0s autopkgtest [02:36:10]: starting date and time: 2024-03-27 02:36:10+0000 0s autopkgtest [02:36:10]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [02:36:10]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.od3o218z/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:augustus,src:curl,src:gnutls28,src:htslib,src:libpsl,src:nettle,src:openssl --apt-upgrade augustus --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=augustus/3.5.0+dfsg-4build2 curl/8.5.0-2ubuntu8 gnutls28/3.8.3-1.1ubuntu2 htslib/1.19+ds-1.1build2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos03-arm64-14.secgroup --name adt-noble-arm64-augustus-20240327-023609-juju-7f2275-prod-proposed-migration-environment-3-d663e7c5-ebcd-4585-b742-630c18e6427d --image adt/ubuntu-noble-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 78s autopkgtest [02:37:28]: testbed dpkg architecture: arm64 79s autopkgtest [02:37:29]: testbed apt version: 2.7.12 79s autopkgtest [02:37:29]: @@@@@@@@@@@@@@@@@@@@ test bed setup 79s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 80s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [8504 B] 80s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [55.4 kB] 80s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3984 kB] 80s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [497 kB] 80s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [717 kB] 80s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 80s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [43.0 kB] 80s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 80s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [4303 kB] 80s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 80s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [71.0 kB] 80s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 82s Fetched 9808 kB in 2s (5018 kB/s) 82s Reading package lists... 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 86s Calculating upgrade... 87s The following packages will be REMOVED: 87s libssl3 87s The following NEW packages will be installed: 87s libssl3t64 87s The following packages have been kept back: 87s curl 87s The following packages will be upgraded: 87s openssl 87s 1 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 87s Need to get 2777 kB of archives. 87s After this operation, 139 kB of additional disk space will be used. 87s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu2 [985 kB] 88s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu2 [1793 kB] 89s Fetched 2777 kB in 1s (3190 kB/s) 90s (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 ... 74816 files and directories currently installed.) 90s Preparing to unpack .../openssl_3.0.13-0ubuntu2_arm64.deb ... 90s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 90s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: 90s wget depends on libssl3 (>= 3.0.0). 90s u-boot-tools depends on libssl3 (>= 3.0.0). 90s tnftp depends on libssl3 (>= 3.0.0). 90s tcpdump depends on libssl3 (>= 3.0.0). 90s systemd-resolved depends on libssl3 (>= 3.0.0). 90s systemd depends on libssl3 (>= 3.0.0). 90s sudo depends on libssl3 (>= 3.0.0). 90s sbsigntool depends on libssl3 (>= 3.0.0). 90s rsync depends on libssl3 (>= 3.0.0). 90s python3-cryptography depends on libssl3 (>= 3.0.0). 90s openssh-server depends on libssl3 (>= 3.0.10). 90s openssh-client depends on libssl3 (>= 3.0.10). 90s mtd-utils depends on libssl3 (>= 3.0.0). 90s mokutil depends on libssl3 (>= 3.0.0). 90s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 90s libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0). 90s libssh-4:arm64 depends on libssl3 (>= 3.0.0). 90s libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0). 90s libsasl2-2:arm64 depends on libssl3 (>= 3.0.0). 90s libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0). 90s libnvme1 depends on libssl3 (>= 3.0.0). 90s libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). 90s libkmod2:arm64 depends on libssl3 (>= 3.0.0). 90s libfido2-1:arm64 depends on libssl3 (>= 3.0.0). 90s libcurl4:arm64 depends on libssl3 (>= 3.0.0). 90s libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0). 90s kmod depends on libssl3 (>= 3.0.0). 90s dhcpcd-base depends on libssl3 (>= 3.0.0). 90s bind9-libs:arm64 depends on libssl3 (>= 3.0.0). 90s 90s (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 ... 74816 files and directories currently installed.) 90s Removing libssl3:arm64 (3.0.10-1ubuntu4) ... 90s Selecting previously unselected package libssl3t64:arm64. 90s (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 ... 74805 files and directories currently installed.) 90s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_arm64.deb ... 90s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu2) ... 90s Setting up libssl3t64:arm64 (3.0.13-0ubuntu2) ... 90s Setting up openssl (3.0.13-0ubuntu2) ... 90s Processing triggers for man-db (2.12.0-3) ... 91s Processing triggers for libc-bin (2.39-0ubuntu6) ... 91s Reading package lists... 92s Building dependency tree... 92s Reading state information... 92s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 93s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 93s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 93s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 93s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease 95s Reading package lists... 95s Reading package lists... 95s Building dependency tree... 95s Reading state information... 96s Calculating upgrade... 96s The following packages have been kept back: 96s curl 96s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 96s Reading package lists... 96s Building dependency tree... 96s Reading state information... 97s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 100s autopkgtest [02:37:50]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 101s autopkgtest [02:37:51]: @@@@@@@@@@@@@@@@@@@@ apt-source augustus 109s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/universe augustus 3.5.0+dfsg-4build2 (dsc) [2479 B] 109s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe augustus 3.5.0+dfsg-4build2 (tar) [152 MB] 109s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe augustus 3.5.0+dfsg-4build2 (diff) [20.4 kB] 110s gpgv: Signature made Fri Mar 22 15:49:30 2024 UTC 110s gpgv: using RSA key 4FB588A84C2DDE79A74C77876FA458DD1DB03F71 110s gpgv: issuer "juliank@ubuntu.com" 110s gpgv: Can't check signature: No public key 110s dpkg-source: warning: cannot verify inline signature for ./augustus_3.5.0+dfsg-4build2.dsc: no acceptable signature found 122s autopkgtest [02:38:12]: testing package augustus version 3.5.0+dfsg-4build2 123s autopkgtest [02:38:13]: build not needed 163s autopkgtest [02:38:53]: test test-example: preparing testbed 165s Reading package lists... 165s Building dependency tree... 165s Reading state information... 165s Starting pkgProblemResolver with broken count: 0 165s Starting 2 pkgProblemResolver with broken count: 0 165s Done 166s The following additional packages will be installed: 166s augustus augustus-data augustus-doc curl libbamtools2.5.2 166s libboost-iostreams1.83.0 libcolamd3 libcurl3t64-gnutls libcurl4t64 166s libdeflate0 libgnutls30t64 libgomp1 libgsl27 libgslcblas0 libhogweed6t64 166s libhts3t64 libhtscodecs2 libmysql++3v5 libmysqlclient21 libnettle8t64 166s libpsl5t64 libsuitesparseconfig7 mysql-common 166s Suggested packages: 166s cdbfasta diamond-aligner libfile-which-perl libparallel-forkmanager-perl 166s libyaml-perl libdbd-mysql-perl python3-biopython gnutls-bin gsl-ref-psdoc 166s | gsl-doc-pdf | gsl-doc-info | gsl-ref-html 166s Recommended packages: 166s samtools 166s The following packages will be REMOVED: 166s libcurl3-gnutls libcurl4 libgnutls30 libhogweed6 libnettle8 libpsl5 166s The following NEW packages will be installed: 166s augustus augustus-data augustus-doc autopkgtest-satdep libbamtools2.5.2 166s libboost-iostreams1.83.0 libcolamd3 libcurl3t64-gnutls libcurl4t64 166s libdeflate0 libgnutls30t64 libgomp1 libgsl27 libgslcblas0 libhogweed6t64 166s libhts3t64 libhtscodecs2 libmysql++3v5 libmysqlclient21 libnettle8t64 166s libpsl5t64 libsuitesparseconfig7 mysql-common 166s The following packages will be upgraded: 166s curl 166s 1 upgraded, 23 newly installed, 6 to remove and 0 not upgraded. 166s Need to get 53.9 MB/53.9 MB of archives. 166s After this operation, 315 MB of additional disk space will be used. 166s Get:1 /tmp/autopkgtest.0uVNl1/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [712 B] 166s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libnettle8t64 arm64 3.9.1-2.2 [192 kB] 167s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libhogweed6t64 arm64 3.9.1-2.2 [199 kB] 167s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgnutls30t64 arm64 3.8.3-1.1ubuntu2 [1042 kB] 167s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcurl4t64 arm64 8.5.0-2ubuntu8 [332 kB] 167s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 curl arm64 8.5.0-2ubuntu8 [222 kB] 167s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libpsl5t64 arm64 0.21.2-1.1 [57.4 kB] 167s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libcurl3t64-gnutls arm64 8.5.0-2ubuntu8 [327 kB] 167s Get:9 http://ftpmaster.internal/ubuntu noble/universe arm64 libbamtools2.5.2 arm64 2.5.2+dfsg-4 [134 kB] 167s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 libboost-iostreams1.83.0 arm64 1.83.0-2ubuntu1 [339 kB] 167s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 libgomp1 arm64 14-20240303-1ubuntu1 [144 kB] 167s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 libsuitesparseconfig7 arm64 1:7.6.1+dfsg-1 [12.4 kB] 167s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 libcolamd3 arm64 1:7.6.1+dfsg-1 [18.1 kB] 167s Get:14 http://ftpmaster.internal/ubuntu noble/universe arm64 libgslcblas0 arm64 2.7.1+dfsg-6ubuntu1 [72.5 kB] 167s Get:15 http://ftpmaster.internal/ubuntu noble/universe arm64 libgsl27 arm64 2.7.1+dfsg-6ubuntu1 [912 kB] 167s Get:16 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB] 167s Get:17 http://ftpmaster.internal/ubuntu noble/universe arm64 libhtscodecs2 arm64 1.6.0-1 [78.1 kB] 167s Get:18 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libhts3t64 arm64 1.19+ds-1.1build2 [429 kB] 167s Get:19 http://ftpmaster.internal/ubuntu noble/main arm64 mysql-common all 5.8+1.1.0 [6626 B] 167s Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 libmysqlclient21 arm64 8.0.36-1 [1271 kB] 167s Get:21 http://ftpmaster.internal/ubuntu noble/universe arm64 libmysql++3v5 arm64 3.2.5-2.1 [98.2 kB] 167s Get:22 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 augustus-data all 3.5.0+dfsg-4build2 [22.8 MB] 168s Get:23 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 augustus arm64 3.5.0+dfsg-4build2 [1648 kB] 168s Get:24 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 augustus-doc all 3.5.0+dfsg-4build2 [23.5 MB] 169s Fetched 53.9 MB in 2s (22.4 MB/s) 169s dpkg: libhogweed6:arm64: dependency problems, but removing anyway as you requested: 169s librtmp1:arm64 depends on libhogweed6. 169s libjcat1:arm64 depends on libhogweed6. 169s libgnutls30:arm64 depends on libhogweed6 (>= 3.6). 169s 169s (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 ... 74818 files and directories currently installed.) 169s Removing libhogweed6:arm64 (3.9.1-2) ... 169s dpkg: libnettle8:arm64: dependency problems, but removing anyway as you requested: 169s librtmp1:arm64 depends on libnettle8. 169s libgnutls30:arm64 depends on libnettle8 (>= 3.9~). 169s libcurl3-gnutls:arm64 depends on libnettle8. 169s libarchive13:arm64 depends on libnettle8. 169s 169s Removing libnettle8:arm64 (3.9.1-2) ... 170s Selecting previously unselected package libnettle8t64:arm64. 170s (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 ... 74806 files and directories currently installed.) 170s Preparing to unpack .../libnettle8t64_3.9.1-2.2_arm64.deb ... 170s Unpacking libnettle8t64:arm64 (3.9.1-2.2) ... 170s Selecting previously unselected package libhogweed6t64:arm64. 170s Preparing to unpack .../libhogweed6t64_3.9.1-2.2_arm64.deb ... 170s Unpacking libhogweed6t64:arm64 (3.9.1-2.2) ... 171s dpkg: libgnutls30:arm64: dependency problems, but removing anyway as you requested: 171s u-boot-tools depends on libgnutls30 (>= 3.7.3). 171s librtmp1:arm64 depends on libgnutls30 (>= 3.7.2). 171s libldap2:arm64 depends on libgnutls30 (>= 3.8.2). 171s libjcat1:arm64 depends on libgnutls30 (>= 3.7.3). 171s libcurl3-gnutls:arm64 depends on libgnutls30 (>= 3.8.2). 171s fwupd depends on libgnutls30 (>= 3.7.3). 171s dirmngr depends on libgnutls30 (>= 3.8.1). 171s apt depends on libgnutls30 (>= 3.8.1). 171s 171s (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 ... 74820 files and directories currently installed.) 171s Removing libgnutls30:arm64 (3.8.3-1ubuntu1) ... 171s Selecting previously unselected package libgnutls30t64:arm64. 171s (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 ... 74811 files and directories currently installed.) 171s Preparing to unpack .../libgnutls30t64_3.8.3-1.1ubuntu2_arm64.deb ... 171s Unpacking libgnutls30t64:arm64 (3.8.3-1.1ubuntu2) ... 171s dpkg: libcurl4:arm64: dependency problems, but removing anyway as you requested: 171s curl depends on libcurl4 (= 8.5.0-2ubuntu2). 171s 171s (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 ... 74839 files and directories currently installed.) 171s Removing libcurl4:arm64 (8.5.0-2ubuntu2) ... 171s Selecting previously unselected package libcurl4t64:arm64. 171s (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 ... 74834 files and directories currently installed.) 171s Preparing to unpack .../libcurl4t64_8.5.0-2ubuntu8_arm64.deb ... 171s Unpacking libcurl4t64:arm64 (8.5.0-2ubuntu8) ... 171s Preparing to unpack .../curl_8.5.0-2ubuntu8_arm64.deb ... 171s Unpacking curl (8.5.0-2ubuntu8) over (8.5.0-2ubuntu2) ... 171s dpkg: libpsl5:arm64: dependency problems, but removing anyway as you requested: 171s wget depends on libpsl5 (>= 0.16.0). 171s libcurl3-gnutls:arm64 depends on libpsl5 (>= 0.16.0). 171s 171s (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 ... 74840 files and directories currently installed.) 171s Removing libpsl5:arm64 (0.21.2-1build1) ... 171s Selecting previously unselected package libpsl5t64:arm64. 171s (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 ... 74835 files and directories currently installed.) 171s Preparing to unpack .../libpsl5t64_0.21.2-1.1_arm64.deb ... 171s Unpacking libpsl5t64:arm64 (0.21.2-1.1) ... 171s dpkg: libcurl3-gnutls:arm64: dependency problems, but removing anyway as you requested: 171s libfwupd2:arm64 depends on libcurl3-gnutls (>= 7.63.0). 171s fwupd depends on libcurl3-gnutls (>= 7.63.0). 171s 171s (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 ... 74841 files and directories currently installed.) 171s Removing libcurl3-gnutls:arm64 (8.5.0-2ubuntu2) ... 172s Selecting previously unselected package libcurl3t64-gnutls:arm64. 172s (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 ... 74834 files and directories currently installed.) 172s Preparing to unpack .../00-libcurl3t64-gnutls_8.5.0-2ubuntu8_arm64.deb ... 172s Unpacking libcurl3t64-gnutls:arm64 (8.5.0-2ubuntu8) ... 172s Selecting previously unselected package libbamtools2.5.2:arm64. 172s Preparing to unpack .../01-libbamtools2.5.2_2.5.2+dfsg-4_arm64.deb ... 172s Unpacking libbamtools2.5.2:arm64 (2.5.2+dfsg-4) ... 172s Selecting previously unselected package libboost-iostreams1.83.0:arm64. 172s Preparing to unpack .../02-libboost-iostreams1.83.0_1.83.0-2ubuntu1_arm64.deb ... 172s Unpacking libboost-iostreams1.83.0:arm64 (1.83.0-2ubuntu1) ... 172s Selecting previously unselected package libgomp1:arm64. 172s Preparing to unpack .../03-libgomp1_14-20240303-1ubuntu1_arm64.deb ... 172s Unpacking libgomp1:arm64 (14-20240303-1ubuntu1) ... 172s Selecting previously unselected package libsuitesparseconfig7:arm64. 172s Preparing to unpack .../04-libsuitesparseconfig7_1%3a7.6.1+dfsg-1_arm64.deb ... 172s Unpacking libsuitesparseconfig7:arm64 (1:7.6.1+dfsg-1) ... 172s Selecting previously unselected package libcolamd3:arm64. 172s Preparing to unpack .../05-libcolamd3_1%3a7.6.1+dfsg-1_arm64.deb ... 172s Unpacking libcolamd3:arm64 (1:7.6.1+dfsg-1) ... 172s Selecting previously unselected package libgslcblas0:arm64. 172s Preparing to unpack .../06-libgslcblas0_2.7.1+dfsg-6ubuntu1_arm64.deb ... 172s Unpacking libgslcblas0:arm64 (2.7.1+dfsg-6ubuntu1) ... 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autopkgtest-satdep (0) ... 175s Setting up libhtscodecs2:arm64 (1.6.0-1) ... 175s Setting up mysql-common (5.8+1.1.0) ... 175s update-alternatives: using /etc/mysql/my.cnf.fallback to provide /etc/mysql/my.cnf (my.cnf) in auto mode 175s Setting up libmysqlclient21:arm64 (8.0.36-1) ... 175s Setting up libgslcblas0:arm64 (2.7.1+dfsg-6ubuntu1) ... 175s Setting up libpsl5t64:arm64 (0.21.2-1.1) ... 175s Setting up libdeflate0:arm64 (1.19-1) ... 175s Setting up libgsl27:arm64 (2.7.1+dfsg-6ubuntu1) ... 175s Setting up libgomp1:arm64 (14-20240303-1ubuntu1) ... 175s Setting up augustus-data (3.5.0+dfsg-4build2) ... 175s Setting up augustus-doc (3.5.0+dfsg-4build2) ... 175s Setting up libnettle8t64:arm64 (3.9.1-2.2) ... 175s Setting up libboost-iostreams1.83.0:arm64 (1.83.0-2ubuntu1) ... 175s Setting up libmysql++3v5:arm64 (3.2.5-2.1) ... 175s Setting up libbamtools2.5.2:arm64 (2.5.2+dfsg-4) ... 175s Setting up libhogweed6t64:arm64 (3.9.1-2.2) ... 175s Setting up libsuitesparseconfig7:arm64 (1:7.6.1+dfsg-1) ... 175s Setting up libgnutls30t64:arm64 (3.8.3-1.1ubuntu2) ... 175s Setting up libcurl4t64:arm64 (8.5.0-2ubuntu8) ... 175s Setting up libcolamd3:arm64 (1:7.6.1+dfsg-1) ... 175s Setting up libcurl3t64-gnutls:arm64 (8.5.0-2ubuntu8) ... 175s Setting up libhts3t64:arm64 (1.19+ds-1.1build2) ... 175s Setting up curl (8.5.0-2ubuntu8) ... 175s Setting up augustus (3.5.0+dfsg-4build2) ... 175s Setting up autopkgtest-satdep (0) ... 175s Processing triggers for man-db (2.12.0-3) ... 175s Processing triggers for libc-bin (2.39-0ubuntu6) ... 180s (Reading database ... 77102 files and directories currently installed.) 180s Removing autopkgtest-satdep (0) ... 181s autopkgtest [02:39:11]: test test-example: [----------------------- 181s # This output was generated with AUGUSTUS (version 3.5.0). 181s # AUGUSTUS is a gene prediction tool written by M. Stanke (mario.stanke@uni-greifswald.de), 181s # O. Keller, S. König, L. Gerischer, L. Romoth, Katharina Hoff, Henry Mehlan and Daniel Honsel. 181s # Please cite: Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler (2008), 181s # Using native and syntenically mapped cDNA alignments to improve de novo gene finding 181s # Bioinformatics 24: 637-644, doi 10.1093/bioinformatics/btn013 181s # No extrinsic information on sequences given. 181s # Sources of extrinsic information: M RM 181s # Initializing the parameters using config directory /usr/share/augustus/config/ ... 181s # human version. Using species specific transition matrix: /usr/share/augustus/config/species/human/human_trans_shadow_partial_utr.pbl 181s # Looks like /tmp/autopkgtest.0uVNl1/build.soj/src/examples/example.fa is in fasta format. 