Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/l/logol/logol_1.7.9+dfsg-5_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/logol-1.7.9+dfsg-5ptikui38/logol_1.7.9+dfsg-5_all.buildinfo Get source package info: logol=1.7.9+dfsg-5 Source URL: http://snapshot.notset.fr/mr/package/logol/1.7.9+dfsg-5/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=ant=1.10.12-1 ant-optional=1.10.12-1 antlr3=3.5.2-9 autoconf=2.71-2 automake=1:1.16.5-1.3 autopoint=0.21-6 autotools-dev=20220109.1 base-files=12.2 base-passwd=3.5.52 bash=5.1-6 binutils=2.38-3 binutils-common=2.38-3 binutils-x86-64-linux-gnu=2.38-3 bsdextrautils=2.37.3-1+b1 bsdutils=1:2.37.3-1+b1 build-essential=12.9 bzip2=1.0.8-5 ca-certificates=20211016 ca-certificates-java=20190909 cassiopee=1.0.9-3+b2 chrpath=0.16-2+b1 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-19 dash=0.5.11+git20210903+057cd650a4ed-8 debconf=1.5.79 debhelper=13.6 debianutils=5.7-0.1 default-jdk=2:1.11-72 default-jdk-headless=2:1.11-72 default-jre=2:1.11-72 default-jre-headless=2:1.11-72 dh-autoreconf=20 dh-strip-nondeterminism=1.13.0-1 diffutils=1:3.7-5 dpkg=1.21.7 dpkg-dev=1.21.7 dwz=0.14-1 file=1:5.41-3 findutils=4.9.0-2 fontconfig-config=2.13.1-4.4 fonts-dejavu-core=2.37-2 fonts-lmodern=2.005-1 g++=4:11.2.0-2 g++-11=11.2.0-19 gawk=1:5.1.0-1 gcc=4:11.2.0-2 gcc-11=11.2.0-19 gcc-11-base=11.2.0-19 gcc-12-base=12-20220319-1 gettext=0.21-6 gettext-base=0.21-6 grep=3.7-1 groff-base=1.22.4-8 gzip=1.12-1 hostname=3.23 init-system-helpers=1.62 intltool-debian=0.35.0+20060710.5 java-common=0.72 junit4=4.13.2-1 libacl1=2.3.1-1 libactivation-java=1.2.0-2 libantlr3-runtime-java=3.5.2-9 libapache-pom-java=18-1 libarchive-zip-perl=1.68-1 libarchive13=3.6.0-1 libasan6=11.2.0-19 libasound2=1.2.6.1-2+b1 libasound2-data=1.2.6.1-2 libatinject-jsr330-api-java=1.0+ds1-5 libatomic1=12-20220319-1 libattr1=1:2.5.1-1 libaudit-common=1:3.0.7-1 libaudit1=1:3.0.7-1+b1 libavahi-client3=0.8-5 libavahi-common-data=0.8-5 libavahi-common3=0.8-5 libbinutils=2.38-3 libbiojava-java=1:1.9.5+dfsg-2 libbiojava1.9-java=1:1.9.5+dfsg-2 libblkid1=2.37.3-1+b1 libboost-serialization1.74.0=1.74.0-14 libbrotli1=1.0.9-2+b3 libbsd0=0.11.6-1 libbz2-1.0=1.0.8-5 libc-bin=2.33-7 libc-dev-bin=2.33-7 libc6=2.33-7 libc6-dev=2.33-7 libcairo2=1.16.0-5 libcap-ng0=0.7.9-2.2+b2 libcap2=1:2.44-1 libcassie1v5=1.0.9-3+b2 libcc1-0=12-20220319-1 libcom-err2=1.46.5-2 libcommons-cli-java=1.4-2 libcommons-collections3-java=3.2.2-2 libcommons-configuration-java=1.10-5 libcommons-dbcp-java=1.4-7 libcommons-lang-java=2.6-9 libcommons-logging-java=1.2-2 libcommons-parent-java=43-1 libcommons-pool-java=1.6-4 libcrypt-dev=1:4.4.27-1.1 libcrypt1=1:4.4.27-1.1 libctf-nobfd0=2.38-3 libctf0=2.38-3 libcups2=2.4.1op1-2 libdb5.3=5.3.28+dfsg1-0.8 libdbus-1-3=1.14.0-1 libdebconfclient0=0.261 libdebhelper-perl=13.6 libdpkg-perl=1.21.7 libdrm-amdgpu1=2.4.110-1 libdrm-common=2.4.110-1 libdrm-intel1=2.4.110-1 libdrm-nouveau2=2.4.110-1 libdrm-radeon1=2.4.110-1 libdrm2=2.4.110-1 libedit2=3.1-20210910-1 libelf1=0.186-1 libexpat1=2.4.8-1 libffi8=3.4.2-4 libfile-stripnondeterminism-perl=1.13.0-1 libfontbox-java=1:1.8.16-2 libfontconfig1=2.13.1-4.4 libfreetype6=2.11.1+dfsg-1 libgcc-11-dev=11.2.0-19 libgcc-s1=12-20220319-1 libgcrypt20=1.10.1-2 libgdbm-compat4=1.23-1 libgdbm6=1.23-1 libgflags2.2=2.2.2-2 libgif7=5.1.9-2 libgl1=1.4.0-1 libgl1-mesa-dri=21.3.8-1 libglapi-mesa=21.3.8-1 libglib2.0-0=2.72.0-1+b1 libglvnd0=1.4.0-1 libglx-mesa0=21.3.8-1 libglx0=1.4.0-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.3-4+b1 libgomp1=12-20220319-1 libgoogle-glog0v6=0.6.0-1 libgpg-error0=1.43-3 libgraphite2-3=1.3.14-1 libgssapi-krb5-2=1.19.2-2+b1 libguava-java=29.0-6 libhamcrest-java=1.3-9 libharfbuzz0b=2.7.4-1 libhogweed6=3.7.3-1 libice6=2:1.0.10-1 libicu67=67.1-7 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=12-20220319-1 libjgraph-java=5.12.4.2+dfsg-5.1 libjgrapht0.8-java=0.8.3-5 libjpeg62-turbo=1:2.1.2-1 libjsr305-java=0.1~+svn49-11 libk5crypto3=1.19.2-2+b1 libkeyutils1=1.6.1-3 libkpathsea6=2021.20210626.59705-1 libkrb5-3=1.19.2-2+b1 libkrb5support0=1.19.2-2+b1 liblcms2-2=2.12~rc1-2 libllvm13=1:13.0.1-3+b2 liblog4j1.2-java=1.2.17-11 liblsan0=12-20220319-1 liblz4-1=1.9.3-2 liblzma5=5.2.5-2.1 libmagic-mgc=1:5.41-3 libmagic1=1:5.41-3 libmail-java=1.6.5-1 libmd0=1.0.4-1 libmount1=2.37.3-1+b1 libmpc3=1.2.1-2 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncursesw6=6.3-2 libnettle8=3.7.3-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnspr4=2:4.33-1 libnss3=2:3.77-1 libossp-uuid16=1.6.2-1.5+b10 libp11-kit0=0.24.0-6 libpam-modules=1.4.0-11 libpam-modules-bin=1.4.0-11 libpam-runtime=1.4.0-11 libpam0g=1.4.0-11 libpaper-utils=1.1.28+b1 libpaper1=1.1.28+b1 libpciaccess0=0.16-3 libpcre2-8-0=10.39-3 libpcre3=2:8.39-14 libpcsclite1=1.9.5-3 libpdfbox-java=1:1.8.16-2 libperl5.34=5.34.0-4 libpipeline1=1.5.5-1 libpixman-1-0=0.40.0-1 libpng16-16=1.6.37-3 libptexenc1=2021.20210626.59705-1 libpython3-stdlib=3.10.4-1 libpython3.10-minimal=3.10.4-3 libpython3.10-stdlib=3.10.4-3 libquadmath0=12-20220319-1 libreadline8=8.1.2-1 libruby3.0=3.0.3-1 libseccomp2=2.5.3-2 libselinux1=3.3-1+b2 libsensors-config=1:3.6.0-7 libsensors5=1:3.6.0-7 libsigsegv2=2.14-1 libsm6=2:1.2.3-1 libsmartcols1=2.37.3-1+b1 libsqlite3-0=3.38.2-1 libssl1.1=1.1.1n-1 libstdc++-11-dev=11.2.0-19 libstdc++6=12-20220319-1 libstringtemplate4-java=4.0.8-2.1 libsub-override-perl=0.09-2 libsynctex2=2021.20210626.59705-1 libsystemd0=250.4-1 libtasn1-6=4.18.0-4 libtcmalloc-minimal4=2.9.1-1 libteckit0=2.5.11+ds1-1 libtexlua53=2021.20210626.59705-1 libtexluajit2=2021.20210626.59705-1 libtinfo6=6.3-2 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.7-3 libtsan0=11.2.0-19 libubsan1=12-20220319-1 libuchardet0=0.0.7-1 libudev1=250.4-1 libunistring2=1.0-1 libunwind8=1.3.2-2 libuuid1=2.37.3-1+b1 libvulkan1=1.3.204.1-2 libx11-6=2:1.7.5-1 libx11-data=2:1.7.5-1 libx11-xcb1=2:1.7.5-1 libxalan2-java=2.7.2-4 libxau6=1:1.0.9-1 libxaw7=2:1.0.14-1 libxcb-dri2-0=1.14-3 libxcb-dri3-0=1.14-3 libxcb-glx0=1.14-3 libxcb-present0=1.14-3 libxcb-render0=1.14-3 libxcb-shm0=1.14-3 libxcb-sync1=1.14-3 libxcb-xfixes0=1.14-3 libxcb1=1.14-3 libxdmcp6=1:1.1.2-3 libxerces2-java=2.12.1-1 libxext6=2:1.3.4-1 libxfixes3=1:6.0.0-1 libxft2=2.3.4-1 libxi6=2:1.8-1 libxml-commons-external-java=1.4.01-5 libxml-commons-resolver1.1-java=1.2-11 libxml2=2.9.13+dfsg-1 libxmu6=2:1.1.3-3 libxpm4=1:3.5.12-1 libxrender1=1:0.9.10-1 libxshmfence1=1.3-1 libxt6=1:1.2.1-1 libxtst6=2:1.2.3-1 libxxf86vm1=1:1.1.4-1+b2 libyaml-0-2=0.2.2-1 libz3-4=4.8.12-1+b1 libzstd1=1.4.10+dfsg-1 libzzip-0-13=0.13.72+dfsg.1-1.1 linux-libc-dev=5.16.18-1 login=1:4.11.1+dfsg1-2 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.10.2-1 mawk=1.3.4.20200120-3+b1 media-types=7.1.0 ncurses-base=6.3-2 ncurses-bin=6.3-2 openjdk-11-jdk=11.0.14.1+1-1 openjdk-11-jdk-headless=11.0.14.1+1-1 openjdk-11-jre=11.0.14.1+1-1 openjdk-11-jre-headless=11.0.14.1+1-1 openssl=1.1.1n-1 patch=2.7.6-7 perl=5.34.0-4 perl-base=5.34.0-4 perl-modules-5.34=5.34.0-4 po-debconf=1.0.21+nmu1 preview-latex-style=12.2-1 python3=3.10.4-1 python3-minimal=3.10.4-1 python3.10=3.10.4-3 python3.10-minimal=3.10.4-3 rake=13.0.6-3 readline-common=8.1.2-1 rpcsvc-proto=1.4.2-4 ruby=1:3.0+1 ruby-cassiopee=0.1.13-1 ruby-net-telnet=0.1.1-2 ruby-rubygems=3.3.5-2 ruby-text=1.3.1-1 ruby-xmlrpc=0.3.2-1 ruby3.0=3.0.3-1 rubygems-integration=1.18 sed=4.8-1 sensible-utils=0.0.17 swi-prolog=8.4.2+dfsg-2 swi-prolog-core=8.4.2+dfsg-2 swi-prolog-core-packages=8.4.2+dfsg-2 swi-prolog-doc=8.4.2+dfsg-2 swi-prolog-nox=8.4.2+dfsg-2 swi-prolog-x=8.4.2+dfsg-2 sysvinit-utils=3.01-1 t1utils=1.41-4 tar=1.34+dfsg-1 tex-common=6.17 texlive=2021.20220204-1 texlive-base=2021.20220204-1 texlive-binaries=2021.20210626.59705-1 texlive-fonts-recommended=2021.20220204-1 texlive-latex-base=2021.20220204-1 texlive-latex-extra=2021.20220204-1 texlive-latex-recommended=2021.20220204-1 texlive-pictures=2021.20220204-1 texlive-plain-generic=2021.20220204-1 ucf=3.0043 util-linux=2.37.3-1+b1 x11-common=1:7.7+23 xdg-utils=1.1.3-4.1 xz-utils=5.2.5-2.1 zlib1g=1:1.2.11.dfsg-4 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220411T212101Z/ unstable main deb-src http://snapshot.notset.fr/archive/debian/20220411T212101Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220411T155650Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220411T092602Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d logol=1.7.9+dfsg-5 && mkdir -p /build/logol-me68yE && dpkg-source --no-check -x /*.dsc /build/logol-me68yE/logol-1.7.9+dfsg && chown -R builduser:builduser /build/logol-me68yE" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/logol-me68yE/logol-1.7.9+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1649687933" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/logol-me68yE /tmp/logol-1.7.9+dfsg-5ptikui38 bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20220411T092602Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.AyS2YH3tjS as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.AyS2YH3tjS Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.3-1+b1). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 135 kB of archives. After this operation, 406 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20220411T092602Z unstable/main amd64 libfakeroot amd64 1.28-1 [48.2 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220411T092602Z unstable/main amd64 fakeroot amd64 1.28-1 [87.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 135 kB in 0s (1051 kB/s) Selecting previously unselected package libfakeroot: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 ... 4701 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.28-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.28-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.28-1_amd64.deb ... Unpacking fakeroot (1.28-1) ... Setting up libfakeroot:amd64 (1.28-1) ... Setting up fakeroot (1.28-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.33-7) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220411T212101Z/ unstable main deb-src http://snapshot.notset.fr/archive/debian/20220411T212101Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220411T155650Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220411T092602Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.AyS2YH3tjS Get:1 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable InRelease [165 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220411T155650Z unstable InRelease [165 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20220411T092602Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main Sources [12.9 MB] Get:5 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main amd64 Packages [12.4 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20220411T155650Z unstable/main amd64 Packages Err:6 http://snapshot.notset.fr/archive/debian/20220411T155650Z unstable/main amd64 Packages 404 Not Found [IP: 10.13.0.253 80] Ign:6 http://snapshot.notset.fr/archive/debian/20220411T155650Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20220411T155650Z unstable/main amd64 Packages [12.4 MB] Fetched 37.9 MB in 31s (1216 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.AyS2YH3tjS I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d logol=1.7.9+dfsg-5 && mkdir -p /build/logol-me68yE && dpkg-source --no-check -x /*.dsc /build/logol-me68yE/logol-1.7.9+dfsg && chown -R builduser:builduser /build/logol-me68yE"' exec /tmp/mmdebstrap.AyS2YH3tjS Reading package lists... NOTICE: 'logol' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/logol.git Please use: git clone https://salsa.debian.org/med-team/logol.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2502 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main logol 1.7.9+dfsg-5 (dsc) [2404 B] Get:2 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main logol 1.7.9+dfsg-5 (tar) [2486 kB] Get:3 http://snapshot.notset.fr/archive/debian/20220411T212101Z unstable/main logol 1.7.9+dfsg-5 (diff) [13.3 kB] Fetched 2502 kB in 2s (1271 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'logol_1.7.9+dfsg-5.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting logol in /build/logol-me68yE/logol-1.7.9+dfsg dpkg-source: info: unpacking logol_1.7.9+dfsg.orig.tar.xz dpkg-source: info: unpacking logol_1.7.9+dfsg-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying remove_drmaa_support dpkg-source: info: applying fixLibPath dpkg-source: info: applying setDebianDirs dpkg-source: info: applying fix_doc_generation dpkg-source: info: applying remove_rubygems_usage dpkg-source: info: applying fix_antlr35 dpkg-source: info: applying fix_swipl_declarations dpkg-source: info: applying fix_swipl_foreign_load dpkg-source: info: applying remove_test dpkg-source: info: applying fix_biojava_paths_in_scripts.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/logol-me68yE/logol-1.7.9+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1649687933" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.AyS2YH3tjS dpkg-buildpackage: info: source package logol dpkg-buildpackage: info: source version 1.7.9+dfsg-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/logol-me68yE/logol-1.7.9+dfsg' if [ ! -e test/tmp ]; then mkdir -p test/tmp; fi if [ ! -e test/results ]; then mkdir -p test/results; fi if [ -e prolog/process.so ]; then rm -f prolog/process.so; fi dh_auto_clean ant clean Buildfile: /build/logol-me68yE/logol-1.7.9+dfsg/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. clean: BUILD SUCCESSFUL Total time: 0 seconds make[1]: Leaving directory '/build/logol-me68yE/logol-1.7.9+dfsg' debian/rules override_dh_clean make[1]: Entering directory '/build/logol-me68yE/logol-1.7.9+dfsg' if [ -e tools/pldoc.sty.upstream ]; then mv tools/pldoc.sty.upstream tools/pldoc.sty; fi if [ ! -e test/tmp ]; then mkdir -p test/tmp; fi if [ ! -e test/results ]; then mkdir -p test/results; fi dh_clean rm -f Swi*.xml rm -f prolog/*.exe rm -f lib/*.jar rm -f *.log rm -f src/org/irisa/genouest/logol/parser/* rm -f tools/suffixSearch.sh rm -rf test/tmp rm -rf test/results make[1]: Leaving directory '/build/logol-me68yE/logol-1.7.9+dfsg' debian/rules binary-indep dh binary-indep dh_update_autotools_config -i dh_autoreconf -i dh_auto_configure -i debian/rules override_dh_auto_build make[1]: Entering directory '/build/logol-me68yE/logol-1.7.9+dfsg' if [ ! -e lib ]; then mkdir -p lib; fi if [ ! -e prolog/process.so ]; then ln -s /usr/lib/swi-prolog/lib/x86_64-linux/process.so prolog/process.so; fi mv tools/pldoc.sty tools/pldoc.sty.upstream dh_auto_build -- -Dant.build.javac.source=1.5 -Dant.build.javac.target=1.5 ant -Duser.name debian -Dant.build.javac.source=1.5 -Dant.build.javac.target=1.5 Buildfile: /build/logol-me68yE/logol-1.7.9+dfsg/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. updatemod: setup: compile_swi_exe: [exec] PLBASE="/usr/lib/swi-prolog" [exec] PLARCH="x86_64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/x86_64-linux" [exec] PLLIB="-lswipl" [exec] PLTHREADS="yes" [exec] logolSwiMain.c: In function ‘main’: [exec] logolSwiMain.c:50:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 50 | PL_put_string_chars(ResultFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:52:18: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 52 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:58:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 58 | PL_put_string_chars(File,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:62:18: warning: ignoring return value of ‘PL_put_integer’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 62 | PL_put_integer(HeaderSize, header); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:67:18: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 67 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:76:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 76 | PL_put_string_chars(LogolFile,argv[6]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:78:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 78 | PL_put_string_chars(InFile,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:80:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 80 | PL_put_string_chars(OutFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:82:18: warning: ignoring return value of ‘PL_put_integer’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 82 | PL_put_integer(Offset,offset); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:102:18: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 102 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:120:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 120 | PL_put_string_chars(ResultFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:122:18: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 122 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/sicstus.pl:495: [exec] Warning: Singleton variables: [Before,Length,CountPos,CountLength] [exec] ERROR: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] ERROR: catch/3: Unknown procedure: module/3 [exec] ERROR: However, there are definitions for: [exec] ERROR: module/1 [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] Warning: Goal (directive) failed: user:module(logol,[writeFinalMatches/0,isMin/5,replaceMatch/4,appendMatch/3,getCounter/1,config/1,optimalmatch/5,matchstore/2,isMax/3,parseResults/2,checkAlphabetPercentage/3,mapListExact/2,mapListGlobal/2,mapListLocal/2,mapListLocal0/2,matchExist/2,mapModels/3,notpred_pos/6,between/3,notexact_pos/6,notexact/3,matchExist/1,mapModels/2,mapList/2,mydb/1,matchlist/2,isexactwithgaponly/5,isexactwithgaponly_pos/5,setParent/2,getParent/2,logData/2,logolMain/5,cut_sequence/3,isequal/2,isexact_pos/4,isexactwithgapanderror_pos/5,isexactwitherroronly_pos/5,spacer_withresult_pos/5,wordSize_pos/4,wordContent_pos/4,checkPosition_pos/4,anySpacer_pos/7,repeatPredicate_pos/14,testOverlap_pos/5,getsuffixmatch_pos/12,getWordContent/4,openSequenceStream/2,closeSequenceStream/0,getCharsFromPosition/3,getNChar/3,resetParamList/3,getKnownVariables/2,getPosition/3,myCost/4,getDistance/3,initResultFile/1,closeResultFile/1,getParentVariable/2,is4me/5,outputfile/1,writeallresult/2,maxsize/1,getresult/2,offset/1,setSequence/2,computeCost/2,getsuffixmatch/12,writeSequence/2,sequenceData/3,suffixmatch/9,repeatPredicate/14,anySpacer/5,anySpacer/7,any/2,isoverlap/5,morphism/3,spacer_withresult/5,isexact/3,isexact/4,isexact/5,isexactwithgapanderror/4,isexactwithgapanderror/5,isexactwitherroronly/4,isexactwitherroronly/5,matrix/3,iscompequal/2,getcomplement/2,getreversecomplement/2,applymorphism/4,checkCost/4,cost/4,parentalCost/4,varDefinition/5,saveVariable/8,getVariable/9,removeVariable/1,wordSize/3,wordSize/4,percent/3,percent2int/3,checkCost/4,checkCost/5,checkPosition/3,checkPosition/5,checkRelativePosition/4,getContent/3,getContent/4,pushResult/2,countAlphabet/4,isexactwithdistinctgapanderror_pos/7,logolShell/1,cassiopee_pos/14,cassiopee/11],[]) [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:206: [exec] Warning: Singleton variables: [Max] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:221: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:394: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:408: [exec] Warning: Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:434: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variables: [NewPos] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variable in branch: NewPos [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:514: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:517: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:556: [exec] Warning: Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:575: [exec] Warning: Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: IntermediateSpacer [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:673: [exec] Warning: Singleton variables: [InputLength] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:679: [exec] Warning: Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:724: [exec] Warning: Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:964: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:993: [exec] Warning: Singleton variables: [Word] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1024: [exec] Warning: Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1068: [exec] Warning: Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1162: [exec] Warning: Singleton variables: [Errors] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1266: [exec] Warning: Singleton variables: [Morph,Reverse] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1270: [exec] Warning: Singleton variables: [Morph] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1281: [exec] Warning: Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1317: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1341: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1645: [exec] Warning: Singleton variables: [Name] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2036: [exec] Warning: Singleton variables: [Matrix] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2077: [exec] Warning: Singleton variables: [Type] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2180: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2335: [exec] Warning: Singleton variables: [FilterPredicate] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2350: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2380: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2395: [exec] Warning: Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variable in branch: Max [exec] Warning: Singleton variable in branch: Z [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2470: [exec] Warning: Singleton variables: [VarId] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2498: [exec] Warning: Singleton variables: [X,Y,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2516: [exec] Warning: Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2534: [exec] Warning: Singleton variables: [ALPHABET] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2576: [exec] Warning: Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2604: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2608: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2624: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2644: [exec] Warning: Singleton variables: [ID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2647: [exec] Warning: Singleton variables: [OPTVAR] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2653: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2701: [exec] Warning: Singleton variables: [DATA] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2752: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2755: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2758: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2761: [exec] Warning: Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2766: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2769: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] % Disabled autoloading (loaded 41 files) [exec] % Disabled autoloading (loaded 3 files) [exec] % Disabled autoloading (loaded 0 files) [exec] eval `swipl --dump-runtime-variables` [exec] /usr/bin/cc -c -D_REENTRANT -D__SWI_PROLOG__ -D__SWI_EMBEDDED__ -I/usr/lib/swi-prolog/include -o logolSwiMain.o logolSwiMain.c [exec] /usr/bin/cc -o logol.exe -Wl,-rpath=/usr/lib/swi-prolog/lib/x86_64-linux logolSwiMain.o -L/usr/lib/swi-prolog/lib/x86_64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-1881990',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-1881990 >> logol.exe [exec] chmod 755 logol.exe [exec] rm logolSwiMain.o [exec] rm pltmp-1881990 [exec] % halt [exec] PLBASE="/usr/lib/swi-prolog" [exec] PLARCH="x86_64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/x86_64-linux" [exec] PLLIB="-lswipl" [exec] PLTHREADS="yes" [exec] preSwiMain.c: In function ‘main’: [exec] preSwiMain.c:40:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 40 | PL_put_string_chars(LogolFile1,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:42:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 42 | PL_put_string_chars(LogolFile2,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:44:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 44 | PL_put_string_chars(LogolFile3,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:46:18: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 46 | PL_put_string_chars(LogolFile4,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/sicstus.pl:495: [exec] Warning: Singleton variables: [Before,Length,CountPos,CountLength] [exec] ERROR: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] ERROR: catch/3: Unknown procedure: module/3 [exec] ERROR: However, there are definitions for: [exec] ERROR: module/1 [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:7: [exec] Warning: Goal (directive) failed: user:module(logol,[writeFinalMatches/0,isMin/5,replaceMatch/4,appendMatch/3,getCounter/1,config/1,optimalmatch/5,matchstore/2,isMax/3,parseResults/2,checkAlphabetPercentage/3,mapListExact/2,mapListGlobal/2,mapListLocal/2,mapListLocal0/2,matchExist/2,mapModels/3,notpred_pos/6,between/3,notexact_pos/6,notexact/3,matchExist/1,mapModels/2,mapList/2,mydb/1,matchlist/2,isexactwithgaponly/5,isexactwithgaponly_pos/5,setParent/2,getParent/2,logData/2,logolMain/5,cut_sequence/3,isequal/2,isexact_pos/4,isexactwithgapanderror_pos/5,isexactwitherroronly_pos/5,spacer_withresult_pos/5,wordSize_pos/4,wordContent_pos/4,checkPosition_pos/4,anySpacer_pos/7,repeatPredicate_pos/14,testOverlap_pos/5,getsuffixmatch_pos/12,getWordContent/4,openSequenceStream/2,closeSequenceStream/0,getCharsFromPosition/3,getNChar/3,resetParamList/3,getKnownVariables/2,getPosition/3,myCost/4,getDistance/3,initResultFile/1,closeResultFile/1,getParentVariable/2,is4me/5,outputfile/1,writeallresult/2,maxsize/1,getresult/2,offset/1,setSequence/2,computeCost/2,getsuffixmatch/12,writeSequence/2,sequenceData/3,suffixmatch/9,repeatPredicate/14,anySpacer/5,anySpacer/7,any/2,isoverlap/5,morphism/3,spacer_withresult/5,isexact/3,isexact/4,isexact/5,isexactwithgapanderror/4,isexactwithgapanderror/5,isexactwitherroronly/4,isexactwitherroronly/5,matrix/3,iscompequal/2,getcomplement/2,getreversecomplement/2,applymorphism/4,checkCost/4,cost/4,parentalCost/4,varDefinition/5,saveVariable/8,getVariable/9,removeVariable/1,wordSize/3,wordSize/4,percent/3,percent2int/3,checkCost/4,checkCost/5,checkPosition/3,checkPosition/5,checkRelativePosition/4,getContent/3,getContent/4,pushResult/2,countAlphabet/4,isexactwithdistinctgapanderror_pos/7,logolShell/1,cassiopee_pos/14,cassiopee/11],[]) [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:206: [exec] Warning: Singleton variables: [Max] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:221: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:304: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:394: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:408: [exec] Warning: Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:434: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variables: [NewPos] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:472: [exec] Warning: Singleton variable in branch: NewPos [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:514: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:517: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:556: [exec] Warning: Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:575: [exec] Warning: Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:590: [exec] Warning: Singleton variable in branch: Tmp1 [exec] Warning: Singleton variable in branch: Tmp2 [exec] Warning: Singleton variable in branch: IntermediateSpacer [exec] Warning: Singleton variable in branch: TmpOutput [exec] Warning: Singleton variable in branch: Continue [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:673: [exec] Warning: Singleton variables: [InputLength] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:679: [exec] Warning: Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:724: [exec] Warning: Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:964: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:993: [exec] Warning: Singleton variables: [Word] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1024: [exec] Warning: Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1068: [exec] Warning: Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1162: [exec] Warning: Singleton variables: [Errors] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1266: [exec] Warning: Singleton variables: [Morph,Reverse] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1270: [exec] Warning: Singleton variables: [Morph] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1281: [exec] Warning: Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1317: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1341: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:1645: [exec] Warning: Singleton variables: [Name] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2036: [exec] Warning: Singleton variables: [Matrix] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2077: [exec] Warning: Singleton variables: [Type] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2180: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2335: [exec] Warning: Singleton variables: [FilterPredicate] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2350: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2380: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2395: [exec] Warning: Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2435: [exec] Warning: Singleton variable in branch: Max [exec] Warning: Singleton variable in branch: Z [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2470: [exec] Warning: Singleton variables: [VarId] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2498: [exec] Warning: Singleton variables: [X,Y,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2516: [exec] Warning: Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2534: [exec] Warning: Singleton variables: [ALPHABET] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2576: [exec] Warning: Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2604: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2608: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2624: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2644: [exec] Warning: Singleton variables: [ID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2647: [exec] Warning: Singleton variables: [OPTVAR] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2653: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2701: [exec] Warning: Singleton variables: [DATA] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2752: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2755: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2758: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2761: [exec] Warning: Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2766: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/logol.pl:2769: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] % Disabled autoloading (loaded 41 files) [exec] % Disabled autoloading (loaded 3 files) [exec] % Disabled autoloading (loaded 0 files) [exec] eval `swipl --dump-runtime-variables` [exec] /usr/bin/cc -c -D_REENTRANT -D__SWI_PROLOG__ -D__SWI_EMBEDDED__ -I/usr/lib/swi-prolog/include -o preSwiMain.o preSwiMain.c [exec] /usr/bin/cc -o preanalyse.exe -Wl,-rpath=/usr/lib/swi-prolog/lib/x86_64-linux preSwiMain.o -L/usr/lib/swi-prolog/lib/x86_64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-1882013',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-1882013 >> preanalyse.exe [exec] chmod 755 preanalyse.exe [exec] rm preSwiMain.o [exec] rm pltmp-1882013 [exec] % halt clean: antlr: [java] /build/logol-me68yE/logol-1.7.9+dfsg/src/logol.g [java] ANTLR Parser Generator Version 3.5.2 compile: [mkdir] Created dir: /build/logol-me68yE/logol-1.7.9+dfsg/bin [javac] /build/logol-me68yE/logol-1.7.9+dfsg/build.xml:91: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds [javac] Compiling 62 source files to /build/logol-me68yE/logol-1.7.9+dfsg/bin [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] /build/logol-me68yE/logol-1.7.9+dfsg/src/org/irisa/genouest/logol/test/GrammarTest.java:1995: warning: unreachable catch clause [javac] } catch (IOException e) { [javac] ^ [javac] thrown type FileNotFoundException has already been caught [javac] 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-me68yE/logol-1.7.9+dfsg/lib/LogolExec.jar test_swi: [mkdir] Created dir: /build/logol-me68yE/logol-1.7.9+dfsg/test/tmp [mkdir] Created dir: /build/logol-me68yE/logol-1.7.9+dfsg/test/results [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:1: [exec] Warning: Singleton variables: [UnitPath,Lib] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:1: [exec] Warning: Goal (directive) failed: user:(prolog_flag(argv,[_7014,_7036,_7058,_7080,_7102,_7124,_7146,_7168,_7190,_7212]),ensure_loaded(_7124)) [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:5: [exec] Warning: Singleton variables: [SicPath,Lib] [exec] Warning: /build/logol-me68yE/logol-1.7.9+dfsg/prolog/unitTest/swi-unit.pl:5: [exec] Warning: Goal (directive) failed: user:(prolog_flag(argv,[_8850,_8872,_8894,_8916,_8938,_8960,_8982,_9004,_9026,_9048]),ensure_loaded(_8938)) [exec] Welcome to SWI-Prolog (threaded, 64 bits, version 8.4.2) [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 https://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: 32.196 sec [junit] Tests run: 78, Failures: 0, Errors: 0, Skipped: 4, Time elapsed: 32.196 sec [junit] [junit] ------------- Standard Output --------------- [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/anyspacer.logol.71534d49-1f0e-4024-a5e7-0793494f0523.1-41.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.71534d49-1f0e-4024-a5e7-0793494f0523.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.logol.71534d49-1f0e-4024-a5e7-0793494f0523.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/repeat_overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_overlap.logol.046f0253-0bda-40aa-bbe7-e494e1eed2f1.1-41.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.046f0253-0bda-40aa-bbe7-e494e1eed2f1.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_overlap.logol.046f0253-0bda-40aa-bbe7-e494e1eed2f1.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/partialcomplement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.Logol - option offset called with 1000 [junit] INFO org.irisa.genouest.logol.Logol - option start called with 5 [junit] INFO org.irisa.genouest.logol.Logol - option end called with 35 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] 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/partialcomplement.logol.8b21df61-ae49-46dc-9ccc-0c3a50c6a1a0.1005-1035.