d4adfbc098.1-41.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.a8636c1e-503d-4f79-8c35-41d4adfbc098.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1806.logol.a8636c1e-503d-4f79-8c35-41d4adfbc098.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.a83c6325-0237-4e10-b6ab-bffcf9a1716c.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.a83c6325-0237-4e10-b6ab-bffcf9a1716c.0-31-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2244.logol.a83c6325-0237-4e10-b6ab-bffcf9a1716c.0-31-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/2235.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.800c1dff-c4fa-4d41-ac6c-ab475cdd3eb7.1-26.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.800c1dff-c4fa-4d41-ac6c-ab475cdd3eb7.0-26-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2235.logol.800c1dff-c4fa-4d41-ac6c-ab475cdd3eb7.0-26-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/2242.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.e73033f6-0ffb-4caf-bfc2-bba4b996027f.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.e73033f6-0ffb-4caf-bfc2-bba4b996027f.0-29-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2242.logol.e73033f6-0ffb-4caf-bfc2-bba4b996027f.0-29-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/2243.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.12c10a4e-5c10-481f-be73-377d7a7b9f6b.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.12c10a4e-5c10-481f-be73-377d7a7b9f6b.0-15-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2243.logol.12c10a4e-5c10-481f-be73-377d7a7b9f6b.0-15-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/fix2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.09f59ac1-21b3-4698-938a-8c6afba1eaa9.1-41.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.09f59ac1-21b3-4698-938a-8c6afba1eaa9.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/fix2244.logol.09f59ac1-21b3-4698-938a-8c6afba1eaa9.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/halt.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.b7337e09-227e-4735-a803-80c2be2ee453.1-41.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.b7337e09-227e-4735-a803-80c2be2ee453.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/halt.logol.b7337e09-227e-4735-a803-80c2be2ee453.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/negcontent2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.07b8c2a4-4bf0-43bb-8bb2-7a8d774f93ce.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.07b8c2a4-4bf0-43bb-8bb2-7a8d774f93ce.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent2.logol.07b8c2a4-4bf0-43bb-8bb2-7a8d774f93ce.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/negcontent3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.0344002f-103a-48a2-8ab0-5d5346bb80cd.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.0344002f-103a-48a2-8ab0-5d5346bb80cd.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent3.logol.0344002f-103a-48a2-8ab0-5d5346bb80cd.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/external.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.6014778f-e49d-4282-a530-accb2dfc819f.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.6014778f-e49d-4282-a530-accb2dfc819f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external.logol.6014778f-e49d-4282-a530-accb2dfc819f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/end_of_stream1.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.7f5922d5-379b-422b-b971-36e9f806553a.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.7f5922d5-379b-422b-b971-36e9f806553a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream1.logol.7f5922d5-379b-422b-b971-36e9f806553a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/end_of_stream2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.1fd017bb-c110-480b-ad45-3c5dcbafb652.1-41.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.1fd017bb-c110-480b-ad45-3c5dcbafb652.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream2.logol.1fd017bb-c110-480b-ad45-3c5dcbafb652.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/metacontrol.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.c7a3d16b-e34e-40d8-a5c7-5e9b1a30fb31.1-41.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.c7a3d16b-e34e-40d8-a5c7-5e9b1a30fb31.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/metacontrol.logol.c7a3d16b-e34e-40d8-a5c7-5e9b1a30fb31.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/view_begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.d479d553-960b-4434-a32f-c040245bf912.1-41.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.d479d553-960b-4434-a32f-c040245bf912.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/view_begin.logol.d479d553-960b-4434-a32f-c040245bf912.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/begin_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.ec70e9d1-d1d8-493b-9bc4-268cc738005f.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.ec70e9d1-d1d8-493b-9bc4-268cc738005f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin_postpone.logol.ec70e9d1-d1d8-493b-9bc4-268cc738005f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/complement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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/complement.logol.0049e8fc-00a1-4f1c-897f-acd7bd9920cd.