Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/l/logol/logol_1.7.9-3_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/logol-1.7.9-3h6a3akf7/logol_1.7.9-3_amd64.buildinfo Get source package info: logol=1.7.9-3 Source URL: http://snapshot.notset.fr/mr/package/logol/1.7.9-3/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=ant=1.10.9-4 ant-optional=1.10.9-4 antlr3=3.5.2-9 autoconf=2.69-14 automake=1:1.16.3-2 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=11.1 base-passwd=3.5.50 bash=5.1-3 binutils=2.35.2-2 binutils-common=2.35.2-2 binutils-x86-64-linux-gnu=2.35.2-2 bsdextrautils=2.36.1-7 bsdutils=1:2.36.1-7 build-essential=12.9 bzip2=1.0.8-4 ca-certificates=20210119 ca-certificates-java=20190909 cassiopee=1.0.9-3+b1 chrpath=0.16-2+b1 coreutils=8.32-4+b1 cpp=4:10.2.1-1 cpp-10=10.2.1-6 dash=0.5.11+git20210120+802ebd4-1 debconf=1.5.76 debhelper=13.3.4 debianutils=4.11.2 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=1.12.0-1 diffutils=1:3.7-5 dpkg=1.20.9 dpkg-dev=1.20.9 dwz=0.14-1 file=1:5.39-3 findutils=4.8.0-1 fontconfig-config=2.13.1-4.2 fonts-dejavu-core=2.37-2 fonts-lmodern=2.004.5-6.1 g++=4:10.2.1-1 g++-10=10.2.1-6 gawk=1:5.1.0-1 gcc=4:10.2.1-1 gcc-10=10.2.1-6 gcc-10-base=10.2.1-6 gettext=0.21-4 gettext-base=0.21-4 grep=3.6-1 groff-base=1.22.4-6 gzip=1.10-4 hostname=3.23 init-system-helpers=1.60 intltool-debian=0.35.0+20060710.5 java-common=0.72 junit4=4.13.1-2 libacl1=2.2.53-10 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=3.4.3-2+b1 libasan6=10.2.1-6 libasound2=1.2.4-1.1 libasound2-data=1.2.4-1.1 libatomic1=10.2.1-6 libattr1=1:2.4.48-6 libaudit-common=1:3.0-2 libaudit1=1:3.0-2 libavahi-client3=0.8-5 libavahi-common-data=0.8-5 libavahi-common3=0.8-5 libbinutils=2.35.2-2 libbiojava-java=1:1.7.1-9 libbiojava1.7-java=1:1.7.1-9 libblkid1=2.36.1-7 libboost-serialization1.74.0=1.74.0-9 libbrotli1=1.0.9-2+b2 libbsd0=0.11.3-1 libbytecode-java=0.92.svn.20090106-2.1 libbz2-1.0=1.0.8-4 libc-bin=2.31-12 libc-dev-bin=2.31-12 libc6=2.31-12 libc6-dev=2.31-12 libcairo2=1.16.0-5 libcap-ng0=0.7.9-2.2+b1 libcassie1v5=1.0.9-3+b1 libcc1-0=10.2.1-6 libcom-err2=1.46.2-1 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=1:4.4.18-4 libcrypt1=1:4.4.18-4 libctf-nobfd0=2.35.2-2 libctf0=2.35.2-2 libcups2=2.3.3op2-3 libdb5.3=5.3.28+dfsg1-0.8 libdbus-1-3=1.12.20-2 libdebconfclient0=0.257 libdebhelper-perl=13.3.4 libdpkg-perl=1.20.9 libdrm-amdgpu1=2.4.104-1 libdrm-common=2.4.104-1 libdrm-intel1=2.4.104-1 libdrm-nouveau2=2.4.104-1 libdrm-radeon1=2.4.104-1 libdrm2=2.4.104-1 libedit2=3.1-20191231-2+b1 libelf1=0.183-3 libexpat1=2.2.10-2 libffi7=3.3-6 libfile-stripnondeterminism-perl=1.12.0-1 libfontbox-java=1:1.8.16-2 libfontconfig1=2.13.1-4.2 libfreetype6=2.10.4+dfsg-1 libgcc-10-dev=10.2.1-6 libgcc-s1=10.2.1-6 libgcrypt20=1.8.7-5 libgdbm-compat4=1.19-2 libgdbm6=1.19-2 libgflags2.2=2.2.2-2 libgif7=5.1.9-2 libgl1=1.3.2-1 libgl1-mesa-dri=20.3.5-1 libglapi-mesa=20.3.5-1 libglib2.0-0=2.66.8-1 libglvnd0=1.3.2-1 libglx-mesa0=20.3.5-1 libglx0=1.3.2-1 libgmp10=2:6.2.1+dfsg-1 libgnutls30=3.7.1-4 libgomp1=10.2.1-6 libgoogle-glog0v5=0.4.0-4 libgpg-error0=1.38-2 libgraphite2-3=1.3.14-1 libgssapi-krb5-2=1.18.3-5 libhamcrest-java=1.3-9 libharfbuzz0b=2.7.4-1 libhogweed6=3.7.2-3 libhsqldb-java=2.5.1-1 libice6=2:1.0.10-1 libicu67=67.1-6 libidn2-0=2.3.0-5 libisl23=0.23-1 libitm1=10.2.1-6 libjpeg62-turbo=1:2.0.6-4 libk5crypto3=1.18.3-5 libkeyutils1=1.6.1-2 libkpathsea6=2020.20200327.54578-7 libkrb5-3=1.18.3-5 libkrb5support0=1.18.3-5 liblcms2-2=2.12~rc1-2 libllvm11=1:11.0.1-2 liblog4j1.2-java=1.2.17-10 liblsan0=10.2.1-6 liblz4-1=1.9.3-2 liblzma5=5.2.5-2 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmail-java=1.6.5-1 libmd0=1.0.3-3 libmount1=2.36.1-7 libmpc3=1.2.0-1 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncursesw6=6.2+20201114-2 libnettle8=3.7.2-3 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnspr4=2:4.29-1 libnss3=2:3.63-1 libossp-uuid16=1.6.2-1.5+b9 libp11-kit0=0.23.22-1 libpam-modules=1.4.0-7 libpam-modules-bin=1.4.0-7 libpam-runtime=1.4.0-7 libpam0g=1.4.0-7 libpaper-utils=1.1.28+b1 libpaper1=1.1.28+b1 libpciaccess0=0.16-1 libpcre2-8-0=10.36-2 libpcre3=2:8.39-13 libpcsclite1=1.9.1-1 libpdfbox-java=1:1.8.16-2 libperl5.32=5.32.1-4 libpipeline1=1.5.3-1 libpixman-1-0=0.40.0-1 libpng16-16=1.6.37-3 libptexenc1=2020.20200327.54578-7 libpython3-stdlib=3.9.2-3 libpython3.9-minimal=3.9.2-1 libpython3.9-stdlib=3.9.2-1 libquadmath0=10.2.1-6 libreadline8=8.1-2 libruby2.7=2.7.3-2 libseccomp2=2.5.1-1 libselinux1=3.1-3 libsensors-config=1:3.6.0-7 libsensors5=1:3.6.0-7 libservlet-api-java=4.0.1-2 libsigsegv2=2.13-1 libsm6=2:1.2.3-1 libsmartcols1=2.36.1-7 libsqlite3-0=3.34.1-3 libssl1.1=1.1.1k-1 libstdc++-10-dev=10.2.1-6 libstdc++6=10.2.1-6 libstringtemplate4-java=4.0.8-2.1 libsub-override-perl=0.09-2 libsynctex2=2020.20200327.54578-7 libsystemd0=247.3-5 libtasn1-6=4.16.0-2 libtcmalloc-minimal4=2.8.1-1 libteckit0=2.5.10+ds1-3 libtexlua53=2020.20200327.54578-7 libtexluajit2=2020.20200327.54578-7 libtinfo6=6.2+20201114-2 libtirpc-common=1.3.1-1 libtirpc-dev=1.3.1-1 libtirpc3=1.3.1-1 libtool=2.4.6-15 libtsan0=10.2.1-6 libubsan1=10.2.1-6 libuchardet0=0.0.7-1 libudev1=247.3-5 libunistring2=0.9.10-4 libunwind8=1.3.2-2 libuuid1=2.36.1-7 libvulkan1=1.2.162.0-1 libx11-6=2:1.7.1-1 libx11-data=2:1.7.1-1 libx11-xcb1=2:1.7.1-1 libxalan2-java=2.7.2-4 libxau6=1:1.0.9-1 libxaw7=2:1.0.13-1.1 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 libxdamage1=1:1.1.5-2 libxdmcp6=1:1.1.2-3 libxerces2-java=2.12.1-1 libxext6=2:1.3.3-1.1 libxfixes3=1:5.0.3-2 libxft2=2.3.2-2 libxi6=2:1.7.10-1 libxml-commons-external-java=1.4.01-5 libxml-commons-resolver1.1-java=1.2-11 libxml2=2.9.10+dfsg-6.6 libxmu6=2:1.1.2-2+b3 libxpm4=1:3.5.12-1 libxrender1=1:0.9.10-1 libxshmfence1=1.3-1 libxt6=1:1.2.0-1 libxtst6=2:1.2.3-1 libxxf86vm1=1:1.1.4-1+b2 libyaml-0-2=0.2.2-1 libz3-4=4.8.10-1 libzstd1=1.4.8+dfsg-2.1 libzzip-0-13=0.13.62-3.3 linux-libc-dev=5.10.28-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.9.4-2 mawk=1.3.4.20200120-2 media-types=4.0.0 ncurses-base=6.2+20201114-2 ncurses-bin=6.2+20201114-2 openjdk-11-jdk=11.0.11+9-1 openjdk-11-jdk-headless=11.0.11+9-1 openjdk-11-jre=11.0.11+9-1 openjdk-11-jre-headless=11.0.11+9-1 openssl=1.1.1k-1 patch=2.7.6-7 perl=5.32.1-4 perl-base=5.32.1-4 perl-modules-5.32=5.32.1-4 po-debconf=1.0.21+nmu1 preview-latex-style=12.2-1 python3=3.9.2-3 python3-minimal=3.9.2-3 python3.9=3.9.2-1 python3.9-minimal=3.9.2-1 rake=13.0.3-1 readline-common=8.1-2 ruby=1:2.7+2 ruby-cassiopee=0.1.13-1 ruby-minitest=5.13.0-1 ruby-net-telnet=0.1.1-2 ruby-power-assert=1.1.7-2 ruby-rubygems=3.2.5-2 ruby-test-unit=3.3.9-1 ruby-text=1.3.0-1.1 ruby-xmlrpc=0.3.0-2 ruby2.7=2.7.3-2 rubygems-integration=1.18 sed=4.7-1 sensible-utils=0.0.14 swi-prolog=8.2.4+dfsg-1 swi-prolog-core=8.2.4+dfsg-1 swi-prolog-core-packages=8.2.4+dfsg-1 swi-prolog-doc=8.2.4+dfsg-1 swi-prolog-nox=8.2.4+dfsg-1 swi-prolog-x=8.2.4+dfsg-1 sysvinit-utils=2.96-7 t1utils=1.41-4 tar=1.34+dfsg-1 tex-common=6.16 texlive=2020.20210202-3 texlive-base=2020.20210202-3 texlive-binaries=2020.20200327.54578-7 texlive-fonts-recommended=2020.20210202-3 texlive-latex-base=2020.20210202-3 texlive-latex-extra=2020.20210202-3 texlive-latex-recommended=2020.20210202-3 texlive-pictures=2020.20210202-3 texlive-plain-generic=2020.20210202-3 tzdata=2021a-1 ucf=3.0043 util-linux=2.36.1-7 x11-common=1:7.7+22 xdg-utils=1.1.3-4.1 xz-utils=5.2.5-2 zlib1g=1:1.2.11.dfsg-2 --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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210520T031924Z/ 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=1.7.9-3 && mkdir -p /build/logol-gUuugM && dpkg-source --no-check -x /*.dsc /build/logol-gUuugM/logol-1.7.9 && chown -R builduser:builduser /build/logol-gUuugM" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/logol-gUuugM/logol-1.7.9 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1621491011" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/logol-gUuugM /tmp/logol-1.7.9-3h6a3akf7 bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20210520T031924Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.OmEmJqXG1G 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.OmEmJqXG1G Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-7). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20210520T031924Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20210520T031924Z unstable/main amd64 fakeroot amd64 1.25.3-1.1 [87.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (905 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 ... 4667 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.25.3-1.1_amd64.deb ... Unpacking libfakeroot:amd64 (1.25.3-1.1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.25.3-1.1_amd64.deb ... Unpacking fakeroot (1.25.3-1.1) ... Setting up libfakeroot:amd64 (1.25.3-1.1) ... Setting up fakeroot (1.25.3-1.1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-12) ... 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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210520T031924Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.OmEmJqXG1G Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20210520T031924Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 21s (1057 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.OmEmJqXG1G I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d logol=1.7.9-3 && mkdir -p /build/logol-gUuugM && dpkg-source --no-check -x /*.dsc /build/logol-gUuugM/logol-1.7.9 && chown -R builduser:builduser /build/logol-gUuugM"' exec /tmp/mmdebstrap.OmEmJqXG1G 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 2723 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main logol 1.7.9-3 (dsc) [2323 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main logol 1.7.9-3 (tar) [2708 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main logol 1.7.9-3 (diff) [12.3 kB] Fetched 2723 kB in 2s (1194 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'logol_1.7.9-3.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting logol in /build/logol-gUuugM/logol-1.7.9 dpkg-source: info: unpacking logol_1.7.9.orig.tar.bz2 dpkg-source: info: unpacking logol_1.7.9-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying remove_drmaa_support dpkg-source: info: applying fixLibPath dpkg-source: info: applying setDebianDirs dpkg-source: info: applying fix_doc_generation dpkg-source: info: applying remove_rubygems_usage dpkg-source: info: applying fix_antlr35 dpkg-source: info: applying fix_swipl_declarations dpkg-source: info: applying fix_swipl_foreign_load dpkg-source: info: applying remove_test I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/logol-gUuugM/logol-1.7.9 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1621491011" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.OmEmJqXG1G dpkg-buildpackage: info: source package logol dpkg-buildpackage: info: source version 1.7.9-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Olivier Sallou dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/logol-gUuugM/logol-1.7.9' if [ ! -e test/tmp ]; then mkdir -p test/tmp; fi if [ ! -e test/results ]; then mkdir -p test/results; fi if [ -e prolog/process.so ]; then rm -f prolog/process.so; fi dh_auto_clean ant clean Buildfile: /build/logol-gUuugM/logol-1.7.9/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. clean: BUILD SUCCESSFUL Total time: 3 seconds make[1]: Leaving directory '/build/logol-gUuugM/logol-1.7.9' debian/rules override_dh_clean make[1]: Entering directory '/build/logol-gUuugM/logol-1.7.9' if [ -e tools/pldoc.sty.upstream ]; then mv tools/pldoc.sty.upstream tools/pldoc.sty; fi if [ ! -e test/tmp ]; then mkdir -p test/tmp; fi if [ ! -e test/results ]; then mkdir -p test/results; fi dh_clean rm -f Swi*.xml rm -f prolog/*.exe rm -f lib/*.jar rm -f *.log rm -f src/org/irisa/genouest/logol/parser/* rm -f tools/suffixSearch.sh rm -rf test/tmp rm -rf test/results make[1]: Leaving directory '/build/logol-gUuugM/logol-1.7.9' debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/build/logol-gUuugM/logol-1.7.9' if [ ! -e lib ]; then mkdir -p lib; fi if [ ! -e prolog/process.so ]; then ln -s /usr/lib/swi-prolog/lib/x86_64-linux/process.so prolog/process.so; fi mv tools/pldoc.sty tools/pldoc.sty.upstream dh_auto_build -- -Dant.build.javac.source=1.5 -Dant.build.javac.target=1.5 ant -Duser.name debian -Dant.build.javac.source=1.5 -Dant.build.javac.target=1.5 Buildfile: /build/logol-gUuugM/logol-1.7.9/build.xml [taskdef] Could not load definitions from resource tasks.properties. It could not be found. updatemod: setup: compile_swi_exe: [exec] tmp: No such file or directory [exec] PLBASE="/usr/lib/swi-prolog" [exec] PLARCH="x86_64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/x86_64-linux" [exec] PLLIB="-lswipl" [exec] PLTHREADS="yes" [exec] logolSwiMain.c: In function ‘main’: [exec] logolSwiMain.c:50:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 50 | PL_put_string_chars(ResultFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:52:4: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 52 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:58:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 58 | PL_put_string_chars(File,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:62:4: warning: ignoring return value of ‘PL_put_integer’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 62 | PL_put_integer(HeaderSize, header); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:67:4: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 67 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:76:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 76 | PL_put_string_chars(LogolFile,argv[6]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:78:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 78 | PL_put_string_chars(InFile,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:80:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 80 | PL_put_string_chars(OutFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:82:4: warning: ignoring return value of ‘PL_put_integer’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 82 | PL_put_integer(Offset,offset); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:102:4: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 102 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:120:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 120 | PL_put_string_chars(ResultFile,argv[2]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] logolSwiMain.c:122:4: warning: ignoring return value of ‘PL_next_solution’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 122 | PL_next_solution(query); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~ [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/sicstus.pl:495: [exec] Warning: Singleton variables: [Before,Length,CountPos,CountLength] [exec] tmp: No such file or directory [exec] ERROR: /build/logol-gUuugM/logol-1.7.9/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-gUuugM/logol-1.7.9/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] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:206: [exec] Warning: Singleton variables: [Max] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:221: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:304: [exec] Warning: Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/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-gUuugM/logol-1.7.9/prolog/logol.pl:394: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:408: [exec] Warning: Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:434: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:472: [exec] Warning: Singleton variables: [NewPos] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:472: [exec] Warning: Singleton variable in branch: NewPos [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:514: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:517: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:556: [exec] Warning: Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:575: [exec] Warning: Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:590: [exec] Warning: Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/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-gUuugM/logol-1.7.9/prolog/logol.pl:673: [exec] Warning: Singleton variables: [InputLength] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:679: [exec] Warning: Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:724: [exec] Warning: Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:964: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:993: [exec] Warning: Singleton variables: [Word] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1024: [exec] Warning: Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1068: [exec] Warning: Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1162: [exec] Warning: Singleton variables: [Errors] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1266: [exec] Warning: Singleton variables: [Morph,Reverse] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1270: [exec] Warning: Singleton variables: [Morph] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1281: [exec] Warning: Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1317: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1341: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1645: [exec] Warning: Singleton variables: [Name] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2036: [exec] Warning: Singleton variables: [Matrix] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2077: [exec] Warning: Singleton variables: [Type] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2180: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2335: [exec] Warning: Singleton variables: [FilterPredicate] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2350: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2380: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2395: [exec] Warning: Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2435: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2435: [exec] Warning: Singleton variable in branch: Max [exec] Warning: Singleton variable in branch: Z [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2470: [exec] Warning: Singleton variables: [VarId] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2498: [exec] Warning: Singleton variables: [X,Y,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2516: [exec] Warning: Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2534: [exec] Warning: Singleton variables: [ALPHABET] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2576: [exec] Warning: Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2604: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2608: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2624: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2644: [exec] Warning: Singleton variables: [ID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2647: [exec] Warning: Singleton variables: [OPTVAR] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2653: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2701: [exec] Warning: Singleton variables: [DATA] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2752: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2755: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2758: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2761: [exec] Warning: Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2766: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2769: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] % Disabled autoloading (loaded 38 files) [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] % Disabled autoloading (loaded 5 files) [exec] % Disabled autoloading (loaded 0 files) [exec] % halt [exec] eval `swipl --dump-runtime-variables` [exec] /usr/bin/cc -c -D_REENTRANT -D__SWI_PROLOG__ -D__SWI_EMBEDDED__ -I/usr/lib/swi-prolog/include -o logolSwiMain.o logolSwiMain.c [exec] /usr/bin/cc -o logol.exe -Wl,-rpath=/usr/lib/swi-prolog/lib/x86_64-linux logolSwiMain.o -L/usr/lib/swi-prolog/lib/x86_64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-1935609',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-1935609 >> logol.exe [exec] chmod 755 logol.exe [exec] rm logolSwiMain.o [exec] rm pltmp-1935609 [exec] tmp: No such file or directory [exec] PLBASE="/usr/lib/swi-prolog" [exec] PLARCH="x86_64-linux" [exec] PLSOEXT="so" [exec] PLLIBDIR="/usr/lib/swi-prolog/lib/x86_64-linux" [exec] PLLIB="-lswipl" [exec] PLTHREADS="yes" [exec] preSwiMain.c: In function ‘main’: [exec] preSwiMain.c:40:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 40 | PL_put_string_chars(LogolFile1,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:42:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 42 | PL_put_string_chars(LogolFile2,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:44:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 44 | PL_put_string_chars(LogolFile3,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] preSwiMain.c:46:4: warning: ignoring return value of ‘PL_put_string_chars’ declared with attribute ‘warn_unused_result’ [-Wunused-result] [exec] 46 | PL_put_string_chars(LogolFile4,argv[1]); [exec] | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/sicstus.pl:495: [exec] Warning: Singleton variables: [Before,Length,CountPos,CountLength] [exec] tmp: No such file or directory [exec] ERROR: /build/logol-gUuugM/logol-1.7.9/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-gUuugM/logol-1.7.9/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] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:206: [exec] Warning: Singleton variables: [Max] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:221: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:304: [exec] Warning: Singleton variables: [Tmp1,Tmp2,TmpOutput,Continue] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/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-gUuugM/logol-1.7.9/prolog/logol.pl:394: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:408: [exec] Warning: Singleton variables: [Unique,Out,Exit] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:434: [exec] Warning: Singleton variables: [SequenceLength] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:472: [exec] Warning: Singleton variables: [NewPos] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:472: [exec] Warning: Singleton variable in branch: NewPos [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:514: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:517: [exec] Warning: Singleton variables: [VARID,TYPE,REF,REFOTHER] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:556: [exec] Warning: Singleton variables: [Z,Pred,Spacer,Min,Max,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:575: [exec] Warning: Singleton variables: [Z,Pred,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:590: [exec] Warning: Singleton variables: [Tmp1,Tmp2,IntermediateSpacer,TmpOutput,Continue] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/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-gUuugM/logol-1.7.9/prolog/logol.pl:673: [exec] Warning: Singleton variables: [InputLength] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:679: [exec] Warning: Singleton variables: [Pred,Z,PrevMatchLength,Count,OutCount] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:724: [exec] Warning: Singleton variables: [X,Y,E1,E2,N,Max,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:964: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:993: [exec] Warning: Singleton variables: [Word] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1024: [exec] Warning: Singleton variables: [N,Min,Max,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1068: [exec] Warning: Singleton variables: [E,Z,Spacer,CountSpacer,NumberSpacer] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1162: [exec] Warning: Singleton variables: [Errors] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1266: [exec] Warning: Singleton variables: [Morph,Reverse] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1270: [exec] Warning: Singleton variables: [Morph] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1281: [exec] Warning: Singleton variables: [Morph,Prev,CX,CZ] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1317: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1341: [exec] Warning: Singleton variables: [Matrix,MatrixAtom] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:1645: [exec] Warning: Singleton variables: [Name] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2036: [exec] Warning: Singleton variables: [Matrix] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2077: [exec] Warning: Singleton variables: [Type] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2180: [exec] Warning: Singleton variables: [Exit] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2335: [exec] Warning: Singleton variables: [FilterPredicate] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2350: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Config] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2380: [exec] Warning: Singleton variables: [Name,Content,Size,Level,Errors,Config] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2395: [exec] Warning: Singleton variables: [Name,Content,Size,Info,Level,Errors,Config] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2435: [exec] Warning: Singleton variables: [Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2435: [exec] Warning: Singleton variable in branch: Max [exec] Warning: Singleton variable in branch: Z [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2470: [exec] Warning: Singleton variables: [VarId] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2498: [exec] Warning: Singleton variables: [X,Y,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2516: [exec] Warning: Singleton variables: [MinSpacer,MaxSpacer,X,Y,Z] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2534: [exec] Warning: Singleton variables: [ALPHABET] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2576: [exec] Warning: Singleton variables: [MATCH,A,B,NEWID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2604: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2608: [exec] Warning: Singleton variables: [OPTVAR,ID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2624: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2644: [exec] Warning: Singleton variables: [ID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2647: [exec] Warning: Singleton variables: [OPTVAR] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2653: [exec] Warning: Singleton variables: [OPTVAR,ID,NEWID] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2701: [exec] Warning: Singleton variables: [DATA] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2752: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2755: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2758: [exec] Warning: Singleton variables: [MATCH] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2761: [exec] Warning: Singleton variables: [MATCH,ALPHABET] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2766: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/logol.pl:2769: [exec] Warning: Singleton variables: [VAR,VARFOUND] [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] % Disabled autoloading (loaded 38 files) [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] % Disabled autoloading (loaded 5 files) [exec] % Disabled autoloading (loaded 0 files) [exec] % halt [exec] eval `swipl --dump-runtime-variables` [exec] /usr/bin/cc -c -D_REENTRANT -D__SWI_PROLOG__ -D__SWI_EMBEDDED__ -I/usr/lib/swi-prolog/include -o preSwiMain.o preSwiMain.c [exec] /usr/bin/cc -o preanalyse.exe -Wl,-rpath=/usr/lib/swi-prolog/lib/x86_64-linux preSwiMain.o -L/usr/lib/swi-prolog/lib/x86_64-linux -lswipl [exec] swipl -f none -F none -g true -t "consult(['sicstus.pl','logol.pl']),qsave_program('pltmp-1935627',[goal=true,toplevel=prolog,init_file='swi-logol.pl'])" [exec] cat pltmp-1935627 >> preanalyse.exe [exec] chmod 755 preanalyse.exe [exec] rm preSwiMain.o [exec] rm pltmp-1935627 clean: antlr: [java] ANTLR Parser Generator Version 3.5.2 [java] /build/logol-gUuugM/logol-1.7.9/src/logol.g compile: [mkdir] Created dir: /build/logol-gUuugM/logol-1.7.9/bin [javac] /build/logol-gUuugM/logol-1.7.9/build.xml:91: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds [javac] Compiling 62 source files to /build/logol-gUuugM/logol-1.7.9/bin [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] /build/logol-gUuugM/logol-1.7.9/src/org/irisa/genouest/logol/test/GrammarTest.java:1995: warning: unreachable catch clause [javac] } catch (IOException e) { [javac] ^ [javac] thrown type FileNotFoundException has already been caught [javac] Note: Some input files use or override a deprecated API. [javac] Note: Recompile with -Xlint:deprecation for details. [javac] Note: Some input files use unchecked or unsafe operations. [javac] Note: Recompile with -Xlint:unchecked for details. [javac] 2 warnings create-jar: [jar] Building jar: /build/logol-gUuugM/logol-1.7.9/lib/LogolExec.jar test_swi: [mkdir] Created dir: /build/logol-gUuugM/logol-1.7.9/test/tmp [mkdir] Created dir: /build/logol-gUuugM/logol-1.7.9/test/results [exec] tmp: No such file or directory [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/unitTest/swi-unit.pl:1: [exec] Warning: Singleton variables: [UnitPath,Lib] [exec] tmp: No such file or directory [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/unitTest/swi-unit.pl:1: [exec] Warning: Goal (directive) failed: user:(prolog_flag(argv,[_5426,_5448,_5470,_5492,_5514,_5536,_5558,_5580,_5602,_5624]),ensure_loaded(_5536)) [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/unitTest/swi-unit.pl:5: [exec] Warning: Singleton variables: [SicPath,Lib] [exec] Warning: /build/logol-gUuugM/logol-1.7.9/prolog/unitTest/swi-unit.pl:5: [exec] Warning: Goal (directive) failed: user:(prolog_flag(argv,[_6486,_6508,_6530,_6552,_6574,_6596,_6618,_6640,_6662,_6684]),ensure_loaded(_6574)) [exec] Welcome to SWI-Prolog (threaded, 64 bits, version 8.2.4) [exec] SWI-Prolog comes with ABSOLUTELY NO WARRANTY. This is free software. [exec] Please run ?- license. for legal details. [exec] [exec] For online help and background, visit https://www.swi-prolog.org [exec] For built-in help, use ?- help(Topic). or ?- apropos(Word). [exec] [exec] tmp: No such file or directory [exec] tmp: No such file or directory [exec] [exec] tmp: No such file or directory [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: 67.706 sec [junit] Tests run: 78, Failures: 0, Errors: 0, Skipped: 4, Time elapsed: 67.706 sec [junit] [junit] ------------- Standard Output --------------- [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/anyspacer.logol.349a09af-e191-44ba-a8e6-4501fdde1c24.1-41.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.349a09af-e191-44ba-a8e6-4501fdde1c24.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.logol.349a09af-e191-44ba-a8e6-4501fdde1c24.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/repeat_overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_overlap.logol.b33ace76-6868-436d-8144-84cd80d41369.1-41.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.b33ace76-6868-436d-8144-84cd80d41369.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_overlap.logol.b33ace76-6868-436d-8144-84cd80d41369.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/partialcomplement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.Logol - option offset called with 1000 [junit] INFO org.irisa.genouest.logol.Logol - option start called with 5 [junit] INFO org.irisa.genouest.logol.Logol - option end called with 35 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix 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.3b777ca0-b153-4aaa-8471-c26c92b37161.1005-1035.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/partialcomplement.logol.3b777ca0-b153-4aaa-8471-c26c92b37161.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.3b777ca0-b153-4aaa-8471-c26c92b37161.5-35-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/partialcomplement.logol.3b777ca0-b153-4aaa-8471-c26c92b37161.5-35-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/alphabet.