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/partialcomplement.logol.8b21df61-ae49-46dc-9ccc-0c3a50c6a1a0.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.8b21df61-ae49-46dc-9ccc-0c3a50c6a1a0.5-35-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/partialcomplement.logol.8b21df61-ae49-46dc-9ccc-0c3a50c6a1a0.5-35-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/alphabet.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/alphabet.logol.3f346a32-2ce6-4c37-a88d-8ae95542ae68.1-41.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.3f346a32-2ce6-4c37-a88d-8ae95542ae68.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/alphabet.logol.3f346a32-2ce6-4c37-a88d-8ae95542ae68.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/optimal.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/optimal.logol.c7282ac0-f5a7-4dae-bc04-b2865da317c0.1-41.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.c7282ac0-f5a7-4dae-bc04-b2865da317c0.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.logol.c7282ac0-f5a7-4dae-bc04-b2865da317c0.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/repeat_startspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_startspacer.logol.df8bae83-60bc-442f-a144-2aad00eebf4b.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.df8bae83-60bc-442f-a144-2aad00eebf4b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_startspacer.logol.df8bae83-60bc-442f-a144-2aad00eebf4b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/overlap.logol.ea6304ed-c317-475c-9716-941aee7877c5.1-41.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.ea6304ed-c317-475c-9716-941aee7877c5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/overlap.logol.ea6304ed-c317-475c-9716-941aee7877c5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/end.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end.logol.55ab1e0c-42be-4489-afb1-f95ca63914b8.1-41.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.55ab1e0c-42be-4489-afb1-f95ca63914b8.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end.logol.55ab1e0c-42be-4489-afb1-f95ca63914b8.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/negcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent.logol.75262423-fd00-4c90-baad-a023904bc237.1-41.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.75262423-fd00-4c90-baad-a023904bc237.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.logol.75262423-fd00-4c90-baad-a023904bc237.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/begin.logol.d5235c48-ab37-470d-9972-28d03efee2d6.1-41.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.d5235c48-ab37-470d-9972-28d03efee2d6.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.logol.d5235c48-ab37-470d-9972-28d03efee2d6.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/1799.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/1799.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1799.logol.646b91c3-32d1-4f1c-8914-cf6bee38a652.1-4.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.646b91c3-32d1-4f1c-8914-cf6bee38a652.0-4-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1799.logol.646b91c3-32d1-4f1c-8914-cf6bee38a652.0-4-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/1800.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/1800.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1800.logol.631e1cdc-f08b-4ef9-95d7-0f44d6cc9de5.1-19.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.631e1cdc-f08b-4ef9-95d7-0f44d6cc9de5.0-19-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1800.logol.631e1cdc-f08b-4ef9-95d7-0f44d6cc9de5.0-19-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/1806.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1806.logol.b48c750f-b915-44e9-b6f2-d3e8cb52d353.1-41.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.b48c750f-b915-44e9-b6f2-d3e8cb52d353.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1806.logol.b48c750f-b915-44e9-b6f2-d3e8cb52d353.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2244.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2244.logol.e4ad2c12-6f7b-44f4-94a2-b4779eeebd0c.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.e4ad2c12-6f7b-44f4-94a2-b4779eeebd0c.0-31-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2244.logol.e4ad2c12-6f7b-44f4-94a2-b4779eeebd0c.0-31-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2235.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2235.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2235.logol.648ea537-2f96-41ae-a617-84a5dbd1ed30.1-26.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.648ea537-2f96-41ae-a617-84a5dbd1ed30.0-26-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2235.logol.648ea537-2f96-41ae-a617-84a5dbd1ed30.0-26-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2242.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2242.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2242.logol.b1f17af0-89d1-4ac1-9817-c468efd79da0.1-29.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.b1f17af0-89d1-4ac1-9817-c468efd79da0.0-29-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2242.logol.b1f17af0-89d1-4ac1-9817-c468efd79da0.0-29-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2243.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/2243.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2243.logol.c0abc5fb-778a-4dbf-8572-1da3896f9c37.1-15.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.c0abc5fb-778a-4dbf-8572-1da3896f9c37.0-15-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2243.logol.c0abc5fb-778a-4dbf-8572-1da3896f9c37.0-15-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/fix2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/fix2244.logol.d4c8b7ae-203f-4624-9203-7b328a457df3.1-41.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.d4c8b7ae-203f-4624-9203-7b328a457df3.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/fix2244.logol.d4c8b7ae-203f-4624-9203-7b328a457df3.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/halt.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/halt.logol.de855d58-f27f-4a21-b724-4ffaf394d1e0.1-41.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.de855d58-f27f-4a21-b724-4ffaf394d1e0.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/halt.logol.de855d58-f27f-4a21-b724-4ffaf394d1e0.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/negcontent2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent2.logol.2ed1a532-5802-467f-b13c-396c4f34687c.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.2ed1a532-5802-467f-b13c-396c4f34687c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent2.logol.2ed1a532-5802-467f-b13c-396c4f34687c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/negcontent3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent3.logol.4156e6d0-e027-4dbc-8a5e-cdc9095aec31.1-41.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.4156e6d0-e027-4dbc-8a5e-cdc9095aec31.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent3.logol.4156e6d0-e027-4dbc-8a5e-cdc9095aec31.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/external.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/external.logol.c8a601fd-4c40-43e3-95d0-10393422bb47.1-41.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.c8a601fd-4c40-43e3-95d0-10393422bb47.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external.logol.c8a601fd-4c40-43e3-95d0-10393422bb47.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/end_of_stream1.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end_of_stream1.logol.52b37805-8fc0-43ef-b420-545c1e393f35.1-41.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.52b37805-8fc0-43ef-b420-545c1e393f35.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream1.logol.52b37805-8fc0-43ef-b420-545c1e393f35.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/end_of_stream2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end_of_stream2.logol.77a99ac2-74cd-4c42-813b-2441aa3f5239.1-41.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.77a99ac2-74cd-4c42-813b-2441aa3f5239.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream2.logol.77a99ac2-74cd-4c42-813b-2441aa3f5239.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/metacontrol.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/metacontrol.logol.1df975d5-cd7e-4885-b657-78a435250d7d.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.1df975d5-cd7e-4885-b657-78a435250d7d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/metacontrol.logol.1df975d5-cd7e-4885-b657-78a435250d7d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/view_begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/view_begin.logol.64677e18-85b7-47f3-bcc9-7702dd9578f0.1-41.