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.0049e8fc-00a1-4f1c-897f-acd7bd9920cd.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.0049e8fc-00a1-4f1c-897f-acd7bd9920cd.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complement.logol.0049e8fc-00a1-4f1c-897f-acd7bd9920cd.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/protein.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.316c04bd-cead-45b6-9b79-09e06bf73af6.1-23.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.316c04bd-cead-45b6-9b79-09e06bf73af6.0-23-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/protein.logol.316c04bd-cead-45b6-9b79-09e06bf73af6.0-23-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/morphism_var.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.a89d8cc0-c4d3-4a41-a1bb-68e24bad07c5.1-41.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.a89d8cc0-c4d3-4a41-a1bb-68e24bad07c5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism_var.logol.a89d8cc0-c4d3-4a41-a1bb-68e24bad07c5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.e290178a-545d-44d0-9213-14861d493463.1-41.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.e290178a-545d-44d0-9213-14861d493463.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.e290178a-545d-44d0-9213-14861d493463.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/cost_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.7756a9c4-ac27-459d-8a79-b75919358cb9.1-41.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.7756a9c4-ac27-459d-8a79-b75919358cb9.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/cost_postpone.logol.7756a9c4-ac27-459d-8a79-b75919358cb9.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/call_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.778d8681-30b2-44f9-9b59-1757dc9ea669.1-41.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.778d8681-30b2-44f9-9b59-1757dc9ea669.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model.logol.778d8681-30b2-44f9-9b59-1757dc9ea669.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variablewithdistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.fb0c0647-38bd-45c4-989e-938994994106.1-41.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.fb0c0647-38bd-45c4-989e-938994994106.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance.logol.fb0c0647-38bd-45c4-989e-938994994106.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-1.7.9/test/optimal.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.432ed7e2-29ca-4b48-ad2d-82f90d05546b.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.432ed7e2-29ca-4b48-ad2d-82f90d05546b.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.432ed7e2-29ca-4b48-ad2d-82f90d05546b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.lgd.432ed7e2-29ca-4b48-ad2d-82f90d05546b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variablewitherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.f273ff3a-c8ec-436a-935e-130f290a76c5.1-41.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.f273ff3a-c8ec-436a-935e-130f290a76c5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherror.logol.f273ff3a-c8ec-436a-935e-130f290a76c5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-1.7.9/test/anyspacer.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.b157f82e-2ddc-475b-9518-c5166d6e6323.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.b157f82e-2ddc-475b-9518-c5166d6e6323.1-41.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.b157f82e-2ddc-475b-9518-c5166d6e6323.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.lgd.b157f82e-2ddc-475b-9518-c5166d6e6323.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-1.7.9/test/all.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.28078bb7-dc18-4faa-9d85-24d271606d9a.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] 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.28078bb7-dc18-4faa-9d85-24d271606d9a.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.28078bb7-dc18-4faa-9d85-24d271606d9a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.lgd.28078bb7-dc18-4faa-9d85-24d271606d9a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/repeat_any.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.95f9390c-627b-4515-996c-332229dcf98d.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.95f9390c-627b-4515-996c-332229dcf98d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_any.logol.95f9390c-627b-4515-996c-332229dcf98d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/comment2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.21fc848d-211e-498c-98de-ca01ba025c12.1-41.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.21fc848d-211e-498c-98de-ca01ba025c12.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment2.logol.21fc848d-211e-498c-98de-ca01ba025c12.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-1.7.9/test/negcontent.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.3b48cd88-4367-45c3-b8cc-8c94fe2ad1fe.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.3b48cd88-4367-45c3-b8cc-8c94fe2ad1fe.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.3b48cd88-4367-45c3-b8cc-8c94fe2ad1fe.