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/alphabet.logol.31974b11-ec24-4e15-96f1-f2128320efcd.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.31974b11-ec24-4e15-96f1-f2128320efcd.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/alphabet.logol.31974b11-ec24-4e15-96f1-f2128320efcd.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/optimal.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/optimal.logol.fff1ff55-be4d-477e-9f64-3742fc7589a1.1-41.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.fff1ff55-be4d-477e-9f64-3742fc7589a1.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.logol.fff1ff55-be4d-477e-9f64-3742fc7589a1.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/repeat_startspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_startspacer.logol.b70e2e2e-c00e-4617-bf38-e4230dd21a15.1-41.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.b70e2e2e-c00e-4617-bf38-e4230dd21a15.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_startspacer.logol.b70e2e2e-c00e-4617-bf38-e4230dd21a15.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/overlap.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/overlap.logol.70507a31-8ec1-4e6e-b8aa-fcf78d4db571.1-41.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.70507a31-8ec1-4e6e-b8aa-fcf78d4db571.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/overlap.logol.70507a31-8ec1-4e6e-b8aa-fcf78d4db571.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/end.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end.logol.9d4a09c6-f3be-4c41-a2da-f140a1f25841.1-41.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.9d4a09c6-f3be-4c41-a2da-f140a1f25841.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end.logol.9d4a09c6-f3be-4c41-a2da-f140a1f25841.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/negcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent.logol.2ad01592-fd5d-4984-912b-d124de8b2900.1-41.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.2ad01592-fd5d-4984-912b-d124de8b2900.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.logol.2ad01592-fd5d-4984-912b-d124de8b2900.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/begin.logol.b6c6b83c-7cde-4892-a755-97503eab2218.1-41.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.b6c6b83c-7cde-4892-a755-97503eab2218.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.logol.b6c6b83c-7cde-4892-a755-97503eab2218.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/1799.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/1799.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1799.logol.f4e98e80-4015-4d4f-a0cc-86000274a06f.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.f4e98e80-4015-4d4f-a0cc-86000274a06f.0-4-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1799.logol.f4e98e80-4015-4d4f-a0cc-86000274a06f.0-4-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/1800.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/1800.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1800.logol.f61f38b7-23b2-4960-8bc8-e136975908cc.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.f61f38b7-23b2-4960-8bc8-e136975908cc.0-19-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1800.logol.f61f38b7-23b2-4960-8bc8-e136975908cc.0-19-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/1806.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/1806.logol.05d76467-4d6c-47de-9709-84d902724e3a.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.05d76467-4d6c-47de-9709-84d902724e3a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/1806.logol.05d76467-4d6c-47de-9709-84d902724e3a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/2244.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2244.logol.dfe4f9cd-538d-4a75-8517-73d4147acd48.1-31.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.dfe4f9cd-538d-4a75-8517-73d4147acd48.0-31-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2244.logol.dfe4f9cd-538d-4a75-8517-73d4147acd48.0-31-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/2235.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/2235.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2235.logol.68beff79-f343-45f1-8699-b993e3c6ea5f.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.68beff79-f343-45f1-8699-b993e3c6ea5f.0-26-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2235.logol.68beff79-f343-45f1-8699-b993e3c6ea5f.0-26-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/2242.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/2242.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2242.logol.ce9b2921-6fa2-4ece-aa6a-f31b53543fe4.1-29.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.ce9b2921-6fa2-4ece-aa6a-f31b53543fe4.0-29-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2242.logol.ce9b2921-6fa2-4ece-aa6a-f31b53543fe4.0-29-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/2243.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/2243.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/2243.logol.54242a14-f554-4754-ab75-91aa9233b544.1-15.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.54242a14-f554-4754-ab75-91aa9233b544.0-15-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/2243.logol.54242a14-f554-4754-ab75-91aa9233b544.0-15-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/fix2244.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/fix2244.logol.a29c1622-2a59-4369-80c9-245068d7bd89.1-41.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.a29c1622-2a59-4369-80c9-245068d7bd89.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/fix2244.logol.a29c1622-2a59-4369-80c9-245068d7bd89.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/halt.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/halt.logol.2887849c-07ab-4184-b337-aa02ab3ab810.1-41.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.2887849c-07ab-4184-b337-aa02ab3ab810.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/halt.logol.2887849c-07ab-4184-b337-aa02ab3ab810.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/negcontent2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent2.logol.cd35f0b1-6401-4317-9c8e-9dd63d1d0482.1-41.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.cd35f0b1-6401-4317-9c8e-9dd63d1d0482.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent2.logol.cd35f0b1-6401-4317-9c8e-9dd63d1d0482.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/negcontent3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/negcontent3.logol.d1ea2ac7-0922-412a-b780-3a2be382e300.1-41.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.d1ea2ac7-0922-412a-b780-3a2be382e300.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent3.logol.d1ea2ac7-0922-412a-b780-3a2be382e300.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/external.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/external.logol.fd639569-a5d0-417e-bdc2-9b0673739ac7.1-41.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.fd639569-a5d0-417e-bdc2-9b0673739ac7.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external.logol.fd639569-a5d0-417e-bdc2-9b0673739ac7.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/end_of_stream1.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end_of_stream1.logol.d1169eea-456f-40a7-8110-3eacd2f611da.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.d1169eea-456f-40a7-8110-3eacd2f611da.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream1.logol.d1169eea-456f-40a7-8110-3eacd2f611da.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/end_of_stream2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/end_of_stream2.logol.9a7dcf7d-b9c6-435c-b693-ac3746fd4603.1-41.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.9a7dcf7d-b9c6-435c-b693-ac3746fd4603.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/end_of_stream2.logol.9a7dcf7d-b9c6-435c-b693-ac3746fd4603.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/metacontrol.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/metacontrol.logol.c8fbb6d4-ab74-4895-bf4f-7079d5454f4c.