181s # We have hints for 0 sequences and for 0 of the sequences in the input set. 181s # 181s # ----- prediction on sequence number 1 (length = 9453, name = HS04636) ----- 181s # 181s # Predicted genes for sequence number 1 on both strands 182s # start gene g1 182s HS04636 AUGUSTUS gene 836 8857 1 + . g1 182s HS04636 AUGUSTUS transcript 836 8857 . + . g1.t1 182s HS04636 AUGUSTUS tss 836 836 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 836 1017 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS start_codon 966 968 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 966 1017 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 1818 1934 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 1818 1934 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 2055 2198 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 2055 2198 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 2852 2995 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 2852 2995 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 3426 3607 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 3426 3607 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 4340 4423 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 4340 4423 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 4543 4789 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 4543 4789 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 5072 5358 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 5072 5358 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 5860 6007 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 5860 6007 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 6494 6903 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS exon 6494 8857 . + . transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS stop_codon 6901 6903 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS tts 8857 8857 . + . transcript_id "g1.t1"; gene_id "g1"; 182s # protein sequence = [MLARALLLCAVLALSHTANPCCSHPCQNRGVCMSVGFDQYKCDCTRTGFYGENCSTPEFLTRIKLFLKPTPNTVHYIL 182s # THFKGFWNVVNNIPFLRNAIMSYVLTSRSHLIDSPPTYNADYGYKSWEAFSNLSYYTRALPPVPDDCPTPLGVKGKKQLPDSNEIVEKLLLRRKFIPD 182s # PQGSNMMFAFFAQHFTHQFFKTDHKRGPAFTNGLGHGVDLNHIYGETLARQRKLRLFKDGKMKYQIIDGEMYPPTVKDTQAEMIYPPQVPEHLRFAVG 182s # QEVFGLVPGLMMYATIWLREHNRVCDVLKQEHPEWGDEQLFQTSRLILIGETIKIVIEDYVQHLSGYHFKLKFDPELLFNKQFQYQNRIAAEFNTLYH 182s # WHPLLPDTFQIHDQKYNYQQFIYNNSILLEHGITQFVESFTRQIAGRVAGGRNVPPAVQKVSQASIDQSRQMKYQSFNEYRKRFMLKPYESFEELTGE 182s # KEMSAELEALYGDIDAVELYPALLVEKPRPDAIFGETMVEVGAPFSLKGLMGNVICSPAYWKPSTFGGEVGFQIINTASIQSLICNNVKGCPFTSFSV 182s # PDPELIKTVTINASSSRSGLDDINPTVLLKERSTEL] 182s # Evidence for and against this transcript: 182s # % of transcript supported by hints (any source): 0 182s # CDS exons: 0/10 182s # CDS introns: 0/9 182s # 5'UTR exons and introns: 0/1 182s # 3'UTR exons and introns: 0/1 182s # hint groups fully obeyed: 0 182s # incompatible hint groups: 0 182s # end gene g1 182s ### 182s # 182s # ----- prediction on sequence number 2 (length = 2344, name = HS08198) ----- 182s # 182s # Predicted genes for sequence number 2 on both strands 182s # start gene g2 182s HS08198 AUGUSTUS gene 86 2344 1 + . g2 182s HS08198 AUGUSTUS transcript 86 2344 . + . g2.t1 182s HS08198 AUGUSTUS tss 86 86 . + . transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS exon 86 582 . + . transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS start_codon 445 447 . + 0 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 445 582 . + 0 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 812 894 . + 0 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS exon 812 894 . + . transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 1053 1123 . + 1 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS exon 1053 1123 . + . transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 1208 1315 . + 2 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS exon 1208 1315 . + . transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 1587 1688 . + 2 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS exon 1587 1688 . + . transcript_id "g2.t1"; gene_id "g2"; 182s # protein sequence = [MLPPGTATLLTLLLAAGSLGQKPQRPRRPASPISTIQPKANFDAQQEQGHRAEATTLHVAPQGTAMAVSTFRKLDGIC 182s # WQVRQLYGDTGVLGRFLLQARGARGAVHVVVAETDYQSFAVLYLERAGQLSVKLYARSLPVSDSVLSGFEQRVQEAHLTEDQIFYFPKY] 182s # Evidence for and against this transcript: 182s # % of transcript supported by hints (any source): 0 182s # CDS exons: 0/5 182s # CDS introns: 0/5 182s # 5'UTR exons and introns: 0/1 182s # 3'UTR exons and introns: 0/0 182s # hint groups fully obeyed: 0 182s # incompatible hint groups: 0 182s # end gene g2 182s ### 182s # command line: 182s # augustus --species=human --UTR=on /tmp/autopkgtest.0uVNl1/build.soj/src/examples/example.fa 182s # This output was generated with AUGUSTUS (version 3.5.0). 182s # AUGUSTUS is a gene prediction tool written by M. Stanke (mario.stanke@uni-greifswald.de), 182s # O. Keller, S. König, L. Gerischer, L. Romoth, Katharina Hoff, Henry Mehlan and Daniel Honsel. 182s # Please cite: Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler (2008), 182s # Using native and syntenically mapped cDNA alignments to improve de novo gene finding 182s # Bioinformatics 24: 637-644, doi 10.1093/bioinformatics/btn013 182s # Sources of extrinsic information: M P E RM 182s # Setting 1group1gene for E. 182s # reading in the file /tmp/autopkgtest.0uVNl1/build.soj/src/examples/hints.gff ... 182s # Have extrinsic information about 2 sequences (in the specified range). 182s # Initializing the parameters using config directory /usr/share/augustus/config/ ... 182s # human version. Using default transition matrix. 182s # Looks like /tmp/autopkgtest.0uVNl1/build.soj/src/examples/example.fa is in fasta format. 182s # We have hints for 2 sequences and for 2 of the sequences in the input set. 182s # 182s # ----- prediction on sequence number 1 (length = 9453, name = HS04636) ----- 182s # 182s # Predicted genes for sequence number 1 on both strands 182s # start gene g1 182s HS04636 AUGUSTUS gene 966 7633 1 + . g1 182s HS04636 AUGUSTUS transcript 966 7633 . + . g1.t1 182s HS04636 AUGUSTUS start_codon 966 968 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 966 1017 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 1818 1934 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 2055 2198 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 2852 2995 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 3426 3607 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 4340 4423 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 4543 4789 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 5072 5358 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 5860 6007 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 6494 6554 . + 2 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS CDS 7627 7633 . + 1 transcript_id "g1.t1"; gene_id "g1"; 182s HS04636 AUGUSTUS stop_codon 7631 7633 . + 0 transcript_id "g1.t1"; gene_id "g1"; 182s # protein sequence = [MLARALLLCAVLALSHTANPCCSHPCQNRGVCMSVGFDQYKCDCTRTGFYGENCSTPEFLTRIKLFLKPTPNTVHYIL 182s # THFKGFWNVVNNIPFLRNAIMSYVLTSRSHLIDSPPTYNADYGYKSWEAFSNLSYYTRALPPVPDDCPTPLGVKGKKQLPDSNEIVEKLLLRRKFIPD 182s # PQGSNMMFAFFAQHFTHQFFKTDHKRGPAFTNGLGHGVDLNHIYGETLARQRKLRLFKDGKMKYQIIDGEMYPPTVKDTQAEMIYPPQVPEHLRFAVG 182s # QEVFGLVPGLMMYATIWLREHNRVCDVLKQEHPEWGDEQLFQTSRLILIGETIKIVIEDYVQHLSGYHFKLKFDPELLFNKQFQYQNRIAAEFNTLYH 182s # WHPLLPDTFQIHDQKYNYQQFIYNNSILLEHGITQFVESFTRQIAGRVAGGRNVPPAVQKVSQASIDQSRQMKYQSFNEYRKRFMLKPYESFEELTGE 182s # KEMSAELEALYGDIDAVELV] 182s # Evidence for and against this transcript: 182s # % of transcript supported by hints (any source): 4.76 182s # CDS exons: 1/11 182s # P: 1 182s # CDS introns: 0/10 182s # 5'UTR exons and introns: 0/0 182s # 3'UTR exons and introns: 0/0 182s # hint groups fully obeyed: 2 182s # E: 1 182s # P: 1 182s # incompatible hint groups: 2 182s # M: 1 182s # P: 1 182s # end gene g1 182s ### 182s # 182s # ----- prediction on sequence number 2 (length = 2344, name = HS08198) ----- 182s # 182s # Predicted genes for sequence number 2 on both strands 182s # start gene g2 182s HS08198 AUGUSTUS gene 445 2344 1 + . g2 182s HS08198 AUGUSTUS transcript 445 2344 . + . g2.t1 182s HS08198 AUGUSTUS start_codon 445 447 . + 0 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 445 582 . + 0 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 758 894 . + 0 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 1053 1123 . + 1 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 1208 1315 . + 2 transcript_id "g2.t1"; gene_id "g2"; 182s HS08198 AUGUSTUS CDS 1587 1688 . + 2 transcript_id "g2.t1"; gene_id "g2"; 182s # protein sequence = [MLPPGTATLLTLLLAAGSLGQKPQRPRRPASPISTIQPKANFDAQQFAGTWLLVAVGSACRFLQEQGHRAEATTLHVA 182s # PQGTAMAVSTFRKLDGICWQVRQLYGDTGVLGRFLLQARGARGAVHVVVAETDYQSFAVLYLERAGQLSVKLYARSLPVSDSVLSGFEQRVQEAHLTE 182s # DQIFYFPKY] 182s # Evidence for and against this transcript: 182s # % of transcript supported by hints (any source): 10 182s # CDS exons: 0/5 182s # CDS introns: 1/5 182s # M: 1 182s # 5'UTR exons and introns: 0/0 182s # 3'UTR exons and introns: 0/0 182s # hint groups fully obeyed: 2 182s # E: 1 182s # M: 1 182s # incompatible hint groups: 1 182s # M: 1 182s # end gene g2 182s ### 182s # command line: 182s # augustus --species=human --hintsfile=/tmp/autopkgtest.0uVNl1/build.soj/src/examples/hints.gff --extrinsicCfgFile=/usr/share/augustus/config/extrinsic/extrinsic.MPE.cfg /tmp/autopkgtest.0uVNl1/build.soj/src/examples/example.fa 183s autopkgtest [02:39:13]: test test-example: -----------------------] 184s autopkgtest [02:39:14]: test test-example: - - - - - - - - - - results - - - - - - - - - - 184s test-example PASS 184s autopkgtest [02:39:14]: test test-example-with-training: preparing testbed 186s Reading package lists... 186s Building dependency tree... 186s Reading state information... 186s Starting pkgProblemResolver with broken count: 0 186s Starting 2 pkgProblemResolver with broken count: 0 186s Done 187s The following NEW packages will be installed: 187s autopkgtest-satdep 187s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 187s Need to get 0 B/712 B of archives. 187s After this operation, 0 B of additional disk space will be used. 187s Get:1 /tmp/autopkgtest.0uVNl1/2-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [712 B] 188s Selecting previously unselected package autopkgtest-satdep. 188s (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 ... 77102 files and directories currently installed.) 188s Preparing to unpack .../2-autopkgtest-satdep.deb ... 188s Unpacking autopkgtest-satdep (0) ... 188s Setting up autopkgtest-satdep (0) ... 191s (Reading database ... 77102 files and directories currently installed.) 191s Removing autopkgtest-satdep (0) ... 192s autopkgtest [02:39:22]: test test-example-with-training: [----------------------- 192s '/usr/share/augustus/config' -> './config' 192s '/usr/share/augustus/config/cgp' -> './config/cgp' 192s '/usr/share/augustus/config/cgp/cgp_param_21features_accuracy_largerGrid.convDivCorrect.cfg' -> './config/cgp/cgp_param_21features_accuracy_largerGrid.convDivCorrect.cfg' 192s '/usr/share/augustus/config/cgp/log_reg_parameters_arabidopsis.cfg' -> './config/cgp/log_reg_parameters_arabidopsis.cfg' 192s '/usr/share/augustus/config/cgp/log_reg_parameters_default.cfg' -> './config/cgp/log_reg_parameters_default.cfg' 192s '/usr/share/augustus/config/cgp/log_reg_parameters_fly.cfg' -> './config/cgp/log_reg_parameters_fly.cfg' 192s '/usr/share/augustus/config/cgp/log_reg_parameters_human.cfg' -> './config/cgp/log_reg_parameters_human.cfg' 192s '/usr/share/augustus/config/cgp/log_reg_parameters_primates.cfg' -> './config/cgp/log_reg_parameters_primates.cfg' 192s '/usr/share/augustus/config/cgp/log_reg_parameters_s_aureus.cfg' -> './config/cgp/log_reg_parameters_s_aureus.cfg' 192s '/usr/share/augustus/config/extrinsic' -> './config/extrinsic' 192s '/usr/share/augustus/config/extrinsic/extrinsic-cgp.cfg' -> './config/extrinsic/extrinsic-cgp.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.E.XNT.cfg' -> './config/extrinsic/extrinsic.E.XNT.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.E.cfg' -> './config/extrinsic/extrinsic.E.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.M.RM.E.W.P.cfg' -> './config/extrinsic/extrinsic.M.RM.E.W.P.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.M.RM.E.W.cfg' -> './config/extrinsic/extrinsic.M.RM.E.W.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.M.RM.PB.cfg' -> './config/extrinsic/extrinsic.M.RM.PB.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.ME.cfg' -> './config/extrinsic/extrinsic.ME.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.MEMS.cfg' -> './config/extrinsic/extrinsic.MEMS.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.MP.cfg' -> './config/extrinsic/extrinsic.MP.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.MPE.cfg' -> './config/extrinsic/extrinsic.MPE.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.MT.cfg' -> './config/extrinsic/extrinsic.MT.cfg' 192s '/usr/share/augustus/config/extrinsic/extrinsic.cfg' -> './config/extrinsic/extrinsic.cfg' 192s '/usr/share/augustus/config/model' -> './config/model' 192s '/usr/share/augustus/config/model/constraints_shadow_partial.txt' -> './config/model/constraints_shadow_partial.txt' 192s '/usr/share/augustus/config/model/constraints_shadow_partial_utr.txt' -> './config/model/constraints_shadow_partial_utr.txt' 192s '/usr/share/augustus/config/model/ovlp_len.pbl' -> './config/model/ovlp_len.pbl' 192s '/usr/share/augustus/config/model/ovlp_len_archaea.pbl' -> './config/model/ovlp_len_archaea.pbl' 192s '/usr/share/augustus/config/model/states_shadow.cfg' -> './config/model/states_shadow.cfg' 192s '/usr/share/augustus/config/model/states_shadow_2igenic.cfg' -> './config/model/states_shadow_2igenic.cfg' 192s '/usr/share/augustus/config/model/states_shadow_bacterium.cfg' -> './config/model/states_shadow_bacterium.cfg' 192s '/usr/share/augustus/config/model/states_shadow_intronless.cfg' -> './config/model/states_shadow_intronless.cfg' 192s '/usr/share/augustus/config/model/states_shadow_utr.cfg' -> './config/model/states_shadow_utr.cfg' 192s '/usr/share/augustus/config/model/states_shadow_utr_nc.cfg' -> './config/model/states_shadow_utr_nc.cfg' 192s '/usr/share/augustus/config/model/states_singlestrand.cfg' -> './config/model/states_singlestrand.cfg' 192s '/usr/share/augustus/config/model/states_singlestrand_2igenic.cfg' -> './config/model/states_singlestrand_2igenic.cfg' 192s '/usr/share/augustus/config/model/trans_shadow_atleastone.pbl' -> './config/model/trans_shadow_atleastone.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_bacterium.pbl' -> './config/model/trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_complete.pbl' -> './config/model/trans_shadow_complete.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_complete_utr.pbl' -> './config/model/trans_shadow_complete_utr.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_exactlyone.pbl' -> './config/model/trans_shadow_exactlyone.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_intronless.pbl' -> './config/model/trans_shadow_intronless.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_partial.pbl' -> './config/model/trans_shadow_partial.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_partial_utr.pbl' -> './config/model/trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/model/trans_shadow_partial_utr_nc.pbl' -> './config/model/trans_shadow_partial_utr_nc.pbl' 192s '/usr/share/augustus/config/model/trans_singlestrand_atleastone.pbl' -> './config/model/trans_singlestrand_atleastone.pbl' 192s '/usr/share/augustus/config/model/trans_singlestrand_complete.pbl' -> './config/model/trans_singlestrand_complete.pbl' 192s '/usr/share/augustus/config/model/trans_singlestrand_exactlyone.pbl' -> './config/model/trans_singlestrand_exactlyone.pbl' 192s '/usr/share/augustus/config/model/trans_singlestrand_partial.pbl' -> './config/model/trans_singlestrand_partial.pbl' 192s '/usr/share/augustus/config/parameters' -> './config/parameters' 192s '/usr/share/augustus/config/parameters/AUG_CMDLN_PARAMETERS.md' -> './config/parameters/AUG_CMDLN_PARAMETERS.md' 192s '/usr/share/augustus/config/parameters/aug_cmdln_parameters.json' -> './config/parameters/aug_cmdln_parameters.json' 192s '/usr/share/augustus/config/profile' -> './config/profile' 192s '/usr/share/augustus/config/profile/blosum55.qij' -> './config/profile/blosum55.qij' 192s '/usr/share/augustus/config/profile/blosum62.qij' -> './config/profile/blosum62.qij' 192s '/usr/share/augustus/config/profile/default.qij' -> './config/profile/default.qij' 192s '/usr/share/augustus/config/species' -> './config/species' 192s '/usr/share/augustus/config/species/Anopheles_gambiae' -> './config/species/Anopheles_gambiae' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_exon_probs.pbl' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_igenic_probs.pbl' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_intron_probs.pbl' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_metapars.cfg' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_metapars.cfg' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_metapars.cgp.cfg' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_metapars.utr.cfg' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_parameters.cfg' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_parameters.cfg' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/Anopheles_gambiae_weightmatrix.txt' -> './config/species/Anopheles_gambiae/Anopheles_gambiae_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Anopheles_gambiae/README.txt' -> './config/species/Anopheles_gambiae/README.txt' 192s '/usr/share/augustus/config/species/Argopecten_irradians' -> './config/species/Argopecten_irradians' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_exon_probs.pbl' -> './config/species/Argopecten_irradians/Argopecten_irradians_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_igenic_probs.pbl' -> './config/species/Argopecten_irradians/Argopecten_irradians_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_intron_probs.pbl' -> './config/species/Argopecten_irradians/Argopecten_irradians_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_metapars.cfg' -> './config/species/Argopecten_irradians/Argopecten_irradians_metapars.cfg' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_metapars.cgp.cfg' -> './config/species/Argopecten_irradians/Argopecten_irradians_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_metapars.utr.cfg' -> './config/species/Argopecten_irradians/Argopecten_irradians_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_parameters.cfg' -> './config/species/Argopecten_irradians/Argopecten_irradians_parameters.cfg' 192s '/usr/share/augustus/config/species/Argopecten_irradians/Argopecten_irradians_weightmatrix.txt' -> './config/species/Argopecten_irradians/Argopecten_irradians_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Argopecten_irradians/README.txt' -> './config/species/Argopecten_irradians/README.txt' 192s '/usr/share/augustus/config/species/Aurelia_aurita' -> './config/species/Aurelia_aurita' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_exon_probs.pbl' -> './config/species/Aurelia_aurita/Aurelia_aurita_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_igenic_probs.pbl' -> './config/species/Aurelia_aurita/Aurelia_aurita_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_intron_probs.pbl' -> './config/species/Aurelia_aurita/Aurelia_aurita_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_metapars.cfg' -> './config/species/Aurelia_aurita/Aurelia_aurita_metapars.cfg' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_metapars.cgp.cfg' -> './config/species/Aurelia_aurita/Aurelia_aurita_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_metapars.utr.cfg' -> './config/species/Aurelia_aurita/Aurelia_aurita_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_parameters.cfg' -> './config/species/Aurelia_aurita/Aurelia_aurita_parameters.cfg' 192s '/usr/share/augustus/config/species/Aurelia_aurita/Aurelia_aurita_weightmatrix.txt' -> './config/species/Aurelia_aurita/Aurelia_aurita_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Aurelia_aurita/README.txt' -> './config/species/Aurelia_aurita/README.txt' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos' -> './config/species/Bathycoccus_prasinos' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_exon_probs.pbl' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_igenic_probs.pbl' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_intron_probs.pbl' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_metapars.cfg' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_metapars.cfg' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_metapars.cgp.cfg' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_metapars.utr.cfg' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_parameters.cfg' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_parameters.cfg' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_weightmatrix.txt' -> './config/species/Bathycoccus_prasinos/Bathycoccus_prasinos_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Bathycoccus_prasinos/README.txt' -> './config/species/Bathycoccus_prasinos/README.txt' 192s '/usr/share/augustus/config/species/Berviolum_minutum' -> './config/species/Berviolum_minutum' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_exon_probs.pbl' -> './config/species/Berviolum_minutum/Berviolum_minutum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_igenic_probs.pbl' -> './config/species/Berviolum_minutum/Berviolum_minutum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_intron_probs.pbl' -> './config/species/Berviolum_minutum/Berviolum_minutum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_metapars.cfg' -> './config/species/Berviolum_minutum/Berviolum_minutum_metapars.cfg' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_metapars.cgp.cfg' -> './config/species/Berviolum_minutum/Berviolum_minutum_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_metapars.utr.cfg' -> './config/species/Berviolum_minutum/Berviolum_minutum_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_parameters.cfg' -> './config/species/Berviolum_minutum/Berviolum_minutum_parameters.cfg' 192s '/usr/share/augustus/config/species/Berviolum_minutum/Berviolum_minutum_weightmatrix.txt' -> './config/species/Berviolum_minutum/Berviolum_minutum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Berviolum_minutum/README.txt' -> './config/species/Berviolum_minutum/README.txt' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae' -> './config/species/Branchiostoma_floridae' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_exon_probs.pbl' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_igenic_probs.pbl' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_intron_probs.pbl' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_metapars.cfg' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_metapars.cfg' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_metapars.cgp.cfg' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_metapars.utr.cfg' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_parameters.cfg' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_parameters.cfg' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/Branchiostoma_floridae_weightmatrix.txt' -> './config/species/Branchiostoma_floridae/Branchiostoma_floridae_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Branchiostoma_floridae/README.txt' -> './config/species/Branchiostoma_floridae/README.txt' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana' -> './config/species/Cassiopea_xamachana' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_exon_probs.pbl' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_igenic_probs.pbl' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_intron_probs.pbl' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_metapars.cfg' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_metapars.cfg' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_metapars.cgp.cfg' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_metapars.utr.cfg' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_parameters.cfg' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_parameters.cfg' 192s '/usr/share/augustus/config/species/Cassiopea_xamachana/Cassiopea_xamachana_weightmatrix.txt' -> './config/species/Cassiopea_xamachana/Cassiopea_xamachana_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma' -> './config/species/Chlamydomonas_eustigma' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_exon_probs.pbl' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_igenic_probs.pbl' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_intron_probs.pbl' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_metapars.cfg' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_metapars.cfg' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_metapars.cgp.cfg' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_metapars.utr.cfg' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_parameters.cfg' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_parameters.cfg' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_weightmatrix.txt' -> './config/species/Chlamydomonas_eustigma/Chlamydomonas_eustigma_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Chlamydomonas_eustigma/README.txt' -> './config/species/Chlamydomonas_eustigma/README.txt' 192s '/usr/share/augustus/config/species/Chloropicon_primus' -> './config/species/Chloropicon_primus' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_exon_probs.pbl' -> './config/species/Chloropicon_primus/Chloropicon_primus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_igenic_probs.pbl' -> './config/species/Chloropicon_primus/Chloropicon_primus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_intron_probs.pbl' -> './config/species/Chloropicon_primus/Chloropicon_primus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_metapars.cfg' -> './config/species/Chloropicon_primus/Chloropicon_primus_metapars.cfg' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_metapars.cgp.cfg' -> './config/species/Chloropicon_primus/Chloropicon_primus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_metapars.utr.cfg' -> './config/species/Chloropicon_primus/Chloropicon_primus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_parameters.cfg' -> './config/species/Chloropicon_primus/Chloropicon_primus_parameters.cfg' 192s '/usr/share/augustus/config/species/Chloropicon_primus/Chloropicon_primus_weightmatrix.txt' -> './config/species/Chloropicon_primus/Chloropicon_primus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Chloropicon_primus/README.txt' -> './config/species/Chloropicon_primus/README.txt' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei' -> './config/species/Chrysaora_chesapeakei' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_exon_probs.pbl' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_igenic_probs.pbl' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_intron_probs.pbl' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_metapars.cfg' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_metapars.cfg' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_metapars.cgp.cfg' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_metapars.utr.cfg' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_parameters.cfg' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_parameters.cfg' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_weightmatrix.txt' -> './config/species/Chrysaora_chesapeakei/Chrysaora_chesapeakei_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Chrysaora_chesapeakei/README.txt' -> './config/species/Chrysaora_chesapeakei/README.txt' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus' -> './config/species/Conidiobolus_coronatus' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_exon_probs.pbl' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_igenic_probs.pbl' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_intron_probs.pbl' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_metapars.cfg' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_metapars.cfg' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_metapars.utr.cfg' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_parameters.cfg' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_parameters.cfg' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_utr_probs.pbl' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_utr_probs.pbl' 192s '/usr/share/augustus/config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_weightmatrix.txt' -> './config/species/Conidiobolus_coronatus/Conidiobolus_coronatus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis' -> './config/species/Cryptosporidium_hominis' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_exon_probs.pbl' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_igenic_probs.pbl' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_intron_probs.pbl' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_metapars.cfg' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_metapars.cfg' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_metapars.cgp.cfg' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_metapars.utr.cfg' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_parameters.cfg' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_parameters.cfg' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_weightmatrix.txt' -> './config/species/Cryptosporidium_hominis/Cryptosporidium_hominis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Cryptosporidium_hominis/README.txt' -> './config/species/Cryptosporidium_hominis/README.txt' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica' -> './config/species/Cyclotella_cryptica' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_exon_probs.pbl' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_igenic_probs.pbl' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_intron_probs.pbl' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_metapars.cfg' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_metapars.cfg' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_metapars.cgp.cfg' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_metapars.utr.cfg' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_parameters.cfg' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_parameters.cfg' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/Cyclotella_cryptica_weightmatrix.txt' -> './config/species/Cyclotella_cryptica/Cyclotella_cryptica_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Cyclotella_cryptica/README.txt' -> './config/species/Cyclotella_cryptica/README.txt' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata' -> './config/species/Dermasterias_imbricata' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_exon_probs.pbl' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_igenic_probs.pbl' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_intron_probs.pbl' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_metapars.cfg' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_metapars.cfg' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_metapars.cgp.cfg' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_metapars.utr.cfg' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_parameters.cfg' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_parameters.cfg' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/Dermasterias_imbricata_weightmatrix.txt' -> './config/species/Dermasterias_imbricata/Dermasterias_imbricata_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Dermasterias_imbricata/README.txt' -> './config/species/Dermasterias_imbricata/README.txt' 192s '/usr/share/augustus/config/species/Dunaliella_salina' -> './config/species/Dunaliella_salina' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_exon_probs.pbl' -> './config/species/Dunaliella_salina/Dunaliella_salina_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_igenic_probs.pbl' -> './config/species/Dunaliella_salina/Dunaliella_salina_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_intron_probs.pbl' -> './config/species/Dunaliella_salina/Dunaliella_salina_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_metapars.cfg' -> './config/species/Dunaliella_salina/Dunaliella_salina_metapars.cfg' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_metapars.cgp.cfg' -> './config/species/Dunaliella_salina/Dunaliella_salina_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_metapars.utr.cfg' -> './config/species/Dunaliella_salina/Dunaliella_salina_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_parameters.cfg' -> './config/species/Dunaliella_salina/Dunaliella_salina_parameters.cfg' 192s '/usr/share/augustus/config/species/Dunaliella_salina/Dunaliella_salina_weightmatrix.txt' -> './config/species/Dunaliella_salina/Dunaliella_salina_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Dunaliella_salina/README.txt' -> './config/species/Dunaliella_salina/README.txt' 192s '/usr/share/augustus/config/species/E_coli_K12' -> './config/species/E_coli_K12' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_exon_probs.pbl' -> './config/species/E_coli_K12/E_coli_K12_exon_probs.pbl' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_igenic_probs.pbl' -> './config/species/E_coli_K12/E_coli_K12_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_metapars.cfg' -> './config/species/E_coli_K12/E_coli_K12_metapars.cfg' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_metapars.utr.cfg' -> './config/species/E_coli_K12/E_coli_K12_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_ovlp_len.pbl' -> './config/species/E_coli_K12/E_coli_K12_ovlp_len.pbl' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_parameters.cfg' -> './config/species/E_coli_K12/E_coli_K12_parameters.cfg' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_trans_shadow_bacterium.pbl' -> './config/species/E_coli_K12/E_coli_K12_trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/species/E_coli_K12/E_coli_K12_weightmatrix.txt' -> './config/species/E_coli_K12/E_coli_K12_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus' -> './config/species/Ectocarpus_siliculosus' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_exon_probs.pbl' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_igenic_probs.pbl' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_intron_probs.pbl' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_metapars.cfg' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_metapars.cfg' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_metapars.cgp.cfg' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_metapars.utr.cfg' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_parameters.cfg' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_parameters.cfg' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_weightmatrix.txt' -> './config/species/Ectocarpus_siliculosus/Ectocarpus_siliculosus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Ectocarpus_siliculosus/README.txt' -> './config/species/Ectocarpus_siliculosus/README.txt' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi' -> './config/species/Encephalitozoon_cuniculi' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_exon_probs.pbl' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_igenic_probs.pbl' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_intron_probs.pbl' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_metapars.cfg' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_metapars.cfg' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_metapars.cgp.cfg' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_metapars.utr.cfg' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_parameters.cfg' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_parameters.cfg' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_weightmatrix.txt' -> './config/species/Encephalitozoon_cuniculi/Encephalitozoon_cuniculi_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Encephalitozoon_cuniculi/README.txt' -> './config/species/Encephalitozoon_cuniculi/README.txt' 192s '/usr/share/augustus/config/species/Fistulifera_solaris' -> './config/species/Fistulifera_solaris' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_exon_probs.pbl' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_igenic_probs.pbl' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_intron_probs.pbl' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_metapars.cfg' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_metapars.cfg' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_metapars.cgp.cfg' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_metapars.utr.cfg' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_parameters.cfg' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_parameters.cfg' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/Fistulifera_solaris_weightmatrix.txt' -> './config/species/Fistulifera_solaris/Fistulifera_solaris_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Fistulifera_solaris/README.txt' -> './config/species/Fistulifera_solaris/README.txt' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102' -> './config/species/Fragilariopsis_cylindrus_CCMP1102' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_exon_probs.pbl' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_igenic_probs.pbl' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_intron_probs.pbl' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_metapars.cfg' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_metapars.cfg' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_metapars.cgp.cfg' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_metapars.utr.cfg' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_parameters.cfg' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_parameters.cfg' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_weightmatrix.txt' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/Fragilariopsis_cylindrus_CCMP1102_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Fragilariopsis_cylindrus_CCMP1102/README.txt' -> './config/species/Fragilariopsis_cylindrus_CCMP1102/README.txt' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera' -> './config/species/Gonapodya_prolifera' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_exon_probs.pbl' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_igenic_probs.pbl' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_intron_probs.pbl' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_metapars.cfg' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_metapars.cfg' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_metapars.cgp.cfg' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_metapars.utr.cfg' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_parameters.cfg' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_parameters.cfg' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/Gonapodya_prolifera_weightmatrix.txt' -> './config/species/Gonapodya_prolifera/Gonapodya_prolifera_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Gonapodya_prolifera/README.txt' -> './config/species/Gonapodya_prolifera/README.txt' 192s '/usr/share/augustus/config/species/Hydra_vulgaris' -> './config/species/Hydra_vulgaris' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_exon_probs.pbl' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_igenic_probs.pbl' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_intron_probs.pbl' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_metapars.cfg' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_metapars.cfg' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_metapars.cgp.cfg' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_metapars.utr.cfg' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_parameters.cfg' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_parameters.cfg' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/Hydra_vulgaris_weightmatrix.txt' -> './config/species/Hydra_vulgaris/Hydra_vulgaris_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Hydra_vulgaris/README.txt' -> './config/species/Hydra_vulgaris/README.txt' 192s '/usr/share/augustus/config/species/Leptasterias_sp' -> './config/species/Leptasterias_sp' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_exon_probs.pbl' -> './config/species/Leptasterias_sp/Leptasterias_sp_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_igenic_probs.pbl' -> './config/species/Leptasterias_sp/Leptasterias_sp_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_intron_probs.pbl' -> './config/species/Leptasterias_sp/Leptasterias_sp_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_metapars.cfg' -> './config/species/Leptasterias_sp/Leptasterias_sp_metapars.cfg' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_metapars.cgp.cfg' -> './config/species/Leptasterias_sp/Leptasterias_sp_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_metapars.utr.cfg' -> './config/species/Leptasterias_sp/Leptasterias_sp_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_parameters.cfg' -> './config/species/Leptasterias_sp/Leptasterias_sp_parameters.cfg' 192s '/usr/share/augustus/config/species/Leptasterias_sp/Leptasterias_sp_weightmatrix.txt' -> './config/species/Leptasterias_sp/Leptasterias_sp_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Leptasterias_sp/README.txt' -> './config/species/Leptasterias_sp/README.txt' 192s '/usr/share/augustus/config/species/Loa_loa' -> './config/species/Loa_loa' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_exon_probs.pbl' -> './config/species/Loa_loa/Loa_loa_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_igenic_probs.pbl' -> './config/species/Loa_loa/Loa_loa_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_intron_probs.pbl' -> './config/species/Loa_loa/Loa_loa_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_metapars.cfg' -> './config/species/Loa_loa/Loa_loa_metapars.cfg' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_metapars.cgp.cfg' -> './config/species/Loa_loa/Loa_loa_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_metapars.utr.cfg' -> './config/species/Loa_loa/Loa_loa_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_parameters.cfg' -> './config/species/Loa_loa/Loa_loa_parameters.cfg' 192s '/usr/share/augustus/config/species/Loa_loa/Loa_loa_weightmatrix.txt' -> './config/species/Loa_loa/Loa_loa_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Loa_loa/README.txt' -> './config/species/Loa_loa/README.txt' 192s '/usr/share/augustus/config/species/Micromonas_commoda' -> './config/species/Micromonas_commoda' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_exon_probs.pbl' -> './config/species/Micromonas_commoda/Micromonas_commoda_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_igenic_probs.pbl' -> './config/species/Micromonas_commoda/Micromonas_commoda_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_intron_probs.pbl' -> './config/species/Micromonas_commoda/Micromonas_commoda_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_metapars.cfg' -> './config/species/Micromonas_commoda/Micromonas_commoda_metapars.cfg' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_metapars.cgp.cfg' -> './config/species/Micromonas_commoda/Micromonas_commoda_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_metapars.utr.cfg' -> './config/species/Micromonas_commoda/Micromonas_commoda_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_parameters.cfg' -> './config/species/Micromonas_commoda/Micromonas_commoda_parameters.cfg' 192s '/usr/share/augustus/config/species/Micromonas_commoda/Micromonas_commoda_weightmatrix.txt' -> './config/species/Micromonas_commoda/Micromonas_commoda_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Micromonas_commoda/README.txt' -> './config/species/Micromonas_commoda/README.txt' 