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.lgd.3b48cd88-4367-45c3-b8cc-8c94fe2ad1fe.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/parent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.9a42d04e-e27c-4d10-a0d0-be5f0a2d4781.1-41.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.9a42d04e-e27c-4d10-a0d0-be5f0a2d4781.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror.logol.9a42d04e-e27c-4d10-a0d0-be5f0a2d4781.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/parent_exact.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.c956917d-7775-4722-9c50-9277d815407e.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.c956917d-7775-4722-9c50-9277d815407e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_exact.logol.c956917d-7775-4722-9c50-9277d815407e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/all.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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/all.logol.9f9247ee-365a-4bf7-857d-f3bdb3ab0c75.1-41.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.9f9247ee-365a-4bf7-857d-f3bdb3ab0c75.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.logol.9f9247ee-365a-4bf7-857d-f3bdb3ab0c75.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variable_unknown.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.c14e5293-b9cc-4165-9b27-d1532fdedb25.1-41.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.c14e5293-b9cc-4165-9b27-d1532fdedb25.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_unknown.logol.c14e5293-b9cc-4165-9b27-d1532fdedb25.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/morphism.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.30bec9a9-ce2c-42b8-a2d6-0379b5cba3e4.1-41.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.30bec9a9-ce2c-42b8-a2d6-0379b5cba3e4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.logol.30bec9a9-ce2c-42b8-a2d6-0379b5cba3e4.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/or_condition2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.c659c997-3e9f-4b0b-a97f-2ede9c000e9d.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.c659c997-3e9f-4b0b-a97f-2ede9c000e9d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition2.logol.c659c997-3e9f-4b0b-a97f-2ede9c000e9d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/comment.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.2f13dc02-80ea-4904-9d18-452c1b452464.1-41.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.2f13dc02-80ea-4904-9d18-452c1b452464.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment.logol.2f13dc02-80ea-4904-9d18-452c1b452464.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-1.7.9/test/variable.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.515a029e-3b6f-4de8-9bd9-55481d2c9c0c.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.515a029e-3b6f-4de8-9bd9-55481d2c9c0c.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.515a029e-3b6f-4de8-9bd9-55481d2c9c0c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.lgd.515a029e-3b6f-4de8-9bd9-55481d2c9c0c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/call_model2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.b691c68d-497b-48c6-b55e-fe8950162817.1-41.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.b691c68d-497b-48c6-b55e-fe8950162817.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model2.logol.b691c68d-497b-48c6-b55e-fe8950162817.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/call_model3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.00eb4fec-29e1-4703-b69d-7c9941fd6c1e.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.00eb4fec-29e1-4703-b69d-7c9941fd6c1e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model3.logol.00eb4fec-29e1-4703-b69d-7c9941fd6c1e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/call_model4.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.efcf49e1-fe97-4f86-a151-4b500daec474.1-41.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.efcf49e1-fe97-4f86-a151-4b500daec474.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model4.logol.efcf49e1-fe97-4f86-a151-4b500daec474.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/repeat0.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.049b2e0f-0588-462a-b479-462e2f84644d.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.049b2e0f-0588-462a-b479-462e2f84644d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat0.logol.049b2e0f-0588-462a-b479-462e2f84644d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/reverse.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.8ff79f69-2285-45da-bcd9-f1fe5636c6eb.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.8ff79f69-2285-45da-bcd9-f1fe5636c6eb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/reverse.logol.8ff79f69-2285-45da-bcd9-f1fe5636c6eb.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variable_postcontent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.b79e54b7-5bae-4baf-bcd5-7bf630231d63.1-41.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.b79e54b7-5bae-4baf-bcd5-7bf630231d63.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent_witherror.logol.b79e54b7-5bae-4baf-bcd5-7bf630231d63.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variablewitherroranddistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.1a42e096-0fbe-4239-8d38-bf481289c621.1-41.