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.64677e18-85b7-47f3-bcc9-7702dd9578f0.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/view_begin.logol.64677e18-85b7-47f3-bcc9-7702dd9578f0.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/begin_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/begin_postpone.logol.a8ae82ea-91aa-4830-915d-3444c4485c80.1-41.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.a8ae82ea-91aa-4830-915d-3444c4485c80.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin_postpone.logol.a8ae82ea-91aa-4830-915d-3444c4485c80.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/complement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.bb4ed556-ced8-404e-a053-4d81c67d14ac.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.bb4ed556-ced8-404e-a053-4d81c67d14ac.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.bb4ed556-ced8-404e-a053-4d81c67d14ac.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complement.logol.bb4ed556-ced8-404e-a053-4d81c67d14ac.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/protein.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/protein.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option protein called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/protein.logol.456f18da-843e-4d59-95ca-b428f21c445c.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.456f18da-843e-4d59-95ca-b428f21c445c.0-23-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/protein.logol.456f18da-843e-4d59-95ca-b428f21c445c.0-23-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/morphism_var.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/morphism_var.logol.3b7f42b1-5b6f-4dc2-bbaf-4f93b9cebf4a.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.3b7f42b1-5b6f-4dc2-bbaf-4f93b9cebf4a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism_var.logol.3b7f42b1-5b6f-4dc2-bbaf-4f93b9cebf4a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.2aeb3e5a-3c46-43d6-9c0b-3b0ef08ade51.1-41.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.2aeb3e5a-3c46-43d6-9c0b-3b0ef08ade51.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.2aeb3e5a-3c46-43d6-9c0b-3b0ef08ade51.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/cost_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/cost_postpone.logol.4c70aa87-dc26-4b8a-a0d5-9c204547f91c.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.4c70aa87-dc26-4b8a-a0d5-9c204547f91c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/cost_postpone.logol.4c70aa87-dc26-4b8a-a0d5-9c204547f91c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/call_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model.logol.81ead68c-a85e-458b-94f9-fa36aaf14533.1-41.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.81ead68c-a85e-458b-94f9-fa36aaf14533.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model.logol.81ead68c-a85e-458b-94f9-fa36aaf14533.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variablewithdistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewithdistance.logol.aa2b8e75-fe0a-4ce9-a434-d4201a91adc5.1-41.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.aa2b8e75-fe0a-4ce9-a434-d4201a91adc5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance.logol.aa2b8e75-fe0a-4ce9-a434-d4201a91adc5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-me68yE/logol-1.7.9+dfsg/test/optimal.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR1)==>LOGOLVAR2%mydata%:{?"aaaa"},LOGOLVAR3%X1%:{#OPT[2,8]} [junit] mod1(LOGOLVAR4)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/optimal.lgd.feb4aff1-c14d-4e51-82d4-7ee09a7fb459.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.feb4aff1-c14d-4e51-82d4-7ee09a7fb459.1-41.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.feb4aff1-c14d-4e51-82d4-7ee09a7fb459.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.lgd.feb4aff1-c14d-4e51-82d4-7ee09a7fb459.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variablewitherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewitherror.logol.095fc432-2270-4f47-93e0-516503887f5e.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.095fc432-2270-4f47-93e0-516503887f5e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherror.logol.095fc432-2270-4f47-93e0-516503887f5e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-me68yE/logol-1.7.9+dfsg/test/anyspacer.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR4)==>LOGOLVAR5%X1%:{@[0,20]},"ccc" [junit] mod1(LOGOLVAR6)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/anyspacer.lgd.51f918ee-25c1-4105-bf80-e3b0e999c8dd.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.51f918ee-25c1-4105-bf80-e3b0e999c8dd.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.51f918ee-25c1-4105-bf80-e3b0e999c8dd.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.lgd.51f918ee-25c1-4105-bf80-e3b0e999c8dd.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-me68yE/logol-1.7.9+dfsg/test/all.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR6)==>"ccc",.*,"ccc" [junit] mod1(LOGOLVAR7)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/all.lgd.8887486e-b616-4f69-9f8d-111efbec73da.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.8887486e-b616-4f69-9f8d-111efbec73da.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.8887486e-b616-4f69-9f8d-111efbec73da.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.lgd.8887486e-b616-4f69-9f8d-111efbec73da.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/repeat_any.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_any.logol.b07d6fcc-91ab-4dbe-bece-11c6f2fb160e.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.b07d6fcc-91ab-4dbe-bece-11c6f2fb160e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_any.logol.b07d6fcc-91ab-4dbe-bece-11c6f2fb160e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/comment2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/comment2.logol.25b39a56-41e3-4573-9c2f-ab6d3fc8fb4d.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.25b39a56-41e3-4573-9c2f-ab6d3fc8fb4d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment2.logol.25b39a56-41e3-4573-9c2f-ab6d3fc8fb4d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-me68yE/logol-1.7.9+dfsg/test/negcontent.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR7)==>"aaaa",! "cgta":{#[3,5]} [junit] mod1(LOGOLVAR8)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/negcontent.lgd.a685f604-d822-412c-b799-bedc95c1d17f.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.a685f604-d822-412c-b799-bedc95c1d17f.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.a685f604-d822-412c-b799-bedc95c1d17f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.lgd.a685f604-d822-412c-b799-bedc95c1d17f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/parent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_witherror.logol.92dbdde7-c407-4a30-8463-cb0e9f5c3936.1-41.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.92dbdde7-c407-4a30-8463-cb0e9f5c3936.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror.logol.92dbdde7-c407-4a30-8463-cb0e9f5c3936.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/parent_exact.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_exact.logol.b9425a4f-03c4-42f3-93fe-2c9d24b93f7d.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.b9425a4f-03c4-42f3-93fe-2c9d24b93f7d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_exact.logol.b9425a4f-03c4-42f3-93fe-2c9d24b93f7d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/all.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/all.logol.5e52d1f2-f495-4040-b3fc-80bcf644fcff.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.5e52d1f2-f495-4040-b3fc-80bcf644fcff.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.logol.5e52d1f2-f495-4040-b3fc-80bcf644fcff.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variable_unknown.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_unknown.logol.05999af8-9269-47d4-a0c7-ff708d5503fc.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.05999af8-9269-47d4-a0c7-ff708d5503fc.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_unknown.logol.05999af8-9269-47d4-a0c7-ff708d5503fc.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/morphism.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/morphism.logol.b097a111-6519-476f-b586-699428ab321d.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.b097a111-6519-476f-b586-699428ab321d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.logol.b097a111-6519-476f-b586-699428ab321d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/or_condition2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/or_condition2.logol.ba3691b9-7837-45cd-8e4c-ec4573e05754.1-41.