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.c8fbb6d4-ab74-4895-bf4f-7079d5454f4c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/metacontrol.logol.c8fbb6d4-ab74-4895-bf4f-7079d5454f4c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/view_begin.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/view_begin.logol.dc1106ae-b480-48f4-8171-366b391947e5.1-41.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.dc1106ae-b480-48f4-8171-366b391947e5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/view_begin.logol.dc1106ae-b480-48f4-8171-366b391947e5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/begin_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/begin_postpone.logol.ff4b6312-40d0-46fe-b415-c1c52eaf55eb.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.ff4b6312-40d0-46fe-b415-c1c52eaf55eb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin_postpone.logol.ff4b6312-40d0-46fe-b415-c1c52eaf55eb.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/complement.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.988ddb15-c7dc-4215-8b73-90f12a06037c.1-41.xml: 0 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complement.logol.988ddb15-c7dc-4215-8b73-90f12a06037c.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.988ddb15-c7dc-4215-8b73-90f12a06037c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complement.logol.988ddb15-c7dc-4215-8b73-90f12a06037c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/protein.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/protein.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option protein called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/protein.logol.ae54c025-9dc8-4aa2-9c5d-9a51dca965f1.1-23.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.ae54c025-9dc8-4aa2-9c5d-9a51dca965f1.0-23-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/protein.logol.ae54c025-9dc8-4aa2-9c5d-9a51dca965f1.0-23-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/morphism_var.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/morphism_var.logol.cfbc6b32-0e59-4a66-bd03-3549f1dbe894.1-41.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.cfbc6b32-0e59-4a66-bd03-3549f1dbe894.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism_var.logol.cfbc6b32-0e59-4a66-bd03-3549f1dbe894.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.faedc1cd-2fce-4ba4-99d4-a11908d6c29b.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.faedc1cd-2fce-4ba4-99d4-a11908d6c29b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.faedc1cd-2fce-4ba4-99d4-a11908d6c29b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/cost_postpone.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/cost_postpone.logol.6a320029-33a9-41aa-80f6-2faf5d0b16f9.1-41.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.6a320029-33a9-41aa-80f6-2faf5d0b16f9.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/cost_postpone.logol.6a320029-33a9-41aa-80f6-2faf5d0b16f9.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/call_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model.logol.355ec901-ef33-4ff5-9d2b-fcfe3f196857.1-41.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.355ec901-ef33-4ff5-9d2b-fcfe3f196857.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model.logol.355ec901-ef33-4ff5-9d2b-fcfe3f196857.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variablewithdistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewithdistance.logol.4b579656-5ade-4af3-8bd6-a4aa12ebe26f.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.4b579656-5ade-4af3-8bd6-a4aa12ebe26f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance.logol.4b579656-5ade-4af3-8bd6-a4aa12ebe26f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-gUuugM/logol-1.7.9/test/optimal.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR1)==>LOGOLVAR2%mydata%:{?"aaaa"},LOGOLVAR3%X1%:{#OPT[2,8]} [junit] mod1(LOGOLVAR4)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/optimal.lgd.973f5846-4ca7-4244-be8a-4baedf529bb4.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.973f5846-4ca7-4244-be8a-4baedf529bb4.1-41.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.973f5846-4ca7-4244-be8a-4baedf529bb4.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/optimal.lgd.973f5846-4ca7-4244-be8a-4baedf529bb4.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variablewitherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewitherror.logol.845a2ce7-c597-4d6b-b14b-8175f4df4e88.1-41.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.845a2ce7-c597-4d6b-b14b-8175f4df4e88.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherror.logol.845a2ce7-c597-4d6b-b14b-8175f4df4e88.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-gUuugM/logol-1.7.9/test/anyspacer.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR4)==>LOGOLVAR5%X1%:{@[0,20]},"ccc" [junit] mod1(LOGOLVAR6)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/anyspacer.lgd.e3e0dc0d-6388-4226-9ff5-e0978d797b4e.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.e3e0dc0d-6388-4226-9ff5-e0978d797b4e.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.e3e0dc0d-6388-4226-9ff5-e0978d797b4e.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/anyspacer.lgd.e3e0dc0d-6388-4226-9ff5-e0978d797b4e.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-gUuugM/logol-1.7.9/test/all.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR6)==>"ccc",.*,"ccc" [junit] mod1(LOGOLVAR7)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/all.lgd.ddb10f19-ecd7-4548-a9b9-0890ec656710.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.ddb10f19-ecd7-4548-a9b9-0890ec656710.1-41.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.ddb10f19-ecd7-4548-a9b9-0890ec656710.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.lgd.ddb10f19-ecd7-4548-a9b9-0890ec656710.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/repeat_any.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_any.logol.026e8cc2-dcc6-4ab5-b945-ebf2c7267e34.1-41.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.026e8cc2-dcc6-4ab5-b945-ebf2c7267e34.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_any.logol.026e8cc2-dcc6-4ab5-b945-ebf2c7267e34.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/comment2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/comment2.logol.22ad0392-208f-42b0-ae6a-dc842b132c44.1-41.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.22ad0392-208f-42b0-ae6a-dc842b132c44.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment2.logol.22ad0392-208f-42b0-ae6a-dc842b132c44.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-gUuugM/logol-1.7.9/test/negcontent.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR7)==>"aaaa",! "cgta":{#[3,5]} [junit] mod1(LOGOLVAR8)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/negcontent.lgd.aaa07e21-b923-49c0-89df-7ffacb74172d.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.aaa07e21-b923-49c0-89df-7ffacb74172d.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.aaa07e21-b923-49c0-89df-7ffacb74172d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/negcontent.lgd.aaa07e21-b923-49c0-89df-7ffacb74172d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/parent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_witherror.logol.8f2a9595-5d67-4760-b870-f37336c086f1.1-41.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.8f2a9595-5d67-4760-b870-f37336c086f1.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror.logol.8f2a9595-5d67-4760-b870-f37336c086f1.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/parent_exact.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_exact.logol.6a8d75ad-e740-4ecd-a2db-477e29994b5b.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.6a8d75ad-e740-4ecd-a2db-477e29994b5b.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_exact.logol.6a8d75ad-e740-4ecd-a2db-477e29994b5b.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/all.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/all.logol.8a244974-61ef-4760-bb24-a7a03e4e9bc5.1-41.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.8a244974-61ef-4760-bb24-a7a03e4e9bc5.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/all.logol.8a244974-61ef-4760-bb24-a7a03e4e9bc5.