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.1a42e096-0fbe-4239-8d38-bf481289c621.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherroranddistance.logol.1a42e096-0fbe-4239-8d38-bf481289c621.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/complex.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.e309edcf-7067-4a51-be1a-0436a6dcd86c.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.e309edcf-7067-4a51-be1a-0436a6dcd86c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complex.logol.e309edcf-7067-4a51-be1a-0436a6dcd86c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variablewithdistance2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.decb7ee8-949c-4390-b16e-3e779fad81aa.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.decb7ee8-949c-4390-b16e-3e779fad81aa.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance2.logol.decb7ee8-949c-4390-b16e-3e779fad81aa.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variable_postcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.d8b9dfa1-9278-4cfd-8fc2-7e4302548ce8.1-41.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.d8b9dfa1-9278-4cfd-8fc2-7e4302548ce8.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent.logol.d8b9dfa1-9278-4cfd-8fc2-7e4302548ce8.0-41-all.xml [junit] cgttttgggg [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/multiple_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.1218ca6b-a033-4a34-9ea7-9e8396bb581e.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.1218ca6b-a033-4a34-9ea7-9e8396bb581e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/multiple_model.logol.1218ca6b-a033-4a34-9ea7-9e8396bb581e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.b2b6aec3-8e3e-4bbf-9af4-5eabcf6fcd4a.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.b2b6aec3-8e3e-4bbf-9af4-5eabcf6fcd4a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.b2b6aec3-8e3e-4bbf-9af4-5eabcf6fcd4a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.b2b6aec3-8e3e-4bbf-9af4-5eabcf6fcd4a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-1.7.9/test/begin.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.4962ff0a-23a0-441b-a82d-25808cb65141.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.4962ff0a-23a0-441b-a82d-25808cb65141.1-41.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.4962ff0a-23a0-441b-a82d-25808cb65141.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.lgd.4962ff0a-23a0-441b-a82d-25808cb65141.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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/variable.logol.55172bfd-644e-41ad-a63e-0ccc3342d5a2.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.55172bfd-644e-41ad-a63e-0ccc3342d5a2.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.55172bfd-644e-41ad-a63e-0ccc3342d5a2.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.55172bfd-644e-41ad-a63e-0ccc3342d5a2.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/mycost.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.91239f47-3b20-4968-b764-548af1396e29.1-41.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.91239f47-3b20-4968-b764-548af1396e29.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/mycost.logol.91239f47-3b20-4968-b764-548af1396e29.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-1.7.9/test/morphism.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.9aec3718-edc2-466e-8e1a-299e5bd82e96.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.9aec3718-edc2-466e-8e1a-299e5bd82e96.1-41.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.9aec3718-edc2-466e-8e1a-299e5bd82e96.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.lgd.9aec3718-edc2-466e-8e1a-299e5bd82e96.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/repeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.e6a425b3-c10a-4200-bbde-ee2be3d97394.1-41.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.e6a425b3-c10a-4200-bbde-ee2be3d97394.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat.logol.e6a425b3-c10a-4200-bbde-ee2be3d97394.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/parent_witherror2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.7828286e-96d8-4183-a5cd-e5bac19b250b.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.7828286e-96d8-4183-a5cd-e5bac19b250b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror2.logol.7828286e-96d8-4183-a5cd-e5bac19b250b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/external2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.df885f9d-708e-45c9-8c1c-0a31ddab7fba.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.df885f9d-708e-45c9-8c1c-0a31ddab7fba.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external2.logol.df885f9d-708e-45c9-8c1c-0a31ddab7fba.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/repeat_interspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.65484f74-b558-45e2-953e-c2c17aa99063.1-41.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.65484f74-b558-45e2-953e-c2c17aa99063.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_interspacer.logol.65484f74-b558-45e2-953e-c2c17aa99063.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/notview.