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.ba3691b9-7837-45cd-8e4c-ec4573e05754.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition2.logol.ba3691b9-7837-45cd-8e4c-ec4573e05754.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/comment.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/comment.logol.7816626b-e6cb-4827-8e41-0316066ce85a.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.7816626b-e6cb-4827-8e41-0316066ce85a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment.logol.7816626b-e6cb-4827-8e41-0316066ce85a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variable.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR8)==>"aaa","acgt":{_LOGOLVAR9%R1%},?LOGOLVAR9%R1% [junit] mod1(LOGOLVAR10)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/variable.lgd.461f3a64-367d-4587-b1dc-9114e8e09905.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.461f3a64-367d-4587-b1dc-9114e8e09905.1-41.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.461f3a64-367d-4587-b1dc-9114e8e09905.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.lgd.461f3a64-367d-4587-b1dc-9114e8e09905.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/call_model2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model2.logol.f7299375-3609-4e16-85bd-71ebb9fc8dae.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.f7299375-3609-4e16-85bd-71ebb9fc8dae.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model2.logol.f7299375-3609-4e16-85bd-71ebb9fc8dae.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/call_model3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model3.logol.2a23c59f-4d37-401f-8cb1-fad1922ce36a.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.2a23c59f-4d37-401f-8cb1-fad1922ce36a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model3.logol.2a23c59f-4d37-401f-8cb1-fad1922ce36a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/call_model4.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model4.logol.732f429c-2769-4c88-96c2-b6b0da7742c3.1-41.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.732f429c-2769-4c88-96c2-b6b0da7742c3.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model4.logol.732f429c-2769-4c88-96c2-b6b0da7742c3.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/repeat0.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat0.logol.3f20ea11-8ff2-4808-912b-0f9992864aa9.1-41.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.3f20ea11-8ff2-4808-912b-0f9992864aa9.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat0.logol.3f20ea11-8ff2-4808-912b-0f9992864aa9.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/reverse.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/reverse.logol.b68716c2-279b-4c5e-9a13-3b6497a32e1b.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.b68716c2-279b-4c5e-9a13-3b6497a32e1b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/reverse.logol.b68716c2-279b-4c5e-9a13-3b6497a32e1b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variable_postcontent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_postcontent_witherror.logol.5b763539-84e6-4b5b-b6f8-f8353562e117.1-41.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.5b763539-84e6-4b5b-b6f8-f8353562e117.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent_witherror.logol.5b763539-84e6-4b5b-b6f8-f8353562e117.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variablewitherroranddistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewitherroranddistance.logol.c8135121-ac63-4b66-ac1d-66b13c81b0f4.1-41.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.c8135121-ac63-4b66-ac1d-66b13c81b0f4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherroranddistance.logol.c8135121-ac63-4b66-ac1d-66b13c81b0f4.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/complex.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complex.logol.a31fe03a-9096-415c-b79c-8d93f7e1661f.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.a31fe03a-9096-415c-b79c-8d93f7e1661f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complex.logol.a31fe03a-9096-415c-b79c-8d93f7e1661f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variablewithdistance2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewithdistance2.logol.6cb64626-745a-483c-9b39-5bcccea40991.1-41.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.6cb64626-745a-483c-9b39-5bcccea40991.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance2.logol.6cb64626-745a-483c-9b39-5bcccea40991.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variable_postcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_postcontent.logol.bb2fd277-508d-407a-991a-3a8db0d74a9a.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.bb2fd277-508d-407a-991a-3a8db0d74a9a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent.logol.bb2fd277-508d-407a-991a-3a8db0d74a9a.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-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/multiple_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/multiple_model.logol.50844381-4bf1-4cd3-85a3-1181c41387c1.1-41.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.50844381-4bf1-4cd3-85a3-1181c41387c1.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/multiple_model.logol.50844381-4bf1-4cd3-85a3-1181c41387c1.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.c086d7bf-30b9-46bf-9b30-a5e8db8fc24e.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.c086d7bf-30b9-46bf-9b30-a5e8db8fc24e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.c086d7bf-30b9-46bf-9b30-a5e8db8fc24e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.c086d7bf-30b9-46bf-9b30-a5e8db8fc24e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-me68yE/logol-1.7.9+dfsg/test/begin.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR10)==>"aaaa",.*,LOGOLVAR11%X1%:{@[10,12],#[2,8]} [junit] mod1(LOGOLVAR12)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/begin.lgd.b8bfa70d-24ee-4ba9-9062-b5394e7a14d7.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.b8bfa70d-24ee-4ba9-9062-b5394e7a14d7.1-41.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.b8bfa70d-24ee-4ba9-9062-b5394e7a14d7.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.lgd.b8bfa70d-24ee-4ba9-9062-b5394e7a14d7.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.7e302dba-49ae-46f6-b512-60875bdc8964.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.7e302dba-49ae-46f6-b512-60875bdc8964.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.7e302dba-49ae-46f6-b512-60875bdc8964.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.7e302dba-49ae-46f6-b512-60875bdc8964.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/mycost.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/mycost.logol.3ef8bebf-a064-44d7-8959-0d52b0631968.1-41.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.3ef8bebf-a064-44d7-8959-0d52b0631968.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/mycost.logol.3ef8bebf-a064-44d7-8959-0d52b0631968.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-me68yE/logol-1.7.9+dfsg/test/morphism.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR12)==>"aaa",+"wc" "tgca" [junit] mod1(LOGOLVAR13)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/morphism.lgd.3e7ab53a-ce9b-472e-b5df-64d32e551278.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.3e7ab53a-ce9b-472e-b5df-64d32e551278.1-41.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.3e7ab53a-ce9b-472e-b5df-64d32e551278.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.lgd.3e7ab53a-ce9b-472e-b5df-64d32e551278.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/repeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat.logol.50e73a42-74be-41b9-948c-0f71dcc08e3d.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.50e73a42-74be-41b9-948c-0f71dcc08e3d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat.logol.50e73a42-74be-41b9-948c-0f71dcc08e3d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/parent_witherror2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_witherror2.logol.7cd17078-cca4-408b-b188-47a41fe652a4.1-41.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.7cd17078-cca4-408b-b188-47a41fe652a4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror2.logol.7cd17078-cca4-408b-b188-47a41fe652a4.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/external2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/external2.logol.a795d54d-315a-49c6-b715-a39f93cb1703.1-41.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.a795d54d-315a-49c6-b715-a39f93cb1703.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external2.logol.a795d54d-315a-49c6-b715-a39f93cb1703.