192s '/usr/share/augustus/config/species/Micromonas_pusilla' -> './config/species/Micromonas_pusilla' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_exon_probs.pbl' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_igenic_probs.pbl' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_intron_probs.pbl' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_metapars.cfg' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_metapars.cfg' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_metapars.cgp.cfg' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_metapars.utr.cfg' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_parameters.cfg' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_parameters.cfg' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/Micromonas_pusilla_weightmatrix.txt' -> './config/species/Micromonas_pusilla/Micromonas_pusilla_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Micromonas_pusilla/README.txt' -> './config/species/Micromonas_pusilla/README.txt' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum' -> './config/species/Monoraphidium_neglectum' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_exon_probs.pbl' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_igenic_probs.pbl' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_intron_probs.pbl' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_metapars.cfg' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_metapars.cfg' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_metapars.cgp.cfg' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_metapars.utr.cfg' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_parameters.cfg' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_parameters.cfg' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_weightmatrix.txt' -> './config/species/Monoraphidium_neglectum/Monoraphidium_neglectum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Monoraphidium_neglectum/README.txt' -> './config/species/Monoraphidium_neglectum/README.txt' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis' -> './config/species/Monosiga_brevicollis' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_exon_probs.pbl' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_igenic_probs.pbl' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_intron_probs.pbl' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_metapars.cfg' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_metapars.cfg' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_metapars.cgp.cfg' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_metapars.utr.cfg' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_parameters.cfg' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_parameters.cfg' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/Monosiga_brevicollis_weightmatrix.txt' -> './config/species/Monosiga_brevicollis/Monosiga_brevicollis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Monosiga_brevicollis/README.txt' -> './config/species/Monosiga_brevicollis/README.txt' 192s '/usr/share/augustus/config/species/Naegleria_gruberi' -> './config/species/Naegleria_gruberi' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_exon_probs.pbl' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_igenic_probs.pbl' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_intron_probs.pbl' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_metapars.cfg' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_metapars.cfg' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_metapars.cgp.cfg' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_metapars.utr.cfg' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_parameters.cfg' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_parameters.cfg' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/Naegleria_gruberi_weightmatrix.txt' -> './config/species/Naegleria_gruberi/Naegleria_gruberi_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Naegleria_gruberi/README.txt' -> './config/species/Naegleria_gruberi/README.txt' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai' -> './config/species/Nemopilema_nomurai' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_exon_probs.pbl' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_igenic_probs.pbl' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_intron_probs.pbl' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_metapars.cfg' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_metapars.cfg' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_metapars.cgp.cfg' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_metapars.utr.cfg' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_parameters.cfg' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_parameters.cfg' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/Nemopilema_nomurai_weightmatrix.txt' -> './config/species/Nemopilema_nomurai/Nemopilema_nomurai_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Nemopilema_nomurai/README.txt' -> './config/species/Nemopilema_nomurai/README.txt' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus' -> './config/species/Notospermus_geniculatus' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_exon_probs.pbl' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_igenic_probs.pbl' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_intron_probs.pbl' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_metapars.cfg' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_metapars.cfg' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_metapars.cgp.cfg' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_metapars.utr.cfg' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_parameters.cfg' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_parameters.cfg' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/Notospermus_geniculatus_weightmatrix.txt' -> './config/species/Notospermus_geniculatus/Notospermus_geniculatus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Notospermus_geniculatus/README.txt' -> './config/species/Notospermus_geniculatus/README.txt' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus' -> './config/species/Ostreococcus_sp_lucimarinus' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_exon_probs.pbl' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_igenic_probs.pbl' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_intron_probs.pbl' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_metapars.cfg' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_metapars.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_metapars.cgp.cfg' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_metapars.utr.cfg' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_parameters.cfg' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_parameters.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_weightmatrix.txt' -> './config/species/Ostreococcus_sp_lucimarinus/Ostreococcus_sp_lucimarinus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Ostreococcus_sp_lucimarinus/README.txt' -> './config/species/Ostreococcus_sp_lucimarinus/README.txt' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri' -> './config/species/Ostreococcus_tauri' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_exon_probs.pbl' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_igenic_probs.pbl' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_intron_probs.pbl' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_metapars.cfg' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_metapars.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_metapars.cgp.cfg' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_metapars.utr.cfg' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_parameters.cfg' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_parameters.cfg' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/Ostreococcus_tauri_weightmatrix.txt' -> './config/species/Ostreococcus_tauri/Ostreococcus_tauri_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Ostreococcus_tauri/README.txt' -> './config/species/Ostreococcus_tauri/README.txt' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia' -> './config/species/Paramecium_tetraurelia' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_exon_probs.pbl' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_igenic_probs.pbl' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_intron_probs.pbl' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_metapars.cfg' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_metapars.cfg' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_metapars.cgp.cfg' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_metapars.utr.cfg' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_parameters.cfg' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_parameters.cfg' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_weightmatrix.txt' -> './config/species/Paramecium_tetraurelia/Paramecium_tetraurelia_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Paramecium_tetraurelia/README.txt' -> './config/species/Paramecium_tetraurelia/README.txt' 192s '/usr/share/augustus/config/species/Pediculus_humanus' -> './config/species/Pediculus_humanus' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_exon_probs.pbl' -> './config/species/Pediculus_humanus/Pediculus_humanus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_igenic_probs.pbl' -> './config/species/Pediculus_humanus/Pediculus_humanus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_intron_probs.pbl' -> './config/species/Pediculus_humanus/Pediculus_humanus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_metapars.cfg' -> './config/species/Pediculus_humanus/Pediculus_humanus_metapars.cfg' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_metapars.cgp.cfg' -> './config/species/Pediculus_humanus/Pediculus_humanus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_metapars.utr.cfg' -> './config/species/Pediculus_humanus/Pediculus_humanus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_parameters.cfg' -> './config/species/Pediculus_humanus/Pediculus_humanus_parameters.cfg' 192s '/usr/share/augustus/config/species/Pediculus_humanus/Pediculus_humanus_weightmatrix.txt' -> './config/species/Pediculus_humanus/Pediculus_humanus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Pediculus_humanus/README.txt' -> './config/species/Pediculus_humanus/README.txt' 192s '/usr/share/augustus/config/species/Perkinsus_marinus' -> './config/species/Perkinsus_marinus' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_exon_probs.pbl' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_igenic_probs.pbl' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_intron_probs.pbl' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_metapars.cfg' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_metapars.cfg' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_metapars.cgp.cfg' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_metapars.utr.cfg' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_parameters.cfg' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_parameters.cfg' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/Perkinsus_marinus_weightmatrix.txt' -> './config/species/Perkinsus_marinus/Perkinsus_marinus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Perkinsus_marinus/README.txt' -> './config/species/Perkinsus_marinus/README.txt' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum' -> './config/species/Phaeodactylum_tricornutum' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_exon_probs.pbl' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_igenic_probs.pbl' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_intron_probs.pbl' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_metapars.cfg' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_metapars.cfg' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_metapars.cgp.cfg' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_metapars.utr.cfg' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_parameters.cfg' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_parameters.cfg' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_weightmatrix.txt' -> './config/species/Phaeodactylum_tricornutum/Phaeodactylum_tricornutum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Phaeodactylum_tricornutum/README.txt' -> './config/species/Phaeodactylum_tricornutum/README.txt' 192s '/usr/share/augustus/config/species/Physcomitrium_patens' -> './config/species/Physcomitrium_patens' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_exon_probs.pbl' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_igenic_probs.pbl' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_intron_probs.pbl' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_metapars.cfg' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_metapars.cfg' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_metapars.cgp.cfg' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_metapars.utr.cfg' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_parameters.cfg' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_parameters.cfg' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/Physcomitrium_patens_weightmatrix.txt' -> './config/species/Physcomitrium_patens/Physcomitrium_patens_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Physcomitrium_patens/README.txt' -> './config/species/Physcomitrium_patens/README.txt' 192s '/usr/share/augustus/config/species/Populus_trichocarpa' -> './config/species/Populus_trichocarpa' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_exon_probs.pbl' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_igenic_probs.pbl' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_intron_probs.pbl' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_metapars.cfg' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_metapars.cfg' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_metapars.cgp.cfg' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_metapars.utr.cfg' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_parameters.cfg' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_parameters.cfg' 192s '/usr/share/augustus/config/species/Populus_trichocarpa/Populus_trichocarpa_weightmatrix.txt' -> './config/species/Populus_trichocarpa/Populus_trichocarpa_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata' -> './config/species/Pseudo-nitzschia_multistriata' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_exon_probs.pbl' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_igenic_probs.pbl' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_intron_probs.pbl' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_metapars.cfg' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_metapars.cfg' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_metapars.cgp.cfg' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_metapars.utr.cfg' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_parameters.cfg' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_parameters.cfg' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_weightmatrix.txt' -> './config/species/Pseudo-nitzschia_multistriata/Pseudo-nitzschia_multistriata_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Pseudo-nitzschia_multistriata/README.txt' -> './config/species/Pseudo-nitzschia_multistriata/README.txt' 192s '/usr/share/augustus/config/species/Ptychodera_flava' -> './config/species/Ptychodera_flava' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_exon_probs.pbl' -> './config/species/Ptychodera_flava/Ptychodera_flava_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_igenic_probs.pbl' -> './config/species/Ptychodera_flava/Ptychodera_flava_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_intron_probs.pbl' -> './config/species/Ptychodera_flava/Ptychodera_flava_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_metapars.cfg' -> './config/species/Ptychodera_flava/Ptychodera_flava_metapars.cfg' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_metapars.cgp.cfg' -> './config/species/Ptychodera_flava/Ptychodera_flava_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_metapars.utr.cfg' -> './config/species/Ptychodera_flava/Ptychodera_flava_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_parameters.cfg' -> './config/species/Ptychodera_flava/Ptychodera_flava_parameters.cfg' 192s '/usr/share/augustus/config/species/Ptychodera_flava/Ptychodera_flava_weightmatrix.txt' -> './config/species/Ptychodera_flava/Ptychodera_flava_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Ptychodera_flava/README.txt' -> './config/species/Ptychodera_flava/README.txt' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides' -> './config/species/Pycnopodia_helianthoides' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_exon_probs.pbl' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_igenic_probs.pbl' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_intron_probs.pbl' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_metapars.cfg' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_metapars.cfg' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_metapars.cgp.cfg' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_metapars.utr.cfg' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_parameters.cfg' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_parameters.cfg' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_weightmatrix.txt' -> './config/species/Pycnopodia_helianthoides/Pycnopodia_helianthoides_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Pycnopodia_helianthoides/README.txt' -> './config/species/Pycnopodia_helianthoides/README.txt' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata' -> './config/species/Raphidocelis_subcapitata' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/README.txt' -> './config/species/Raphidocelis_subcapitata/README.txt' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_exon_probs.pbl' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_igenic_probs.pbl' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_intron_probs.pbl' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_metapars.cfg' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_metapars.cfg' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_metapars.cgp.cfg' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_metapars.utr.cfg' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_parameters.cfg' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_parameters.cfg' 192s '/usr/share/augustus/config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_weightmatrix.txt' -> './config/species/Raphidocelis_subcapitata/Raphidocelis_subcapitata_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum' -> './config/species/Rhopilema_esculentum' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/README.txt' -> './config/species/Rhopilema_esculentum/README.txt' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_exon_probs.pbl' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_igenic_probs.pbl' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_intron_probs.pbl' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_metapars.cfg' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_metapars.cfg' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_metapars.cgp.cfg' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_metapars.utr.cfg' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_parameters.cfg' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_parameters.cfg' 192s '/usr/share/augustus/config/species/Rhopilema_esculentum/Rhopilema_esculentum_weightmatrix.txt' -> './config/species/Rhopilema_esculentum/Rhopilema_esculentum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Ricinus_communis' -> './config/species/Ricinus_communis' 192s '/usr/share/augustus/config/species/Ricinus_communis/README.txt' -> './config/species/Ricinus_communis/README.txt' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_exon_probs.pbl' -> './config/species/Ricinus_communis/Ricinus_communis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_igenic_probs.pbl' -> './config/species/Ricinus_communis/Ricinus_communis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_intron_probs.pbl' -> './config/species/Ricinus_communis/Ricinus_communis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_metapars.cfg' -> './config/species/Ricinus_communis/Ricinus_communis_metapars.cfg' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_metapars.cgp.cfg' -> './config/species/Ricinus_communis/Ricinus_communis_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_metapars.utr.cfg' -> './config/species/Ricinus_communis/Ricinus_communis_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_parameters.cfg' -> './config/species/Ricinus_communis/Ricinus_communis_parameters.cfg' 192s '/usr/share/augustus/config/species/Ricinus_communis/Ricinus_communis_weightmatrix.txt' -> './config/species/Ricinus_communis/Ricinus_communis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum' -> './config/species/Sclerotinia_sclerotiorum' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/README.txt' -> './config/species/Sclerotinia_sclerotiorum/README.txt' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_exon_probs.pbl' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_igenic_probs.pbl' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_intron_probs.pbl' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_metapars.cfg' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_metapars.cfg' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_metapars.cgp.cfg' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_metapars.utr.cfg' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_parameters.cfg' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_parameters.cfg' 192s '/usr/share/augustus/config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_weightmatrix.txt' -> './config/species/Sclerotinia_sclerotiorum/Sclerotinia_sclerotiorum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Skeletonema_costatum' -> './config/species/Skeletonema_costatum' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/README.txt' -> './config/species/Skeletonema_costatum/README.txt' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_exon_probs.pbl' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_igenic_probs.pbl' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_intron_probs.pbl' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_metapars.cfg' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_metapars.cfg' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_metapars.cgp.cfg' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_metapars.utr.cfg' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_parameters.cfg' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_parameters.cfg' 192s '/usr/share/augustus/config/species/Skeletonema_costatum/Skeletonema_costatum_weightmatrix.txt' -> './config/species/Skeletonema_costatum/Skeletonema_costatum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Sordaria_macrospora' -> './config/species/Sordaria_macrospora' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/README.txt' -> './config/species/Sordaria_macrospora/README.txt' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_exon_probs.pbl' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_igenic_probs.pbl' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_intron_probs.pbl' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_metapars.cfg' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_metapars.cfg' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_metapars.cgp.cfg' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_metapars.utr.cfg' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_parameters.cfg' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_parameters.cfg' 192s '/usr/share/augustus/config/species/Sordaria_macrospora/Sordaria_macrospora_weightmatrix.txt' -> './config/species/Sordaria_macrospora/Sordaria_macrospora_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae' -> './config/species/Sphaceloma_murrayae' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/README.txt' -> './config/species/Sphaceloma_murrayae/README.txt' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_exon_probs.pbl' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_igenic_probs.pbl' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_intron_probs.pbl' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_metapars.cfg' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_metapars.cfg' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_metapars.cgp.cfg' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_metapars.utr.cfg' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_parameters.cfg' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_parameters.cfg' 192s '/usr/share/augustus/config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_weightmatrix.txt' -> './config/species/Sphaceloma_murrayae/Sphaceloma_murrayae_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata' -> './config/species/Taeniopygia_guttata' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/README.txt' -> './config/species/Taeniopygia_guttata/README.txt' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_exon_probs.pbl' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_igenic_probs.pbl' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_intron_probs.pbl' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_metapars.cfg' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_metapars.cfg' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_metapars.cgp.cfg' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_metapars.utr.cfg' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_parameters.cfg' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_parameters.cfg' 192s '/usr/share/augustus/config/species/Taeniopygia_guttata/Taeniopygia_guttata_weightmatrix.txt' -> './config/species/Taeniopygia_guttata/Taeniopygia_guttata_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335' -> './config/species/Thalassiosira_pseudonana_CCMP1335' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/README.txt' -> './config/species/Thalassiosira_pseudonana_CCMP1335/README.txt' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_exon_probs.pbl' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_igenic_probs.pbl' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_intron_probs.pbl' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_metapars.cfg' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_metapars.cfg' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_metapars.cgp.cfg' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_metapars.utr.cfg' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_parameters.cfg' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_parameters.cfg' 192s '/usr/share/augustus/config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_weightmatrix.txt' -> './config/species/Thalassiosira_pseudonana_CCMP1335/Thalassiosira_pseudonana_CCMP1335_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens' -> './config/species/Trichoplax_adhaerens' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/README.txt' -> './config/species/Trichoplax_adhaerens/README.txt' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_exon_probs.pbl' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_igenic_probs.pbl' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_intron_probs.pbl' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_metapars.cfg' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_metapars.cfg' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_metapars.cgp.cfg' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_metapars.utr.cfg' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_parameters.cfg' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_parameters.cfg' 192s '/usr/share/augustus/config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_weightmatrix.txt' -> './config/species/Trichoplax_adhaerens/Trichoplax_adhaerens_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi' -> './config/species/Trypanosoma_cruzi' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/README.txt' -> './config/species/Trypanosoma_cruzi/README.txt' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_exon_probs.pbl' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_igenic_probs.pbl' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_intron_probs.pbl' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_metapars.cfg' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_metapars.cfg' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_metapars.cgp.cfg' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_metapars.utr.cfg' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_parameters.cfg' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_parameters.cfg' 192s '/usr/share/augustus/config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_weightmatrix.txt' -> './config/species/Trypanosoma_cruzi/Trypanosoma_cruzi_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Vitis_vinifera' -> './config/species/Vitis_vinifera' 192s '/usr/share/augustus/config/species/Vitis_vinifera/README.txt' -> './config/species/Vitis_vinifera/README.txt' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_exon_probs.pbl' -> './config/species/Vitis_vinifera/Vitis_vinifera_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_igenic_probs.pbl' -> './config/species/Vitis_vinifera/Vitis_vinifera_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_intron_probs.pbl' -> './config/species/Vitis_vinifera/Vitis_vinifera_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_metapars.cfg' -> './config/species/Vitis_vinifera/Vitis_vinifera_metapars.cfg' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_metapars.cgp.cfg' -> './config/species/Vitis_vinifera/Vitis_vinifera_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_metapars.utr.cfg' -> './config/species/Vitis_vinifera/Vitis_vinifera_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_parameters.cfg' -> './config/species/Vitis_vinifera/Vitis_vinifera_parameters.cfg' 192s '/usr/share/augustus/config/species/Vitis_vinifera/Vitis_vinifera_weightmatrix.txt' -> './config/species/Vitis_vinifera/Vitis_vinifera_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis' -> './config/species/Vitrella_brassicaformis' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/README.txt' -> './config/species/Vitrella_brassicaformis/README.txt' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_exon_probs.pbl' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_igenic_probs.pbl' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_intron_probs.pbl' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_metapars.cfg' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_metapars.cfg' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_metapars.cgp.cfg' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_metapars.utr.cfg' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_parameters.cfg' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_parameters.cfg' 192s '/usr/share/augustus/config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_weightmatrix.txt' -> './config/species/Vitrella_brassicaformis/Vitrella_brassicaformis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis' -> './config/species/Xenopus_tropicalis' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_exon_probs.pbl' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_igenic_probs.pbl' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_intron_probs.pbl' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_metapars.cfg' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_metapars.cfg' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_metapars.cgp.cfg' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_metapars.utr.cfg' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_parameters.cfg' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_parameters.cfg' 192s '/usr/share/augustus/config/species/Xenopus_tropicalis/Xenopus_tropicalis_weightmatrix.txt' -> './config/species/Xenopus_tropicalis/Xenopus_tropicalis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus' -> './config/species/Xiphophorus_maculatus' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus/README.txt' -> './config/species/Xiphophorus_maculatus/README.txt' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_exon_probs.pbl' -> './config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_igenic_probs.pbl' -> './config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_intron_probs.pbl' -> './config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_parameters.cfg' -> './config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_parameters.cfg' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_utr_probs.pbl' -> './config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_utr_probs.pbl' 192s '/usr/share/augustus/config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_weightmatrix.txt' -> './config/species/Xiphophorus_maculatus/Xiphophorus_maculatus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/Xipophorus_maculatus' -> './config/species/Xipophorus_maculatus' 192s '/usr/share/augustus/config/species/Xipophorus_maculatus/Xipophorus_maculatus_exon_probs.pbl' -> './config/species/Xipophorus_maculatus/Xipophorus_maculatus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/Xipophorus_maculatus/Xipophorus_maculatus_igenic_probs.pbl' -> './config/species/Xipophorus_maculatus/Xipophorus_maculatus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/Xipophorus_maculatus/Xipophorus_maculatus_intron_probs.pbl' -> './config/species/Xipophorus_maculatus/Xipophorus_maculatus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/Xipophorus_maculatus/Xipophorus_maculatus_parameters.cfg' -> './config/species/Xipophorus_maculatus/Xipophorus_maculatus_parameters.cfg' 192s '/usr/share/augustus/config/species/Xipophorus_maculatus/Xipophorus_maculatus_utr_probs.pbl' -> './config/species/Xipophorus_maculatus/Xipophorus_maculatus_utr_probs.pbl' 192s '/usr/share/augustus/config/species/Xipophorus_maculatus/Xipophorus_maculatus_weightmatrix.txt' -> './config/species/Xipophorus_maculatus/Xipophorus_maculatus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/adorsata' -> './config/species/adorsata' 192s '/usr/share/augustus/config/species/adorsata/adorsata_parameters.cfg' -> './config/species/adorsata/adorsata_parameters.cfg' 192s '/usr/share/augustus/config/species/adorsata/adorsata_weightmatrix.txt' -> './config/species/adorsata/adorsata_weightmatrix.txt' 192s '/usr/share/augustus/config/species/adorsata/generic_exon_probs.pbl' -> './config/species/adorsata/generic_exon_probs.pbl' 192s '/usr/share/augustus/config/species/adorsata/generic_igenic_probs.pbl' -> './config/species/adorsata/generic_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/adorsata/generic_intron_probs.pbl' -> './config/species/adorsata/generic_intron_probs.pbl' 192s '/usr/share/augustus/config/species/adorsata/generic_weightmatrix.txt' -> './config/species/adorsata/generic_weightmatrix.txt' 192s '/usr/share/augustus/config/species/aedes' -> './config/species/aedes' 192s '/usr/share/augustus/config/species/aedes/aedes_exon_probs.pbl' -> './config/species/aedes/aedes_exon_probs.pbl' 192s '/usr/share/augustus/config/species/aedes/aedes_igenic_probs.pbl' -> './config/species/aedes/aedes_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/aedes/aedes_intron_probs.pbl' -> './config/species/aedes/aedes_intron_probs.pbl' 192s '/usr/share/augustus/config/species/aedes/aedes_parameters.cfg' -> './config/species/aedes/aedes_parameters.cfg' 192s '/usr/share/augustus/config/species/aedes/aedes_weightmatrix.txt' -> './config/species/aedes/aedes_weightmatrix.txt' 192s '/usr/share/augustus/config/species/amphimedon' -> './config/species/amphimedon' 192s '/usr/share/augustus/config/species/amphimedon/amphimedon_exon_probs.pbl' -> './config/species/amphimedon/amphimedon_exon_probs.pbl' 192s '/usr/share/augustus/config/species/amphimedon/amphimedon_igenic_probs.pbl' -> './config/species/amphimedon/amphimedon_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/amphimedon/amphimedon_intron_probs.pbl' -> './config/species/amphimedon/amphimedon_intron_probs.pbl' 192s '/usr/share/augustus/config/species/amphimedon/amphimedon_metapars.cfg' -> './config/species/amphimedon/amphimedon_metapars.cfg' 192s '/usr/share/augustus/config/species/amphimedon/amphimedon_parameters.cfg' -> './config/species/amphimedon/amphimedon_parameters.cfg' 192s '/usr/share/augustus/config/species/amphimedon/amphimedon_utr_probs.pbl' -> './config/species/amphimedon/amphimedon_utr_probs.pbl' 192s '/usr/share/augustus/config/species/amphimedon/amphimedon_weightmatrix.txt' -> './config/species/amphimedon/amphimedon_weightmatrix.txt' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum' -> './config/species/ancylostoma_ceylanicum' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/README.TXT' -> './config/species/ancylostoma_ceylanicum/README.TXT' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_exon_probs.pbl' -> './config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_igenic_probs.pbl' -> './config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_intron_probs.pbl' -> './config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_metapars.cfg' -> './config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_metapars.cfg' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_metapars.utr.cfg' -> './config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_parameters.cfg' -> './config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_parameters.cfg' 192s '/usr/share/augustus/config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_weightmatrix.txt' -> './config/species/ancylostoma_ceylanicum/ancylostoma_ceylanicum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/anidulans' -> './config/species/anidulans' 192s '/usr/share/augustus/config/species/anidulans/anidulans_exon_probs.pbl' -> './config/species/anidulans/anidulans_exon_probs.pbl' 192s '/usr/share/augustus/config/species/anidulans/anidulans_igenic_probs.pbl' -> './config/species/anidulans/anidulans_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/anidulans/anidulans_intron_probs.pbl' -> './config/species/anidulans/anidulans_intron_probs.pbl' 192s '/usr/share/augustus/config/species/anidulans/anidulans_parameters.cfg' -> './config/species/anidulans/anidulans_parameters.cfg' 192s '/usr/share/augustus/config/species/anidulans/anidulans_weightmatrix.txt' -> './config/species/anidulans/anidulans_weightmatrix.txt' 192s '/usr/share/augustus/config/species/arabidopsis' -> './config/species/arabidopsis' 192s '/usr/share/augustus/config/species/arabidopsis/arabidopsis_exon_probs.pbl' -> './config/species/arabidopsis/arabidopsis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/arabidopsis/arabidopsis_igenic_probs.pbl' -> './config/species/arabidopsis/arabidopsis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/arabidopsis/arabidopsis_intron_probs.pbl' -> './config/species/arabidopsis/arabidopsis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/arabidopsis/arabidopsis_parameters.cfg' -> './config/species/arabidopsis/arabidopsis_parameters.cfg' 192s '/usr/share/augustus/config/species/arabidopsis/arabidopsis_utr_probs.pbl' -> './config/species/arabidopsis/arabidopsis_utr_probs.pbl' 192s '/usr/share/augustus/config/species/arabidopsis/arabidopsis_weightmatrix.txt' -> './config/species/arabidopsis/arabidopsis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/aspergillus_fumigatus' -> './config/species/aspergillus_fumigatus' 192s '/usr/share/augustus/config/species/aspergillus_fumigatus/aspergillus_fumigatus_exon_probs.pbl' -> './config/species/aspergillus_fumigatus/aspergillus_fumigatus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_fumigatus/aspergillus_fumigatus_igenic_probs.pbl' -> './config/species/aspergillus_fumigatus/aspergillus_fumigatus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_fumigatus/aspergillus_fumigatus_intron_probs.pbl' -> './config/species/aspergillus_fumigatus/aspergillus_fumigatus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_fumigatus/aspergillus_fumigatus_metapars.cfg' -> './config/species/aspergillus_fumigatus/aspergillus_fumigatus_metapars.cfg' 192s '/usr/share/augustus/config/species/aspergillus_fumigatus/aspergillus_fumigatus_parameters.cfg' -> './config/species/aspergillus_fumigatus/aspergillus_fumigatus_parameters.cfg' 192s '/usr/share/augustus/config/species/aspergillus_fumigatus/aspergillus_fumigatus_weightmatrix.txt' -> './config/species/aspergillus_fumigatus/aspergillus_fumigatus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/aspergillus_nidulans' -> './config/species/aspergillus_nidulans' 192s '/usr/share/augustus/config/species/aspergillus_nidulans/aspergillus_nidulans_exon_probs.pbl' -> './config/species/aspergillus_nidulans/aspergillus_nidulans_exon_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_nidulans/aspergillus_nidulans_igenic_probs.pbl' -> './config/species/aspergillus_nidulans/aspergillus_nidulans_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_nidulans/aspergillus_nidulans_intron_probs.pbl' -> './config/species/aspergillus_nidulans/aspergillus_nidulans_intron_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_nidulans/aspergillus_nidulans_metapars.cfg' -> './config/species/aspergillus_nidulans/aspergillus_nidulans_metapars.cfg' 192s '/usr/share/augustus/config/species/aspergillus_nidulans/aspergillus_nidulans_parameters.cfg' -> './config/species/aspergillus_nidulans/aspergillus_nidulans_parameters.cfg' 192s '/usr/share/augustus/config/species/aspergillus_nidulans/aspergillus_nidulans_weightmatrix.txt' -> './config/species/aspergillus_nidulans/aspergillus_nidulans_weightmatrix.txt' 