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.276f149e-09ea-4ba8-91a6-574539562dc5.1-41.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.276f149e-09ea-4ba8-91a6-574539562dc5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notview.logol.276f149e-09ea-4ba8-91a6-574539562dc5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/repeat_anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.efad10b9-e3cd-4a3e-93cc-efbc4df8127c.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.efad10b9-e3cd-4a3e-93cc-efbc4df8127c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_anyspacer.logol.efad10b9-e3cd-4a3e-93cc-efbc4df8127c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/notrepeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.9139746f-9736-43b9-a121-e0ce93a4ff36.1-41.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.9139746f-9736-43b9-a121-e0ce93a4ff36.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notrepeat.logol.9139746f-9736-43b9-a121-e0ce93a4ff36.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-1.7.9/test/or_condition.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-1.7.9/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.f0321543-0517-4119-b25d-40dd10bbda9a.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.f0321543-0517-4119-b25d-40dd10bbda9a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition.logol.f0321543-0517-4119-b25d-40dd10bbda9a.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:298) [junit] at java.base/java.io.FileOutputStream.(FileOutputStream.java:237) [junit] at java.base/java.io.FileOutputStream.(FileOutputStream.java:158) [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:62) [junit] at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) [junit] at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:490) [junit] at org.junit.runners.BlockJUnit4ClassRunner.createTest(BlockJUnit4ClassRunner.java:217) [junit] at org.junit.runners.BlockJUnit4ClassRunner$1.runReflectiveCall(BlockJUnit4ClassRunner.java:266) [junit] at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) [junit] at org.junit.runners.BlockJUnit4ClassRunner.methodBlock(BlockJUnit4ClassRunner.java:268) [junit] at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:78) [junit] at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:57) [junit] at org.junit.runners.ParentRunner$3.run(ParentRunner.java:290) [junit] at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:71) [junit] at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:288) [junit] at org.junit.runners.ParentRunner.access$000(ParentRunner.java:58) [junit] at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:268) [junit] at org.junit.runners.ParentRunner.run(ParentRunner.java:363) [junit] at junit.framework.JUnit4TestAdapter.run(JUnit4TestAdapter.java:38) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.run(JUnitTestRunner.java:534) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.launch(JUnitTestRunner.java:1196) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.main(JUnitTestRunner.java:1041) [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: 27 seconds mkdir -p test/tmp test/results ant -f build.xml doc Buildfile: /build/logol-1.7.9/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. doc: [exec] This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) [exec] restricted \write18 enabled. 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[exec] [18] (./logol.aux) [exec] [exec] Package rerunfilecheck Warning: File `logol.out' has changed. [exec] (rerunfilecheck) Rerun to get outlines right [exec] (rerunfilecheck) or use package `bookmark'. [exec] [exec] [exec] LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. [exec] [exec] ) [exec] (see the transcript file for additional information){/usr/share/texlive/texmf-d [exec] ist/fonts/enc/dvips/base/8r.enc} [exec] Output written on logol.pdf (18 pages, 95872 bytes). [exec] Transcript written on logol.log. BUILD SUCCESSFUL Total time: 2 seconds rm -f prolog/process.so chrpath -d prolog/logol.exe chrpath -d prolog/preanalyse.exe make[1]: Leaving directory '/build/logol-1.7.9' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_installdirs dh_auto_install debian/rules override_dh_install make[1]: Entering directory '/build/logol-1.7.9' 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/logol-1.7.9' dh_installdocs dh_installchangelogs debian/rules override_dh_installexamples make[1]: Entering directory '/build/logol-1.7.9' rm -f test/tmp/* rm -f test/results/* dh_installexamples make[1]: Leaving directory '/build/logol-1.7.9' dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing debian/rules override_dh_strip make[1]: Entering directory '/build/logol-1.7.9' dh_strip -Xlogol.exe -Xpreanalyse.exe make[1]: Leaving directory '/build/logol-1.7.9' 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_1.7.9-1_amd64.deb'. dpkg-deb: building package 'logol' in '../logol_1.7.9-1_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../logol_1.7.9-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: 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/2561471 and its subdirectories I: Current time: Sat Jan 7 19:17:37 -12 2023 I: pbuilder-time-stamp: 1673162257