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/repeat_interspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_interspacer.logol.c6c2fb38-5ff5-4ba8-9a9d-4321f1ee1ceb.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.c6c2fb38-5ff5-4ba8-9a9d-4321f1ee1ceb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_interspacer.logol.c6c2fb38-5ff5-4ba8-9a9d-4321f1ee1ceb.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/notview.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/notview.logol.4fec0906-12d5-4d92-86fe-442f9a08f8f2.1-41.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.4fec0906-12d5-4d92-86fe-442f9a08f8f2.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notview.logol.4fec0906-12d5-4d92-86fe-442f9a08f8f2.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/repeat_anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_anyspacer.logol.37a2b80c-e470-4951-abe9-72d42af504be.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.37a2b80c-e470-4951-abe9-72d42af504be.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_anyspacer.logol.37a2b80c-e470-4951-abe9-72d42af504be.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/notrepeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/notrepeat.logol.1c9640d4-37ea-4004-9377-ab37ea2613c8.1-41.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.1c9640d4-37ea-4004-9377-ab37ea2613c8.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notrepeat.logol.1c9640d4-37ea-4004-9377-ab37ea2613c8.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-me68yE/logol-1.7.9+dfsg/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-me68yE/logol-1.7.9+dfsg/test/or_condition.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-me68yE/logol-1.7.9+dfsg/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/or_condition.logol.48f7ea47-56a5-4608-a0b9-4572e78bc6cb.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.48f7ea47-56a5-4608-a0b9-4572e78bc6cb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition.logol.48f7ea47-56a5-4608-a0b9-4572e78bc6cb.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:250) [junit] at org.junit.runners.BlockJUnit4ClassRunner.createTest(BlockJUnit4ClassRunner.java:260) [junit] at org.junit.runners.BlockJUnit4ClassRunner$2.runReflectiveCall(BlockJUnit4ClassRunner.java:309) [junit] at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) [junit] at org.junit.runners.BlockJUnit4ClassRunner.methodBlock(BlockJUnit4ClassRunner.java:311) [junit] at org.junit.runners.BlockJUnit4ClassRunner$1.evaluate(BlockJUnit4ClassRunner.java:100) [junit] at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:366) [junit] at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:103) [junit] at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:63) [junit] at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331) [junit] at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79) [junit] at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329) [junit] at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66) [junit] at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293) [junit] at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) [junit] at org.junit.runners.ParentRunner.run(ParentRunner.java:413) [junit] at junit.framework.JUnit4TestAdapter.run(JUnit4TestAdapter.java:50) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.run(JUnitTestRunner.java:535) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.launch(JUnitTestRunner.java:1197) [junit] at org.apache.tools.ant.taskdefs.optional.junit.JUnitTestRunner.main(JUnitTestRunner.java:1042) [junit] line 4:0 missing NEWLINE at 'mod2' [junit] line 4:0 missing NEWLINE at 'mod2' [junit] line 4:0 missing NEWLINE at 'mod2' [junit] ------------- ---------------- --------------- [junit] Testcase: testAmbiguous(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is [junit] Testcase: testVMatch2(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is [junit] Testcase: testVMatch3(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is [junit] Testcase: testVMatch(org.irisa.genouest.logol.test.GrammarTest):SKIPPED: got: , expected: is BUILD SUCCESSFUL Total time: 43 seconds mkdir -p test/tmp test/results ant -f build.xml doc Buildfile: /build/logol-me68yE/logol-1.7.9+dfsg/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. doc: [exec] This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdflatex) [exec] restricted \write18 enabled. [exec] entering extended mode [exec] (./logol.tex [exec] LaTeX2e <2021-11-15> patch level 1 [exec] L3 programming layer <2022-01-21> [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls [exec] Document Class: article 2021/10/04 v1.4n Standard LaTeX document class [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/size11.clo)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) [exec] (/usr/share/texmf/tex/latex/swi-prolog/pldoc.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/iftex/ifpdf.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref-langpatches.def) [exec] (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty) [exec] (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) [exec] (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty [exec] (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty))) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) [exec] (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) [exec] (/usr/share/texlive/texmf-dist/tex/latex/a4wide/a4wide.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/ntgclass/a4.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tabulary/tabulary.sty [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)) [exec] (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/dcolumn.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/tools/calc.sty) [exec] (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty [exec] ! Missing \endcsname inserted. [exec] [exec] \protect [exec] l.535 \define@key{FV}{file_ext}[.tex] [exec] {\def\FancyVerbFileExtension{#1}} [exec] ? [exec] ! Emergency stop. [exec] [exec] \protect [exec] l.535 \define@key{FV}{file_ext}[.tex] [exec] {\def\FancyVerbFileExtension{#1}} [exec] ! ==> Fatal error occurred, no output PDF file produced! [exec] Transcript written on logol.log. [exec] mv: cannot stat 'logol.pdf': No such file or directory [exec] Result: 1 BUILD SUCCESSFUL Total time: 3 seconds rm -f prolog/process.so chrpath -d prolog/logol.exe chrpath -d prolog/preanalyse.exe make[1]: Leaving directory '/build/logol-me68yE/logol-1.7.9+dfsg' dh_auto_test -i create-stamp debian/debhelper-build-stamp dh_prep -i dh_installdirs -i dh_auto_install -i debian/rules override_dh_install make[1]: Entering directory '/build/logol-me68yE/logol-1.7.9+dfsg' dh_install rm -f debian/logol/usr/share/logol/prolog/*.c rm -f debian/logol/usr/share/logol/prolog/*.exe rm -f debian/logol/usr/share/logol/prolog/logol.properties rm -f debian/logol/usr/share/logol/tools/*.keep_old_script if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/*.sh; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/*.sh; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/*.rb; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/mycostfunction; fi if [ ! -e debian/logol-bin/usr/share/logol/prolog ]; then mkdir -p debian/logol-bin/usr/share/logol/prolog; fi ln -s /usr/lib/swi-prolog/lib/x86_64-linux/process.so debian/logol-bin/usr/share/logol/prolog/process.so make[1]: Leaving directory '/build/logol-me68yE/logol-1.7.9+dfsg' dh_installdocs -i dh_installchangelogs -i debian/rules override_dh_installexamples make[1]: Entering directory '/build/logol-me68yE/logol-1.7.9+dfsg' rm -f test/tmp/* rm -f test/results/* dh_installexamples make[1]: Leaving directory '/build/logol-me68yE/logol-1.7.9+dfsg' dh_installman -i dh_lintian -i dh_perl -i dh_link -i dh_strip_nondeterminism -i dh_compress -i dh_fixperms -i dh_missing -i dh_installdeb -i dh_gencontrol -i dpkg-gencontrol: warning: Depends field of package logol: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -i dh_builddeb -i dpkg-deb: building package 'logol' in '../logol_1.7.9+dfsg-5_all.deb'. dpkg-genbuildinfo --build=all -O../logol_1.7.9+dfsg-5_all.buildinfo dpkg-genchanges --build=all -O../logol_1.7.9+dfsg-5_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/logol-me68yE /tmp/logol-1.7.9+dfsg-5ptikui38 I: cleaning package lists and apt cache... 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I: success in 842.7616 seconds md5: Value of 'md5' differs for logol_1.7.9+dfsg-5_all.deb sha1: Value of 'sha1' differs for logol_1.7.9+dfsg-5_all.deb sha256: Value of 'sha256' differs for logol_1.7.9+dfsg-5_all.deb Checksums: FAIL Cannot generate diffoscope for logol_1.7.9+dfsg-5_all.deb: RetryError[]