192s '/usr/share/augustus/config/species/aspergillus_oryzae' -> './config/species/aspergillus_oryzae' 192s '/usr/share/augustus/config/species/aspergillus_oryzae/aspergillus_oryzae_exon_probs.pbl' -> './config/species/aspergillus_oryzae/aspergillus_oryzae_exon_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_oryzae/aspergillus_oryzae_igenic_probs.pbl' -> './config/species/aspergillus_oryzae/aspergillus_oryzae_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_oryzae/aspergillus_oryzae_intron_probs.pbl' -> './config/species/aspergillus_oryzae/aspergillus_oryzae_intron_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_oryzae/aspergillus_oryzae_metapars.cfg' -> './config/species/aspergillus_oryzae/aspergillus_oryzae_metapars.cfg' 192s '/usr/share/augustus/config/species/aspergillus_oryzae/aspergillus_oryzae_parameters.cfg' -> './config/species/aspergillus_oryzae/aspergillus_oryzae_parameters.cfg' 192s '/usr/share/augustus/config/species/aspergillus_oryzae/aspergillus_oryzae_weightmatrix.txt' -> './config/species/aspergillus_oryzae/aspergillus_oryzae_weightmatrix.txt' 192s '/usr/share/augustus/config/species/aspergillus_terreus' -> './config/species/aspergillus_terreus' 192s '/usr/share/augustus/config/species/aspergillus_terreus/aspergillus_terreus_exon_probs.pbl' -> './config/species/aspergillus_terreus/aspergillus_terreus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_terreus/aspergillus_terreus_igenic_probs.pbl' -> './config/species/aspergillus_terreus/aspergillus_terreus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_terreus/aspergillus_terreus_intron_probs.pbl' -> './config/species/aspergillus_terreus/aspergillus_terreus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/aspergillus_terreus/aspergillus_terreus_metapars.cfg' -> './config/species/aspergillus_terreus/aspergillus_terreus_metapars.cfg' 192s '/usr/share/augustus/config/species/aspergillus_terreus/aspergillus_terreus_parameters.cfg' -> './config/species/aspergillus_terreus/aspergillus_terreus_parameters.cfg' 192s '/usr/share/augustus/config/species/aspergillus_terreus/aspergillus_terreus_weightmatrix.txt' -> './config/species/aspergillus_terreus/aspergillus_terreus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/b_pseudomallei' -> './config/species/b_pseudomallei' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_exon_probs.pbl' -> './config/species/b_pseudomallei/b_pseudomallei_exon_probs.pbl' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_igenic_probs.pbl' -> './config/species/b_pseudomallei/b_pseudomallei_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_metapars.cfg' -> './config/species/b_pseudomallei/b_pseudomallei_metapars.cfg' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_metapars.utr.cfg' -> './config/species/b_pseudomallei/b_pseudomallei_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_ovlp_len.pbl' -> './config/species/b_pseudomallei/b_pseudomallei_ovlp_len.pbl' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_parameters.cfg' -> './config/species/b_pseudomallei/b_pseudomallei_parameters.cfg' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_parameters.cfg.orig1' -> './config/species/b_pseudomallei/b_pseudomallei_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_parameters.cfg.orig2' -> './config/species/b_pseudomallei/b_pseudomallei_parameters.cfg.orig2' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_trans_shadow_bacterium.pbl' -> './config/species/b_pseudomallei/b_pseudomallei_trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/species/b_pseudomallei/b_pseudomallei_weightmatrix.txt' -> './config/species/b_pseudomallei/b_pseudomallei_weightmatrix.txt' 192s '/usr/share/augustus/config/species/bombus_impatiens1' -> './config/species/bombus_impatiens1' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_exon_probs.pbl' -> './config/species/bombus_impatiens1/bombus_impatiens1_exon_probs.pbl' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_exon_probs.pbl.withoutCRF' -> './config/species/bombus_impatiens1/bombus_impatiens1_exon_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_igenic_probs.pbl' -> './config/species/bombus_impatiens1/bombus_impatiens1_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_igenic_probs.pbl.withoutCRF' -> './config/species/bombus_impatiens1/bombus_impatiens1_igenic_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_intron_probs.pbl' -> './config/species/bombus_impatiens1/bombus_impatiens1_intron_probs.pbl' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_intron_probs.pbl.withoutCRF' -> './config/species/bombus_impatiens1/bombus_impatiens1_intron_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_metapars.cfg' -> './config/species/bombus_impatiens1/bombus_impatiens1_metapars.cfg' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_metapars.utr.cfg' -> './config/species/bombus_impatiens1/bombus_impatiens1_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg' -> './config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig1' -> './config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig2' -> './config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig2' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig3' -> './config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig3' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig4' -> './config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig4' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig5' -> './config/species/bombus_impatiens1/bombus_impatiens1_parameters.cfg.orig5' 192s '/usr/share/augustus/config/species/bombus_impatiens1/bombus_impatiens1_weightmatrix.txt' -> './config/species/bombus_impatiens1/bombus_impatiens1_weightmatrix.txt' 192s '/usr/share/augustus/config/species/bombus_terrestris2' -> './config/species/bombus_terrestris2' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_exon_probs.pbl' -> './config/species/bombus_terrestris2/bombus_terrestris2_exon_probs.pbl' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_exon_probs.pbl.withoutCRF' -> './config/species/bombus_terrestris2/bombus_terrestris2_exon_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_igenic_probs.pbl' -> './config/species/bombus_terrestris2/bombus_terrestris2_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_igenic_probs.pbl.withoutCRF' -> './config/species/bombus_terrestris2/bombus_terrestris2_igenic_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_intron_probs.pbl' -> './config/species/bombus_terrestris2/bombus_terrestris2_intron_probs.pbl' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_intron_probs.pbl.withoutCRF' -> './config/species/bombus_terrestris2/bombus_terrestris2_intron_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_metapars.cfg' -> './config/species/bombus_terrestris2/bombus_terrestris2_metapars.cfg' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_metapars.utr.cfg' -> './config/species/bombus_terrestris2/bombus_terrestris2_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg' -> './config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig1' -> './config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig2' -> './config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig2' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig3' -> './config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig3' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig4' -> './config/species/bombus_terrestris2/bombus_terrestris2_parameters.cfg.orig4' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_utr_probs.pbl' -> './config/species/bombus_terrestris2/bombus_terrestris2_utr_probs.pbl' 192s '/usr/share/augustus/config/species/bombus_terrestris2/bombus_terrestris2_weightmatrix.txt' -> './config/species/bombus_terrestris2/bombus_terrestris2_weightmatrix.txt' 192s '/usr/share/augustus/config/species/botrytis_cinerea' -> './config/species/botrytis_cinerea' 192s '/usr/share/augustus/config/species/botrytis_cinerea/botrytis_cinerea_exon_probs.pbl' -> './config/species/botrytis_cinerea/botrytis_cinerea_exon_probs.pbl' 192s '/usr/share/augustus/config/species/botrytis_cinerea/botrytis_cinerea_igenic_probs.pbl' -> './config/species/botrytis_cinerea/botrytis_cinerea_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/botrytis_cinerea/botrytis_cinerea_intron_probs.pbl' -> './config/species/botrytis_cinerea/botrytis_cinerea_intron_probs.pbl' 192s '/usr/share/augustus/config/species/botrytis_cinerea/botrytis_cinerea_metapars.cfg' -> './config/species/botrytis_cinerea/botrytis_cinerea_metapars.cfg' 192s '/usr/share/augustus/config/species/botrytis_cinerea/botrytis_cinerea_parameters.cfg' -> './config/species/botrytis_cinerea/botrytis_cinerea_parameters.cfg' 192s '/usr/share/augustus/config/species/botrytis_cinerea/botrytis_cinerea_weightmatrix.txt' -> './config/species/botrytis_cinerea/botrytis_cinerea_weightmatrix.txt' 192s '/usr/share/augustus/config/species/brugia' -> './config/species/brugia' 192s '/usr/share/augustus/config/species/brugia/brugia_exon_probs.pbl' -> './config/species/brugia/brugia_exon_probs.pbl' 192s '/usr/share/augustus/config/species/brugia/brugia_igenic_probs.pbl' -> './config/species/brugia/brugia_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/brugia/brugia_intron_probs.pbl' -> './config/species/brugia/brugia_intron_probs.pbl' 192s '/usr/share/augustus/config/species/brugia/brugia_parameters.cfg' -> './config/species/brugia/brugia_parameters.cfg' 192s '/usr/share/augustus/config/species/brugia/brugia_splicefile' -> './config/species/brugia/brugia_splicefile' 192s '/usr/share/augustus/config/species/brugia/brugia_weightmatrix.txt' -> './config/species/brugia/brugia_weightmatrix.txt' 192s '/usr/share/augustus/config/species/c_elegans_trsk' -> './config/species/c_elegans_trsk' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_exon_probs.pbl' -> './config/species/c_elegans_trsk/c_elegans_trsk_exon_probs.pbl' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_exon_probs.pbl.withoutCRF' -> './config/species/c_elegans_trsk/c_elegans_trsk_exon_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_igenic_probs.pbl' -> './config/species/c_elegans_trsk/c_elegans_trsk_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_igenic_probs.pbl.withoutCRF' -> './config/species/c_elegans_trsk/c_elegans_trsk_igenic_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_intron_probs.pbl' -> './config/species/c_elegans_trsk/c_elegans_trsk_intron_probs.pbl' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_intron_probs.pbl.withoutCRF' -> './config/species/c_elegans_trsk/c_elegans_trsk_intron_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_metapars.cfg' -> './config/species/c_elegans_trsk/c_elegans_trsk_metapars.cfg' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_metapars.utr.cfg' -> './config/species/c_elegans_trsk/c_elegans_trsk_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_parameters.cfg' -> './config/species/c_elegans_trsk/c_elegans_trsk_parameters.cfg' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_utr_probs.pbl' -> './config/species/c_elegans_trsk/c_elegans_trsk_utr_probs.pbl' 192s '/usr/share/augustus/config/species/c_elegans_trsk/c_elegans_trsk_weightmatrix.txt' -> './config/species/c_elegans_trsk/c_elegans_trsk_weightmatrix.txt' 192s '/usr/share/augustus/config/species/cacao' -> './config/species/cacao' 192s '/usr/share/augustus/config/species/cacao/cacao_exon_probs.pbl' -> './config/species/cacao/cacao_exon_probs.pbl' 192s '/usr/share/augustus/config/species/cacao/cacao_igenic_probs.pbl' -> './config/species/cacao/cacao_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/cacao/cacao_intron_probs.pbl' -> './config/species/cacao/cacao_intron_probs.pbl' 192s '/usr/share/augustus/config/species/cacao/cacao_metapars.cfg' -> './config/species/cacao/cacao_metapars.cfg' 192s '/usr/share/augustus/config/species/cacao/cacao_metapars.utr.cfg' -> './config/species/cacao/cacao_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/cacao/cacao_parameters.cfg' -> './config/species/cacao/cacao_parameters.cfg' 192s '/usr/share/augustus/config/species/cacao/cacao_utr_probs.pbl' -> './config/species/cacao/cacao_utr_probs.pbl' 192s '/usr/share/augustus/config/species/cacao/cacao_weightmatrix.txt' -> './config/species/cacao/cacao_weightmatrix.txt' 192s '/usr/share/augustus/config/species/caenorhabditis' -> './config/species/caenorhabditis' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_exon_probs.pbl' -> './config/species/caenorhabditis/caenorhabditis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_igenic_probs.pbl' -> './config/species/caenorhabditis/caenorhabditis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_intron_probs.pbl' -> './config/species/caenorhabditis/caenorhabditis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_metapars.cfg' -> './config/species/caenorhabditis/caenorhabditis_metapars.cfg' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_parameters.cfg' -> './config/species/caenorhabditis/caenorhabditis_parameters.cfg' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_trans_shadow_partial_utr.pbl' -> './config/species/caenorhabditis/caenorhabditis_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_utr_probs.pbl' -> './config/species/caenorhabditis/caenorhabditis_utr_probs.pbl' 192s '/usr/share/augustus/config/species/caenorhabditis/caenorhabditis_weightmatrix.txt' -> './config/species/caenorhabditis/caenorhabditis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/camponotus_floridanus' -> './config/species/camponotus_floridanus' 192s '/usr/share/augustus/config/species/camponotus_floridanus/README.TXT' -> './config/species/camponotus_floridanus/README.TXT' 192s '/usr/share/augustus/config/species/camponotus_floridanus/camponotus_floridanus_exon_probs.pbl' -> './config/species/camponotus_floridanus/camponotus_floridanus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/camponotus_floridanus/camponotus_floridanus_igenic_probs.pbl' -> './config/species/camponotus_floridanus/camponotus_floridanus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/camponotus_floridanus/camponotus_floridanus_intron_probs.pbl' -> './config/species/camponotus_floridanus/camponotus_floridanus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/camponotus_floridanus/camponotus_floridanus_metapars.cfg' -> './config/species/camponotus_floridanus/camponotus_floridanus_metapars.cfg' 192s '/usr/share/augustus/config/species/camponotus_floridanus/camponotus_floridanus_metapars.utr.cfg' -> './config/species/camponotus_floridanus/camponotus_floridanus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/camponotus_floridanus/camponotus_floridanus_parameters.cfg' -> './config/species/camponotus_floridanus/camponotus_floridanus_parameters.cfg' 192s '/usr/share/augustus/config/species/camponotus_floridanus/camponotus_floridanus_weightmatrix.txt' -> './config/species/camponotus_floridanus/camponotus_floridanus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/candida_albicans' -> './config/species/candida_albicans' 192s '/usr/share/augustus/config/species/candida_albicans/candida_albicans_exon_probs.pbl' -> './config/species/candida_albicans/candida_albicans_exon_probs.pbl' 192s '/usr/share/augustus/config/species/candida_albicans/candida_albicans_igenic_probs.pbl' -> './config/species/candida_albicans/candida_albicans_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/candida_albicans/candida_albicans_intron_probs.pbl' -> './config/species/candida_albicans/candida_albicans_intron_probs.pbl' 192s '/usr/share/augustus/config/species/candida_albicans/candida_albicans_metapars.cfg' -> './config/species/candida_albicans/candida_albicans_metapars.cfg' 192s '/usr/share/augustus/config/species/candida_albicans/candida_albicans_parameters.cfg' -> './config/species/candida_albicans/candida_albicans_parameters.cfg' 192s '/usr/share/augustus/config/species/candida_albicans/candida_albicans_weightmatrix.txt' -> './config/species/candida_albicans/candida_albicans_weightmatrix.txt' 192s '/usr/share/augustus/config/species/candida_guilliermondii' -> './config/species/candida_guilliermondii' 192s '/usr/share/augustus/config/species/candida_guilliermondii/candida_guilliermondii_exon_probs.pbl' -> './config/species/candida_guilliermondii/candida_guilliermondii_exon_probs.pbl' 192s '/usr/share/augustus/config/species/candida_guilliermondii/candida_guilliermondii_igenic_probs.pbl' -> './config/species/candida_guilliermondii/candida_guilliermondii_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/candida_guilliermondii/candida_guilliermondii_intron_probs.pbl' -> './config/species/candida_guilliermondii/candida_guilliermondii_intron_probs.pbl' 192s '/usr/share/augustus/config/species/candida_guilliermondii/candida_guilliermondii_metapars.cfg' -> './config/species/candida_guilliermondii/candida_guilliermondii_metapars.cfg' 192s '/usr/share/augustus/config/species/candida_guilliermondii/candida_guilliermondii_parameters.cfg' -> './config/species/candida_guilliermondii/candida_guilliermondii_parameters.cfg' 192s '/usr/share/augustus/config/species/candida_guilliermondii/candida_guilliermondii_weightmatrix.txt' -> './config/species/candida_guilliermondii/candida_guilliermondii_weightmatrix.txt' 192s '/usr/share/augustus/config/species/candida_tropicalis' -> './config/species/candida_tropicalis' 192s '/usr/share/augustus/config/species/candida_tropicalis/candida_tropicalis_exon_probs.pbl' -> './config/species/candida_tropicalis/candida_tropicalis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/candida_tropicalis/candida_tropicalis_igenic_probs.pbl' -> './config/species/candida_tropicalis/candida_tropicalis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/candida_tropicalis/candida_tropicalis_intron_probs.pbl' -> './config/species/candida_tropicalis/candida_tropicalis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/candida_tropicalis/candida_tropicalis_metapars.cfg' -> './config/species/candida_tropicalis/candida_tropicalis_metapars.cfg' 192s '/usr/share/augustus/config/species/candida_tropicalis/candida_tropicalis_parameters.cfg' -> './config/species/candida_tropicalis/candida_tropicalis_parameters.cfg' 192s '/usr/share/augustus/config/species/candida_tropicalis/candida_tropicalis_weightmatrix.txt' -> './config/species/candida_tropicalis/candida_tropicalis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/chaetomium_globosum' -> './config/species/chaetomium_globosum' 192s '/usr/share/augustus/config/species/chaetomium_globosum/chaetomium_globosum_exon_probs.pbl' -> './config/species/chaetomium_globosum/chaetomium_globosum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/chaetomium_globosum/chaetomium_globosum_igenic_probs.pbl' -> './config/species/chaetomium_globosum/chaetomium_globosum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/chaetomium_globosum/chaetomium_globosum_intron_probs.pbl' -> './config/species/chaetomium_globosum/chaetomium_globosum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/chaetomium_globosum/chaetomium_globosum_metapars.cfg' -> './config/species/chaetomium_globosum/chaetomium_globosum_metapars.cfg' 192s '/usr/share/augustus/config/species/chaetomium_globosum/chaetomium_globosum_parameters.cfg' -> './config/species/chaetomium_globosum/chaetomium_globosum_parameters.cfg' 192s '/usr/share/augustus/config/species/chaetomium_globosum/chaetomium_globosum_weightmatrix.txt' -> './config/species/chaetomium_globosum/chaetomium_globosum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/chicken' -> './config/species/chicken' 192s '/usr/share/augustus/config/species/chicken/README.TXT' -> './config/species/chicken/README.TXT' 192s '/usr/share/augustus/config/species/chicken/chicken_exon_probs.pbl' -> './config/species/chicken/chicken_exon_probs.pbl' 192s '/usr/share/augustus/config/species/chicken/chicken_igenic_probs.pbl' -> './config/species/chicken/chicken_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/chicken/chicken_intron_probs.pbl' -> './config/species/chicken/chicken_intron_probs.pbl' 192s '/usr/share/augustus/config/species/chicken/chicken_metapars.cfg' -> './config/species/chicken/chicken_metapars.cfg' 192s '/usr/share/augustus/config/species/chicken/chicken_metapars.utr.cfg' -> './config/species/chicken/chicken_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/chicken/chicken_parameters.cfg' -> './config/species/chicken/chicken_parameters.cfg' 192s '/usr/share/augustus/config/species/chicken/chicken_weightmatrix.txt' -> './config/species/chicken/chicken_weightmatrix.txt' 192s '/usr/share/augustus/config/species/chiloscyllium' -> './config/species/chiloscyllium' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_exon_probs.pbl' -> './config/species/chiloscyllium/chiloscyllium_exon_probs.pbl' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_igenic_probs.pbl' -> './config/species/chiloscyllium/chiloscyllium_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_intron_probs.pbl' -> './config/species/chiloscyllium/chiloscyllium_intron_probs.pbl' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_metapars.cfg' -> './config/species/chiloscyllium/chiloscyllium_metapars.cfg' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_metapars.cgp.cfg' -> './config/species/chiloscyllium/chiloscyllium_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_metapars.utr.cfg' -> './config/species/chiloscyllium/chiloscyllium_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_parameters.cfg' -> './config/species/chiloscyllium/chiloscyllium_parameters.cfg' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_parameters.cfg.orig1' -> './config/species/chiloscyllium/chiloscyllium_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/chiloscyllium/chiloscyllium_weightmatrix.txt' -> './config/species/chiloscyllium/chiloscyllium_weightmatrix.txt' 192s '/usr/share/augustus/config/species/chlamy2011' -> './config/species/chlamy2011' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_exon_probs.pbl' -> './config/species/chlamy2011/chlamy2011_exon_probs.pbl' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_igenic_probs.pbl' -> './config/species/chlamy2011/chlamy2011_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_intron_probs.pbl' -> './config/species/chlamy2011/chlamy2011_intron_probs.pbl' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_metapars.cfg' -> './config/species/chlamy2011/chlamy2011_metapars.cfg' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_metapars.utr.cfg' -> './config/species/chlamy2011/chlamy2011_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_parameters.cfg' -> './config/species/chlamy2011/chlamy2011_parameters.cfg' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_trans_shadow_partial.pbl' -> './config/species/chlamy2011/chlamy2011_trans_shadow_partial.pbl' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_trans_shadow_partial_utr.pbl' -> './config/species/chlamy2011/chlamy2011_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_utr_probs.pbl' -> './config/species/chlamy2011/chlamy2011_utr_probs.pbl' 192s '/usr/share/augustus/config/species/chlamy2011/chlamy2011_weightmatrix.txt' -> './config/species/chlamy2011/chlamy2011_weightmatrix.txt' 192s '/usr/share/augustus/config/species/chlamydomonas' -> './config/species/chlamydomonas' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_exon_probs.pbl' -> './config/species/chlamydomonas/chlamydomonas_exon_probs.pbl' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_igenic_probs.pbl' -> './config/species/chlamydomonas/chlamydomonas_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_intron_probs.pbl' -> './config/species/chlamydomonas/chlamydomonas_intron_probs.pbl' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_metapars.cfg' -> './config/species/chlamydomonas/chlamydomonas_metapars.cfg' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_parameters.cfg' -> './config/species/chlamydomonas/chlamydomonas_parameters.cfg' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_trans_shadow_partial.pbl' -> './config/species/chlamydomonas/chlamydomonas_trans_shadow_partial.pbl' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_trans_shadow_partial_utr.pbl' -> './config/species/chlamydomonas/chlamydomonas_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_utr_probs.pbl' -> './config/species/chlamydomonas/chlamydomonas_utr_probs.pbl' 192s '/usr/share/augustus/config/species/chlamydomonas/chlamydomonas_weightmatrix.txt' -> './config/species/chlamydomonas/chlamydomonas_weightmatrix.txt' 192s '/usr/share/augustus/config/species/chlorella' -> './config/species/chlorella' 192s '/usr/share/augustus/config/species/chlorella/chlorella_exon_probs.pbl' -> './config/species/chlorella/chlorella_exon_probs.pbl' 192s '/usr/share/augustus/config/species/chlorella/chlorella_igenic_probs.pbl' -> './config/species/chlorella/chlorella_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/chlorella/chlorella_intron_probs.pbl' -> './config/species/chlorella/chlorella_intron_probs.pbl' 192s '/usr/share/augustus/config/species/chlorella/chlorella_metapars.cfg' -> './config/species/chlorella/chlorella_metapars.cfg' 192s '/usr/share/augustus/config/species/chlorella/chlorella_metapars.utr.cfg' -> './config/species/chlorella/chlorella_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/chlorella/chlorella_parameters.cfg' -> './config/species/chlorella/chlorella_parameters.cfg' 192s '/usr/share/augustus/config/species/chlorella/chlorella_utr_probs.pbl' -> './config/species/chlorella/chlorella_utr_probs.pbl' 192s '/usr/share/augustus/config/species/chlorella/chlorella_weightmatrix.txt' -> './config/species/chlorella/chlorella_weightmatrix.txt' 192s '/usr/share/augustus/config/species/ciona' -> './config/species/ciona' 192s '/usr/share/augustus/config/species/ciona/README.TXT' -> './config/species/ciona/README.TXT' 192s '/usr/share/augustus/config/species/ciona/ciona_exon_probs.pbl' -> './config/species/ciona/ciona_exon_probs.pbl' 192s '/usr/share/augustus/config/species/ciona/ciona_igenic_probs.pbl' -> './config/species/ciona/ciona_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/ciona/ciona_intron_probs.pbl' -> './config/species/ciona/ciona_intron_probs.pbl' 192s '/usr/share/augustus/config/species/ciona/ciona_metapars.cfg' -> './config/species/ciona/ciona_metapars.cfg' 192s '/usr/share/augustus/config/species/ciona/ciona_metapars.cgp.cfg' -> './config/species/ciona/ciona_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/ciona/ciona_metapars.utr.cfg' -> './config/species/ciona/ciona_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/ciona/ciona_parameters.cfg' -> './config/species/ciona/ciona_parameters.cfg' 192s '/usr/share/augustus/config/species/ciona/ciona_parameters.cfg.orig1' -> './config/species/ciona/ciona_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/ciona/ciona_weightmatrix.txt' -> './config/species/ciona/ciona_weightmatrix.txt' 192s '/usr/share/augustus/config/species/coccidioides_immitis' -> './config/species/coccidioides_immitis' 192s '/usr/share/augustus/config/species/coccidioides_immitis/coccidioides_immitis_exon_probs.pbl' -> './config/species/coccidioides_immitis/coccidioides_immitis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/coccidioides_immitis/coccidioides_immitis_igenic_probs.pbl' -> './config/species/coccidioides_immitis/coccidioides_immitis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/coccidioides_immitis/coccidioides_immitis_intron_probs.pbl' -> './config/species/coccidioides_immitis/coccidioides_immitis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/coccidioides_immitis/coccidioides_immitis_metapars.cfg' -> './config/species/coccidioides_immitis/coccidioides_immitis_metapars.cfg' 192s '/usr/share/augustus/config/species/coccidioides_immitis/coccidioides_immitis_parameters.cfg' -> './config/species/coccidioides_immitis/coccidioides_immitis_parameters.cfg' 192s '/usr/share/augustus/config/species/coccidioides_immitis/coccidioides_immitis_weightmatrix.txt' -> './config/species/coccidioides_immitis/coccidioides_immitis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/coprinus' -> './config/species/coprinus' 192s '/usr/share/augustus/config/species/coprinus/coprinus_exon_probs.pbl' -> './config/species/coprinus/coprinus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/coprinus/coprinus_igenic_probs.pbl' -> './config/species/coprinus/coprinus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/coprinus/coprinus_intron_probs.pbl' -> './config/species/coprinus/coprinus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/coprinus/coprinus_parameters.cfg' -> './config/species/coprinus/coprinus_parameters.cfg' 192s '/usr/share/augustus/config/species/coprinus/coprinus_weightmatrix.txt' -> './config/species/coprinus/coprinus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/coprinus_cinereus' -> './config/species/coprinus_cinereus' 192s '/usr/share/augustus/config/species/coprinus_cinereus/coprinus_cinereus_exon_probs.pbl' -> './config/species/coprinus_cinereus/coprinus_cinereus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/coprinus_cinereus/coprinus_cinereus_igenic_probs.pbl' -> './config/species/coprinus_cinereus/coprinus_cinereus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/coprinus_cinereus/coprinus_cinereus_intron_probs.pbl' -> './config/species/coprinus_cinereus/coprinus_cinereus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/coprinus_cinereus/coprinus_cinereus_metapars.cfg' -> './config/species/coprinus_cinereus/coprinus_cinereus_metapars.cfg' 192s '/usr/share/augustus/config/species/coprinus_cinereus/coprinus_cinereus_parameters.cfg' -> './config/species/coprinus_cinereus/coprinus_cinereus_parameters.cfg' 192s '/usr/share/augustus/config/species/coprinus_cinereus/coprinus_cinereus_weightmatrix.txt' -> './config/species/coprinus_cinereus/coprinus_cinereus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/coyote_tobacco' -> './config/species/coyote_tobacco' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_exon_probs.pbl' -> './config/species/coyote_tobacco/coyote_tobacco_exon_probs.pbl' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_igenic_probs.pbl' -> './config/species/coyote_tobacco/coyote_tobacco_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_intron_probs.pbl' -> './config/species/coyote_tobacco/coyote_tobacco_intron_probs.pbl' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_metapars.cfg' -> './config/species/coyote_tobacco/coyote_tobacco_metapars.cfg' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_metapars.utr.cfg' -> './config/species/coyote_tobacco/coyote_tobacco_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_parameters.cfg' -> './config/species/coyote_tobacco/coyote_tobacco_parameters.cfg' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_trans_shadow_partial_utr.pbl' -> './config/species/coyote_tobacco/coyote_tobacco_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_utr_probs.pbl' -> './config/species/coyote_tobacco/coyote_tobacco_utr_probs.pbl' 192s '/usr/share/augustus/config/species/coyote_tobacco/coyote_tobacco_weightmatrix.txt' -> './config/species/coyote_tobacco/coyote_tobacco_weightmatrix.txt' 192s '/usr/share/augustus/config/species/cryptococcus' -> './config/species/cryptococcus' 192s '/usr/share/augustus/config/species/cryptococcus/cryptococcus_exon_probs.pbl' -> './config/species/cryptococcus/cryptococcus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus/cryptococcus_igenic_probs.pbl' -> './config/species/cryptococcus/cryptococcus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus/cryptococcus_intron_probs.pbl' -> './config/species/cryptococcus/cryptococcus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus/cryptococcus_parameters.cfg' -> './config/species/cryptococcus/cryptococcus_parameters.cfg' 192s '/usr/share/augustus/config/species/cryptococcus/cryptococcus_weightmatrix.txt' -> './config/species/cryptococcus/cryptococcus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_gattii' -> './config/species/cryptococcus_neoformans_gattii' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_exon_probs.pbl' -> './config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_exon_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_igenic_probs.pbl' -> './config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_intron_probs.pbl' -> './config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_intron_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_metapars.cfg' -> './config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_metapars.cfg' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_parameters.cfg' -> './config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_parameters.cfg' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_weightmatrix.txt' -> './config/species/cryptococcus_neoformans_gattii/cryptococcus_neoformans_gattii_weightmatrix.txt' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_B' -> './config/species/cryptococcus_neoformans_neoformans_B' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_exon_probs.pbl' -> './config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_exon_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_igenic_probs.pbl' -> './config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_intron_probs.pbl' -> './config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_intron_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_metapars.cfg' -> './config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_metapars.cfg' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_parameters.cfg' -> './config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_parameters.cfg' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_weightmatrix.txt' -> './config/species/cryptococcus_neoformans_neoformans_B/cryptococcus_neoformans_neoformans_B_weightmatrix.txt' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_JEC21' -> './config/species/cryptococcus_neoformans_neoformans_JEC21' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_exon_probs.pbl' -> './config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_exon_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_igenic_probs.pbl' -> './config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_intron_probs.pbl' -> './config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_intron_probs.pbl' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_metapars.cfg' -> './config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_metapars.cfg' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_parameters.cfg' -> './config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_parameters.cfg' 192s '/usr/share/augustus/config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_weightmatrix.txt' -> './config/species/cryptococcus_neoformans_neoformans_JEC21/cryptococcus_neoformans_neoformans_JEC21_weightmatrix.txt' 192s '/usr/share/augustus/config/species/culex' -> './config/species/culex' 192s '/usr/share/augustus/config/species/culex/culex_exon_probs.pbl' -> './config/species/culex/culex_exon_probs.pbl' 192s '/usr/share/augustus/config/species/culex/culex_exon_probs.pbl.wech' -> './config/species/culex/culex_exon_probs.pbl.wech' 192s '/usr/share/augustus/config/species/culex/culex_igenic_probs.pbl' -> './config/species/culex/culex_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/culex/culex_igenic_probs.pbl.wech' -> './config/species/culex/culex_igenic_probs.pbl.wech' 192s '/usr/share/augustus/config/species/culex/culex_intron_probs.pbl' -> './config/species/culex/culex_intron_probs.pbl' 192s '/usr/share/augustus/config/species/culex/culex_intron_probs.pbl.wech' -> './config/species/culex/culex_intron_probs.pbl.wech' 192s '/usr/share/augustus/config/species/culex/culex_metapars.cfg' -> './config/species/culex/culex_metapars.cfg' 192s '/usr/share/augustus/config/species/culex/culex_parameters.cfg' -> './config/species/culex/culex_parameters.cfg' 192s '/usr/share/augustus/config/species/culex/culex_parameters.old.cfg' -> './config/species/culex/culex_parameters.old.cfg' 192s '/usr/share/augustus/config/species/culex/culex_trans_shadow_partial_utr.pbl' -> './config/species/culex/culex_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/culex/culex_utr_probs.pbl' -> './config/species/culex/culex_utr_probs.pbl' 192s '/usr/share/augustus/config/species/culex/culex_weightmatrix.txt' -> './config/species/culex/culex_weightmatrix.txt' 192s '/usr/share/augustus/config/species/debaryomyces_hansenii' -> './config/species/debaryomyces_hansenii' 192s '/usr/share/augustus/config/species/debaryomyces_hansenii/debaryomyces_hansenii_exon_probs.pbl' -> './config/species/debaryomyces_hansenii/debaryomyces_hansenii_exon_probs.pbl' 192s '/usr/share/augustus/config/species/debaryomyces_hansenii/debaryomyces_hansenii_igenic_probs.pbl' -> './config/species/debaryomyces_hansenii/debaryomyces_hansenii_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/debaryomyces_hansenii/debaryomyces_hansenii_intron_probs.pbl' -> './config/species/debaryomyces_hansenii/debaryomyces_hansenii_intron_probs.pbl' 192s '/usr/share/augustus/config/species/debaryomyces_hansenii/debaryomyces_hansenii_metapars.cfg' -> './config/species/debaryomyces_hansenii/debaryomyces_hansenii_metapars.cfg' 192s '/usr/share/augustus/config/species/debaryomyces_hansenii/debaryomyces_hansenii_parameters.cfg' -> './config/species/debaryomyces_hansenii/debaryomyces_hansenii_parameters.cfg' 192s '/usr/share/augustus/config/species/debaryomyces_hansenii/debaryomyces_hansenii_weightmatrix.txt' -> './config/species/debaryomyces_hansenii/debaryomyces_hansenii_weightmatrix.txt' 192s '/usr/share/augustus/config/species/elephant_shark' -> './config/species/elephant_shark' 192s '/usr/share/augustus/config/species/elephant_shark/elephant_shark_exon_probs.pbl' -> './config/species/elephant_shark/elephant_shark_exon_probs.pbl' 192s '/usr/share/augustus/config/species/elephant_shark/elephant_shark_igenic_probs.pbl' -> './config/species/elephant_shark/elephant_shark_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/elephant_shark/elephant_shark_intron_probs.pbl' -> './config/species/elephant_shark/elephant_shark_intron_probs.pbl' 192s '/usr/share/augustus/config/species/elephant_shark/elephant_shark_metapars.cfg' -> './config/species/elephant_shark/elephant_shark_metapars.cfg' 192s '/usr/share/augustus/config/species/elephant_shark/elephant_shark_metapars.utr.cfg' -> './config/species/elephant_shark/elephant_shark_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/elephant_shark/elephant_shark_parameters.cfg' -> './config/species/elephant_shark/elephant_shark_parameters.cfg' 192s '/usr/share/augustus/config/species/elephant_shark/elephant_shark_weightmatrix.txt' -> './config/species/elephant_shark/elephant_shark_weightmatrix.txt' 192s '/usr/share/augustus/config/species/encephalitozoon_cuniculi_GB' -> './config/species/encephalitozoon_cuniculi_GB' 192s '/usr/share/augustus/config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_exon_probs.pbl' -> './config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_exon_probs.pbl' 192s '/usr/share/augustus/config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_igenic_probs.pbl' -> './config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_intron_probs.pbl' -> './config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_intron_probs.pbl' 192s '/usr/share/augustus/config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_metapars.cfg' -> './config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_metapars.cfg' 192s '/usr/share/augustus/config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_parameters.cfg' -> './config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_parameters.cfg' 192s '/usr/share/augustus/config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_weightmatrix.txt' -> './config/species/encephalitozoon_cuniculi_GB/encephalitozoon_cuniculi_GB_weightmatrix.txt' 192s '/usr/share/augustus/config/species/eremothecium_gossypii' -> './config/species/eremothecium_gossypii' 192s '/usr/share/augustus/config/species/eremothecium_gossypii/eremothecium_gossypii_exon_probs.pbl' -> './config/species/eremothecium_gossypii/eremothecium_gossypii_exon_probs.pbl' 192s '/usr/share/augustus/config/species/eremothecium_gossypii/eremothecium_gossypii_igenic_probs.pbl' -> './config/species/eremothecium_gossypii/eremothecium_gossypii_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/eremothecium_gossypii/eremothecium_gossypii_intron_probs.pbl' -> './config/species/eremothecium_gossypii/eremothecium_gossypii_intron_probs.pbl' 192s '/usr/share/augustus/config/species/eremothecium_gossypii/eremothecium_gossypii_metapars.cfg' -> './config/species/eremothecium_gossypii/eremothecium_gossypii_metapars.cfg' 192s '/usr/share/augustus/config/species/eremothecium_gossypii/eremothecium_gossypii_parameters.cfg' -> './config/species/eremothecium_gossypii/eremothecium_gossypii_parameters.cfg' 192s '/usr/share/augustus/config/species/eremothecium_gossypii/eremothecium_gossypii_weightmatrix.txt' -> './config/species/eremothecium_gossypii/eremothecium_gossypii_weightmatrix.txt' 192s '/usr/share/augustus/config/species/fly' -> './config/species/fly' 192s '/usr/share/augustus/config/species/fly/fly_exon_probs.pbl' -> './config/species/fly/fly_exon_probs.pbl' 192s '/usr/share/augustus/config/species/fly/fly_igenic_probs.pbl' -> './config/species/fly/fly_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/fly/fly_intron_probs.pbl' -> './config/species/fly/fly_intron_probs.pbl' 192s '/usr/share/augustus/config/species/fly/fly_metapars.cfg' -> './config/species/fly/fly_metapars.cfg' 192s '/usr/share/augustus/config/species/fly/fly_metapars.utr.cfg' -> './config/species/fly/fly_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/fly/fly_parameters.cfg' -> './config/species/fly/fly_parameters.cfg' 192s '/usr/share/augustus/config/species/fly/fly_utr_probs.pbl' -> './config/species/fly/fly_utr_probs.pbl' 192s '/usr/share/augustus/config/species/fly/fly_weightmatrix.txt' -> './config/species/fly/fly_weightmatrix.txt' 