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variable_unknown.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_unknown.logol.ab9f9456-e38b-42d9-983b-6f53c1fcc1ac.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.ab9f9456-e38b-42d9-983b-6f53c1fcc1ac.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_unknown.logol.ab9f9456-e38b-42d9-983b-6f53c1fcc1ac.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/morphism.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/morphism.logol.f22a76ae-8896-4b33-ade8-579d3027c93f.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.f22a76ae-8896-4b33-ade8-579d3027c93f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.logol.f22a76ae-8896-4b33-ade8-579d3027c93f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/or_condition2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/or_condition2.logol.253ad971-a33a-460b-ba82-8e0d8e369e99.1-41.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.253ad971-a33a-460b-ba82-8e0d8e369e99.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition2.logol.253ad971-a33a-460b-ba82-8e0d8e369e99.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/comment.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/comment.logol.5c056f33-1ecc-4e4c-a888-c460f1a91b28.1-41.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.5c056f33-1ecc-4e4c-a888-c460f1a91b28.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/comment.logol.5c056f33-1ecc-4e4c-a888-c460f1a91b28.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-gUuugM/logol-1.7.9/test/variable.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR8)==>"aaa","acgt":{_LOGOLVAR9%R1%},?LOGOLVAR9%R1% [junit] mod1(LOGOLVAR10)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/variable.lgd.ae0159d1-1a40-48c2-a8f6-f99b3f8850db.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.ae0159d1-1a40-48c2-a8f6-f99b3f8850db.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.ae0159d1-1a40-48c2-a8f6-f99b3f8850db.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.lgd.ae0159d1-1a40-48c2-a8f6-f99b3f8850db.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/call_model2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model2.logol.8e18192c-ff5f-49e1-97cf-28914b830935.1-41.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.8e18192c-ff5f-49e1-97cf-28914b830935.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model2.logol.8e18192c-ff5f-49e1-97cf-28914b830935.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/call_model3.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model3.logol.1148df62-c352-4929-ab68-111fa45fbdcb.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.1148df62-c352-4929-ab68-111fa45fbdcb.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model3.logol.1148df62-c352-4929-ab68-111fa45fbdcb.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/call_model4.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/call_model4.logol.9e360c5c-d037-4044-832c-d8965951349d.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.9e360c5c-d037-4044-832c-d8965951349d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/call_model4.logol.9e360c5c-d037-4044-832c-d8965951349d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/repeat0.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat0.logol.c3c3b162-ba54-4461-9a38-ef45027eda47.1-41.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.c3c3b162-ba54-4461-9a38-ef45027eda47.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat0.logol.c3c3b162-ba54-4461-9a38-ef45027eda47.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/reverse.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/reverse.logol.4484ab89-fa6f-43bb-a974-9a56c7cb9908.1-41.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.4484ab89-fa6f-43bb-a974-9a56c7cb9908.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/reverse.logol.4484ab89-fa6f-43bb-a974-9a56c7cb9908.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variable_postcontent_witherror.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_postcontent_witherror.logol.3ca1012b-128d-4426-b2c0-1f2a06c28c32.1-41.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.3ca1012b-128d-4426-b2c0-1f2a06c28c32.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent_witherror.logol.3ca1012b-128d-4426-b2c0-1f2a06c28c32.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variablewitherroranddistance.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewitherroranddistance.logol.9a549618-724a-4a9a-b3f7-65892904850c.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.9a549618-724a-4a9a-b3f7-65892904850c.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewitherroranddistance.logol.9a549618-724a-4a9a-b3f7-65892904850c.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/complex.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/complex.logol.f5d09b63-2ac9-43cd-9a61-77dbd9f0f326.1-41.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.f5d09b63-2ac9-43cd-9a61-77dbd9f0f326.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/complex.logol.f5d09b63-2ac9-43cd-9a61-77dbd9f0f326.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variablewithdistance2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variablewithdistance2.logol.2d2bfda6-fd6c-4690-b57d-99845cbdf81d.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.2d2bfda6-fd6c-4690-b57d-99845cbdf81d.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variablewithdistance2.logol.2d2bfda6-fd6c-4690-b57d-99845cbdf81d.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variable_postcontent.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable_postcontent.logol.283a21bd-7856-4414-b2a7-5499915a69d0.1-41.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.283a21bd-7856-4414-b2a7-5499915a69d0.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable_postcontent.logol.283a21bd-7856-4414-b2a7-5499915a69d0.0-41-all.xml [junit] cgttttgggg [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/multiple_model.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/multiple_model.logol.b116d948-6946-48c5-a89d-efd35f45c207.1-41.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.b116d948-6946-48c5-a89d-efd35f45c207.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/multiple_model.logol.b116d948-6946-48c5-a89d-efd35f45c207.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.73a04d35-89fc-4b91-b876-e4576be8a75f.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.73a04d35-89fc-4b91-b876-e4576be8a75f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.73a04d35-89fc-4b91-b876-e4576be8a75f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.73a04d35-89fc-4b91-b876-e4576be8a75f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-gUuugM/logol-1.7.9/test/begin.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR10)==>"aaaa",.*,LOGOLVAR11%X1%:{@[10,12],#[2,8]} [junit] mod1(LOGOLVAR12)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/begin.lgd.74df0c14-f1d1-4dd2-b96b-1a2be814747f.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.74df0c14-f1d1-4dd2-b96b-1a2be814747f.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.74df0c14-f1d1-4dd2-b96b-1a2be814747f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/begin.lgd.74df0c14-f1d1-4dd2-b96b-1a2be814747f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/ruby-cassiopee.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/variable.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.Logol - option all called [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.ba74f296-b932-4632-9890-430f4ea07597.1-41.xml: 1 [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/variable.logol.ba74f296-b932-4632-9890-430f4ea07597.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.ba74f296-b932-4632-9890-430f4ea07597.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/variable.logol.ba74f296-b932-4632-9890-430f4ea07597.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/mycost.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/mycost.logol.dd6580e9-d060-48a7-95c7-bafa45bd81d9.1-41.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.dd6580e9-d060-48a7-95c7-bafa45bd81d9.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/mycost.logol.dd6580e9-d060-48a7-95c7-bafa45bd81d9.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option m called with /build/logol-gUuugM/logol-1.7.9/test/morphism.lgd [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Decoded grammar: [junit] mod1(LOGOLVAR12)==>"aaa",+"wc" "tgca" [junit] mod1(LOGOLVAR13)==*>SEQ1 [junit] INFO org.irisa.genouest.logol.utils.model.ModelConverter - Write grammar file ./test/tmp/morphism.lgd.c31579d2-25e0-47d6-900d-985c0d6a3cb6.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.c31579d2-25e0-47d6-900d-985c0d6a3cb6.1-41.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.c31579d2-25e0-47d6-900d-985c0d6a3cb6.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/morphism.lgd.c31579d2-25e0-47d6-900d-985c0d6a3cb6.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/repeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat.logol.382dc45d-e027-4939-85ac-a060077a0a82.1-41.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.382dc45d-e027-4939-85ac-a060077a0a82.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat.logol.382dc45d-e027-4939-85ac-a060077a0a82.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/parent_witherror2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/parent_witherror2.logol.30d79dda-9def-4304-bd0c-a060b46b8710.1-41.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.30d79dda-9def-4304-bd0c-a060b46b8710.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/parent_witherror2.logol.30d79dda-9def-4304-bd0c-a060b46b8710.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/external2.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/external2.logol.f371a0e7-bd82-42e7-8df2-5d95c359c405.1-41.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.f371a0e7-bd82-42e7-8df2-5d95c359c405.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/external2.logol.f371a0e7-bd82-42e7-8df2-5d95c359c405.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/repeat_interspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_interspacer.logol.665efcb1-1227-478d-9b66-e3793acf371a.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.665efcb1-1227-478d-9b66-e3793acf371a.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_interspacer.logol.665efcb1-1227-478d-9b66-e3793acf371a.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/notview.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/notview.logol.15f9c596-6a83-4f51-8db4-9bab6f8d9df7.1-41.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.15f9c596-6a83-4f51-8db4-9bab6f8d9df7.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notview.logol.15f9c596-6a83-4f51-8db4-9bab6f8d9df7.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/repeat_anyspacer.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/repeat_anyspacer.logol.3400654c-2a6f-4d3a-8692-b89a062dcc4f.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.3400654c-2a6f-4d3a-8692-b89a062dcc4f.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/repeat_anyspacer.logol.3400654c-2a6f-4d3a-8692-b89a062dcc4f.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/notrepeat.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/notrepeat.logol.ed19ea12-a27e-4760-b7f7-0309b7b7b8d7.1-41.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.ed19ea12-a27e-4760-b7f7-0309b7b7b8d7.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/notrepeat.logol.ed19ea12-a27e-4760-b7f7-0309b7b7b8d7.0-41-all.xml [junit] For help, use option -h [junit] INFO org.irisa.genouest.logol.Logol - option conf called with /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - Using configuration file: /build/logol-gUuugM/logol-1.7.9/test/logol.properties [junit] INFO org.irisa.genouest.logol.Logol - option g called with /build/logol-gUuugM/logol-1.7.9/test/or_condition.logol [junit] INFO org.irisa.genouest.logol.Logol - option s called with /build/logol-gUuugM/logol-1.7.9/test/test.fasta [junit] INFO org.irisa.genouest.logol.Logol - option max called with 10 [junit] INFO org.irisa.genouest.logol.utils.LogolUtils - Sequence not splitted, only 1 thread or job will analyse the sequence [junit] INFO org.irisa.genouest.logol.Logol - Start analyse to create grammar analyser [junit] Executing prolog for pre-analyse [junit] INFO org.irisa.genouest.logol.Logol - Analyse in progress.. [junit] WARN org.irisa.genouest.logol.SequenceAnalyser - Path to suffix search tool is not set in system environment. Will try to execute directly but may fail if not in PATH of current user [junit] INFO org.irisa.genouest.logol.Logol - ./test/tmp/or_condition.logol.5becd9b9-bbc8-4bda-9780-d533b5be2815.1-41.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.5becd9b9-bbc8-4bda-9780-d533b5be2815.0-41-all.xml [junit] INFO org.irisa.genouest.logol.test.GrammarTest - Checking file ./test/tmp/or_condition.logol.5becd9b9-bbc8-4bda-9780-d533b5be2815.0-41-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: 2 minutes 46 seconds mkdir -p test/tmp test/results ant -f build.xml doc Buildfile: /build/logol-gUuugM/logol-1.7.9/build.xml [taskdef] Could not load definitions from resource tasks.properties. 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Illegal parameter number in definition of \tags. [exec] [exec] 1 [exec] l.510 {\end{description}\end{quote}} [exec] [exec] ? [exec] ! Emergency stop. [exec] [exec] 1 [exec] l.510 {\end{description}\end{quote}} [exec] [exec] ! ==> Fatal error occurred, no output PDF file produced! [exec] Transcript written on logol.log. [exec] mv: cannot stat 'logol.pdf': No such file or directory [exec] Result: 1 BUILD SUCCESSFUL Total time: 7 seconds rm -f prolog/process.so chrpath -d prolog/logol.exe chrpath -d prolog/preanalyse.exe make[1]: Leaving directory '/build/logol-gUuugM/logol-1.7.9' dh_auto_test -a create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a dh_auto_install -a debian/rules override_dh_install make[1]: Entering directory '/build/logol-gUuugM/logol-1.7.9' dh_install rm -f debian/logol/usr/share/logol/prolog/*.c rm -f debian/logol/usr/share/logol/prolog/*.exe rm -f debian/logol/usr/share/logol/prolog/logol.properties rm -f debian/logol/usr/share/logol/tools/*.keep_old_script if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/*.sh; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/*.sh; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/*.rb; fi if [ -e debian/logol ]; then chmod -f 755 debian/logol/usr/share/logol/tools/mycostfunction; fi if [ ! -e debian/logol-bin/usr/share/logol/prolog ]; then mkdir -p debian/logol-bin/usr/share/logol/prolog; fi ln -s /usr/lib/swi-prolog/lib/x86_64-linux/process.so debian/logol-bin/usr/share/logol/prolog/process.so make[1]: Leaving directory '/build/logol-gUuugM/logol-1.7.9' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installexamples make[1]: Entering directory '/build/logol-gUuugM/logol-1.7.9' rm -f test/tmp/* rm -f test/results/* dh_installexamples make[1]: Leaving directory '/build/logol-gUuugM/logol-1.7.9' dh_installman -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dwz: debian/logol-bin/usr/lib/logol/logol.exe: .debug_info section not present dwz: debian/logol-bin/usr/lib/logol/preanalyse.exe: .debug_info section not present dwz: Too few files for multifile optimization dh_dwz: warning: No dwz multifile created, but not explicitly requested either so ignoring it. dh_dwz: warning: Common issues include no debug information at all (missing -g) and dh_dwz: warning: compressed debug information (#931891). debian/rules override_dh_strip make[1]: Entering directory '/build/logol-gUuugM/logol-1.7.9' dh_strip -Xlogol.exe -Xpreanalyse.exe make[1]: Leaving directory '/build/logol-gUuugM/logol-1.7.9' dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'logol-bin' in '../logol-bin_1.7.9-3_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../logol_1.7.9-3_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/logol-gUuugM /tmp/logol-1.7.9-3h6a3akf7 I: cleaning package lists and apt cache... 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