192s '/usr/share/augustus/config/species/fly_exp' -> './config/species/fly_exp' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_exon_probs.pbl' -> './config/species/fly_exp/fly_exp_exon_probs.pbl' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_igenic_probs.pbl' -> './config/species/fly_exp/fly_exp_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_intron_probs.pbl' -> './config/species/fly_exp/fly_exp_intron_probs.pbl' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_metapars.cfg' -> './config/species/fly_exp/fly_exp_metapars.cfg' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_metapars.utr.cfg' -> './config/species/fly_exp/fly_exp_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_parameters.cfg' -> './config/species/fly_exp/fly_exp_parameters.cfg' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_utr_probs.pbl' -> './config/species/fly_exp/fly_exp_utr_probs.pbl' 192s '/usr/share/augustus/config/species/fly_exp/fly_exp_weightmatrix.txt' -> './config/species/fly_exp/fly_exp_weightmatrix.txt' 192s '/usr/share/augustus/config/species/fusarium' -> './config/species/fusarium' 192s '/usr/share/augustus/config/species/fusarium/fusarium_exon_probs.pbl' -> './config/species/fusarium/fusarium_exon_probs.pbl' 192s '/usr/share/augustus/config/species/fusarium/fusarium_igenic_probs.pbl' -> './config/species/fusarium/fusarium_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/fusarium/fusarium_intron_probs.pbl' -> './config/species/fusarium/fusarium_intron_probs.pbl' 192s '/usr/share/augustus/config/species/fusarium/fusarium_parameters.cfg' -> './config/species/fusarium/fusarium_parameters.cfg' 192s '/usr/share/augustus/config/species/fusarium/fusarium_weightmatrix.txt' -> './config/species/fusarium/fusarium_weightmatrix.txt' 192s '/usr/share/augustus/config/species/fusarium_graminearum' -> './config/species/fusarium_graminearum' 192s '/usr/share/augustus/config/species/fusarium_graminearum/fusarium_graminearum_exon_probs.pbl' -> './config/species/fusarium_graminearum/fusarium_graminearum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/fusarium_graminearum/fusarium_graminearum_igenic_probs.pbl' -> './config/species/fusarium_graminearum/fusarium_graminearum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/fusarium_graminearum/fusarium_graminearum_intron_probs.pbl' -> './config/species/fusarium_graminearum/fusarium_graminearum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/fusarium_graminearum/fusarium_graminearum_metapars.cfg' -> './config/species/fusarium_graminearum/fusarium_graminearum_metapars.cfg' 192s '/usr/share/augustus/config/species/fusarium_graminearum/fusarium_graminearum_parameters.cfg' -> './config/species/fusarium_graminearum/fusarium_graminearum_parameters.cfg' 192s '/usr/share/augustus/config/species/fusarium_graminearum/fusarium_graminearum_weightmatrix.txt' -> './config/species/fusarium_graminearum/fusarium_graminearum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/galdieria' -> './config/species/galdieria' 192s '/usr/share/augustus/config/species/galdieria/extrinsic.PE.cfg' -> './config/species/galdieria/extrinsic.PE.cfg' 192s '/usr/share/augustus/config/species/galdieria/galdieria_exon_probs.pbl' -> './config/species/galdieria/galdieria_exon_probs.pbl' 192s '/usr/share/augustus/config/species/galdieria/galdieria_igenic_probs.pbl' -> './config/species/galdieria/galdieria_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/galdieria/galdieria_intron_probs.pbl' -> './config/species/galdieria/galdieria_intron_probs.pbl' 192s '/usr/share/augustus/config/species/galdieria/galdieria_metapars.cfg' -> './config/species/galdieria/galdieria_metapars.cfg' 192s '/usr/share/augustus/config/species/galdieria/galdieria_parameters.cfg' -> './config/species/galdieria/galdieria_parameters.cfg' 192s '/usr/share/augustus/config/species/galdieria/galdieria_splicefile' -> './config/species/galdieria/galdieria_splicefile' 192s '/usr/share/augustus/config/species/galdieria/galdieria_trans_shadow_partial_utr.pbl' -> './config/species/galdieria/galdieria_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/galdieria/galdieria_utr_probs.pbl' -> './config/species/galdieria/galdieria_utr_probs.pbl' 192s '/usr/share/augustus/config/species/galdieria/galdieria_weightmatrix.txt' -> './config/species/galdieria/galdieria_weightmatrix.txt' 192s '/usr/share/augustus/config/species/generic' -> './config/species/generic' 192s '/usr/share/augustus/config/species/generic/generic_metapars.cfg' -> './config/species/generic/generic_metapars.cfg' 192s '/usr/share/augustus/config/species/generic/generic_metapars.cgp.cfg' -> './config/species/generic/generic_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/generic/generic_metapars.utr.cfg' -> './config/species/generic/generic_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/generic/generic_parameters.cfg' -> './config/species/generic/generic_parameters.cfg' 192s '/usr/share/augustus/config/species/generic/generic_weightmatrix.txt' -> './config/species/generic/generic_weightmatrix.txt' 192s '/usr/share/augustus/config/species/gigaspora_margarita' -> './config/species/gigaspora_margarita' 192s '/usr/share/augustus/config/species/gigaspora_margarita/README.TXT' -> './config/species/gigaspora_margarita/README.TXT' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_exon_probs.pbl' -> './config/species/gigaspora_margarita/gigaspora_margarita_exon_probs.pbl' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_igenic_probs.pbl' -> './config/species/gigaspora_margarita/gigaspora_margarita_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_intron_probs.pbl' -> './config/species/gigaspora_margarita/gigaspora_margarita_intron_probs.pbl' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_metapars.cfg' -> './config/species/gigaspora_margarita/gigaspora_margarita_metapars.cfg' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_metapars.cgp.cfg' -> './config/species/gigaspora_margarita/gigaspora_margarita_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_metapars.utr.cfg' -> './config/species/gigaspora_margarita/gigaspora_margarita_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_parameters.cfg' -> './config/species/gigaspora_margarita/gigaspora_margarita_parameters.cfg' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gigaspora_margarita_weightmatrix.txt' -> './config/species/gigaspora_margarita/gigaspora_margarita_weightmatrix.txt' 192s '/usr/share/augustus/config/species/gigaspora_margarita/gth.cfg' -> './config/species/gigaspora_margarita/gth.cfg' 192s '/usr/share/augustus/config/species/heliconius_melpomene1' -> './config/species/heliconius_melpomene1' 192s '/usr/share/augustus/config/species/heliconius_melpomene1/heliconius_melpomene1_exon_probs.pbl' -> './config/species/heliconius_melpomene1/heliconius_melpomene1_exon_probs.pbl' 192s '/usr/share/augustus/config/species/heliconius_melpomene1/heliconius_melpomene1_igenic_probs.pbl' -> './config/species/heliconius_melpomene1/heliconius_melpomene1_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/heliconius_melpomene1/heliconius_melpomene1_intron_probs.pbl' -> './config/species/heliconius_melpomene1/heliconius_melpomene1_intron_probs.pbl' 192s '/usr/share/augustus/config/species/heliconius_melpomene1/heliconius_melpomene1_metapars.cfg' -> './config/species/heliconius_melpomene1/heliconius_melpomene1_metapars.cfg' 192s '/usr/share/augustus/config/species/heliconius_melpomene1/heliconius_melpomene1_metapars.utr.cfg' -> './config/species/heliconius_melpomene1/heliconius_melpomene1_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/heliconius_melpomene1/heliconius_melpomene1_parameters.cfg' -> './config/species/heliconius_melpomene1/heliconius_melpomene1_parameters.cfg' 192s '/usr/share/augustus/config/species/heliconius_melpomene1/heliconius_melpomene1_weightmatrix.txt' -> './config/species/heliconius_melpomene1/heliconius_melpomene1_weightmatrix.txt' 192s '/usr/share/augustus/config/species/histoplasma' -> './config/species/histoplasma' 192s '/usr/share/augustus/config/species/histoplasma/histoplasma_exon_probs.pbl' -> './config/species/histoplasma/histoplasma_exon_probs.pbl' 192s '/usr/share/augustus/config/species/histoplasma/histoplasma_igenic_probs.pbl' -> './config/species/histoplasma/histoplasma_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/histoplasma/histoplasma_intron_probs.pbl' -> './config/species/histoplasma/histoplasma_intron_probs.pbl' 192s '/usr/share/augustus/config/species/histoplasma/histoplasma_parameters.cfg' -> './config/species/histoplasma/histoplasma_parameters.cfg' 192s '/usr/share/augustus/config/species/histoplasma/histoplasma_weightmatrix.txt' -> './config/species/histoplasma/histoplasma_weightmatrix.txt' 192s '/usr/share/augustus/config/species/histoplasma_capsulatum' -> './config/species/histoplasma_capsulatum' 192s '/usr/share/augustus/config/species/histoplasma_capsulatum/histoplasma_capsulatum_exon_probs.pbl' -> './config/species/histoplasma_capsulatum/histoplasma_capsulatum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/histoplasma_capsulatum/histoplasma_capsulatum_igenic_probs.pbl' -> './config/species/histoplasma_capsulatum/histoplasma_capsulatum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/histoplasma_capsulatum/histoplasma_capsulatum_intron_probs.pbl' -> './config/species/histoplasma_capsulatum/histoplasma_capsulatum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/histoplasma_capsulatum/histoplasma_capsulatum_metapars.cfg' -> './config/species/histoplasma_capsulatum/histoplasma_capsulatum_metapars.cfg' 192s '/usr/share/augustus/config/species/histoplasma_capsulatum/histoplasma_capsulatum_parameters.cfg' -> './config/species/histoplasma_capsulatum/histoplasma_capsulatum_parameters.cfg' 192s '/usr/share/augustus/config/species/histoplasma_capsulatum/histoplasma_capsulatum_weightmatrix.txt' -> './config/species/histoplasma_capsulatum/histoplasma_capsulatum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/honeybee1' -> './config/species/honeybee1' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_exon_probs.pbl' -> './config/species/honeybee1/honeybee1_exon_probs.pbl' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_exon_probs.pbl.withoutCRF' -> './config/species/honeybee1/honeybee1_exon_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_igenic_probs.pbl' -> './config/species/honeybee1/honeybee1_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_igenic_probs.pbl.withoutCRF' -> './config/species/honeybee1/honeybee1_igenic_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_intron_probs.pbl' -> './config/species/honeybee1/honeybee1_intron_probs.pbl' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_intron_probs.pbl.withoutCRF' -> './config/species/honeybee1/honeybee1_intron_probs.pbl.withoutCRF' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_metapars.cfg' -> './config/species/honeybee1/honeybee1_metapars.cfg' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_metapars.utr.cfg' -> './config/species/honeybee1/honeybee1_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_parameters.cfg' -> './config/species/honeybee1/honeybee1_parameters.cfg' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_parameters.cfg.orig1' -> './config/species/honeybee1/honeybee1_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_utr_probs.pbl' -> './config/species/honeybee1/honeybee1_utr_probs.pbl' 192s '/usr/share/augustus/config/species/honeybee1/honeybee1_weightmatrix.txt' -> './config/species/honeybee1/honeybee1_weightmatrix.txt' 192s '/usr/share/augustus/config/species/human' -> './config/species/human' 192s '/usr/share/augustus/config/species/human/README.TXT' -> './config/species/human/README.TXT' 192s '/usr/share/augustus/config/species/human/human_exon_probs.pbl' -> './config/species/human/human_exon_probs.pbl' 192s '/usr/share/augustus/config/species/human/human_igenic_probs.pbl' -> './config/species/human/human_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/human/human_intron_probs.pbl' -> './config/species/human/human_intron_probs.pbl' 192s '/usr/share/augustus/config/species/human/human_parameters.cfg' -> './config/species/human/human_parameters.cfg' 192s '/usr/share/augustus/config/species/human/human_trans_shadow_partial_utr.pbl' -> './config/species/human/human_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/human/human_utr_probs.pbl' -> './config/species/human/human_utr_probs.pbl' 192s '/usr/share/augustus/config/species/human/human_weightmatrix.txt' -> './config/species/human/human_weightmatrix.txt' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma' -> './config/species/hymenolepis_microstoma' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_exon_probs.pbl' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_exon_probs.pbl' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_igenic_probs.pbl' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_intron_probs.pbl' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_intron_probs.pbl' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_metapars.cfg' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_metapars.cfg' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_metapars.cgp.cfg' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_metapars.utr.cfg' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_parameters.cfg' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_parameters.cfg' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/hymenolepis_microstoma_weightmatrix.txt' -> './config/species/hymenolepis_microstoma/hymenolepis_microstoma_weightmatrix.txt' 192s '/usr/share/augustus/config/species/hymenolepis_microstoma/make.doc' -> './config/species/hymenolepis_microstoma/make.doc' 192s '/usr/share/augustus/config/species/japaneselamprey' -> './config/species/japaneselamprey' 192s '/usr/share/augustus/config/species/japaneselamprey/japaneselamprey_exon_probs.pbl' -> './config/species/japaneselamprey/japaneselamprey_exon_probs.pbl' 192s '/usr/share/augustus/config/species/japaneselamprey/japaneselamprey_igenic_probs.pbl' -> './config/species/japaneselamprey/japaneselamprey_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/japaneselamprey/japaneselamprey_intron_probs.pbl' -> './config/species/japaneselamprey/japaneselamprey_intron_probs.pbl' 192s '/usr/share/augustus/config/species/japaneselamprey/japaneselamprey_metapars.cfg' -> './config/species/japaneselamprey/japaneselamprey_metapars.cfg' 192s '/usr/share/augustus/config/species/japaneselamprey/japaneselamprey_metapars.utr.cfg' -> './config/species/japaneselamprey/japaneselamprey_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/japaneselamprey/japaneselamprey_parameters.cfg' -> './config/species/japaneselamprey/japaneselamprey_parameters.cfg' 192s '/usr/share/augustus/config/species/japaneselamprey/japaneselamprey_weightmatrix.txt' -> './config/species/japaneselamprey/japaneselamprey_weightmatrix.txt' 192s '/usr/share/augustus/config/species/kluyveromyces_lactis' -> './config/species/kluyveromyces_lactis' 192s '/usr/share/augustus/config/species/kluyveromyces_lactis/kluyveromyces_lactis_exon_probs.pbl' -> './config/species/kluyveromyces_lactis/kluyveromyces_lactis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/kluyveromyces_lactis/kluyveromyces_lactis_igenic_probs.pbl' -> './config/species/kluyveromyces_lactis/kluyveromyces_lactis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/kluyveromyces_lactis/kluyveromyces_lactis_intron_probs.pbl' -> './config/species/kluyveromyces_lactis/kluyveromyces_lactis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/kluyveromyces_lactis/kluyveromyces_lactis_metapars.cfg' -> './config/species/kluyveromyces_lactis/kluyveromyces_lactis_metapars.cfg' 192s '/usr/share/augustus/config/species/kluyveromyces_lactis/kluyveromyces_lactis_parameters.cfg' -> './config/species/kluyveromyces_lactis/kluyveromyces_lactis_parameters.cfg' 192s '/usr/share/augustus/config/species/kluyveromyces_lactis/kluyveromyces_lactis_weightmatrix.txt' -> './config/species/kluyveromyces_lactis/kluyveromyces_lactis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/laccaria_bicolor' -> './config/species/laccaria_bicolor' 192s '/usr/share/augustus/config/species/laccaria_bicolor/laccaria_bicolor_exon_probs.pbl' -> './config/species/laccaria_bicolor/laccaria_bicolor_exon_probs.pbl' 192s '/usr/share/augustus/config/species/laccaria_bicolor/laccaria_bicolor_igenic_probs.pbl' -> './config/species/laccaria_bicolor/laccaria_bicolor_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/laccaria_bicolor/laccaria_bicolor_intron_probs.pbl' -> './config/species/laccaria_bicolor/laccaria_bicolor_intron_probs.pbl' 192s '/usr/share/augustus/config/species/laccaria_bicolor/laccaria_bicolor_metapars.cfg' -> './config/species/laccaria_bicolor/laccaria_bicolor_metapars.cfg' 192s '/usr/share/augustus/config/species/laccaria_bicolor/laccaria_bicolor_parameters.cfg' -> './config/species/laccaria_bicolor/laccaria_bicolor_parameters.cfg' 192s '/usr/share/augustus/config/species/laccaria_bicolor/laccaria_bicolor_weightmatrix.txt' -> './config/species/laccaria_bicolor/laccaria_bicolor_weightmatrix.txt' 192s '/usr/share/augustus/config/species/leishmania_tarentolae' -> './config/species/leishmania_tarentolae' 192s '/usr/share/augustus/config/species/leishmania_tarentolae/leishmania_tarentolae_exon_probs.pbl' -> './config/species/leishmania_tarentolae/leishmania_tarentolae_exon_probs.pbl' 192s '/usr/share/augustus/config/species/leishmania_tarentolae/leishmania_tarentolae_igenic_probs.pbl' -> './config/species/leishmania_tarentolae/leishmania_tarentolae_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/leishmania_tarentolae/leishmania_tarentolae_metapars.cfg' -> './config/species/leishmania_tarentolae/leishmania_tarentolae_metapars.cfg' 192s '/usr/share/augustus/config/species/leishmania_tarentolae/leishmania_tarentolae_metapars.utr.cfg' -> './config/species/leishmania_tarentolae/leishmania_tarentolae_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/leishmania_tarentolae/leishmania_tarentolae_parameters.cfg' -> './config/species/leishmania_tarentolae/leishmania_tarentolae_parameters.cfg' 192s '/usr/share/augustus/config/species/leishmania_tarentolae/leishmania_tarentolae_weightmatrix.txt' -> './config/species/leishmania_tarentolae/leishmania_tarentolae_weightmatrix.txt' 192s '/usr/share/augustus/config/species/lodderomyces_elongisporus' -> './config/species/lodderomyces_elongisporus' 192s '/usr/share/augustus/config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_exon_probs.pbl' -> './config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_igenic_probs.pbl' -> './config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_intron_probs.pbl' -> './config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_metapars.cfg' -> './config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_metapars.cfg' 192s '/usr/share/augustus/config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_parameters.cfg' -> './config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_parameters.cfg' 192s '/usr/share/augustus/config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_weightmatrix.txt' -> './config/species/lodderomyces_elongisporus/lodderomyces_elongisporus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/magnaporthe_grisea' -> './config/species/magnaporthe_grisea' 192s '/usr/share/augustus/config/species/magnaporthe_grisea/magnaporthe_grisea_exon_probs.pbl' -> './config/species/magnaporthe_grisea/magnaporthe_grisea_exon_probs.pbl' 192s '/usr/share/augustus/config/species/magnaporthe_grisea/magnaporthe_grisea_igenic_probs.pbl' -> './config/species/magnaporthe_grisea/magnaporthe_grisea_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/magnaporthe_grisea/magnaporthe_grisea_intron_probs.pbl' -> './config/species/magnaporthe_grisea/magnaporthe_grisea_intron_probs.pbl' 192s '/usr/share/augustus/config/species/magnaporthe_grisea/magnaporthe_grisea_metapars.cfg' -> './config/species/magnaporthe_grisea/magnaporthe_grisea_metapars.cfg' 192s '/usr/share/augustus/config/species/magnaporthe_grisea/magnaporthe_grisea_parameters.cfg' -> './config/species/magnaporthe_grisea/magnaporthe_grisea_parameters.cfg' 192s '/usr/share/augustus/config/species/magnaporthe_grisea/magnaporthe_grisea_weightmatrix.txt' -> './config/species/magnaporthe_grisea/magnaporthe_grisea_weightmatrix.txt' 192s '/usr/share/augustus/config/species/maize' -> './config/species/maize' 192s '/usr/share/augustus/config/species/maize/maize_exon_probs.pbl' -> './config/species/maize/maize_exon_probs.pbl' 192s '/usr/share/augustus/config/species/maize/maize_igenic_probs.pbl' -> './config/species/maize/maize_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/maize/maize_intron_probs.pbl' -> './config/species/maize/maize_intron_probs.pbl' 192s '/usr/share/augustus/config/species/maize/maize_metapars.cfg' -> './config/species/maize/maize_metapars.cfg' 192s '/usr/share/augustus/config/species/maize/maize_parameters.cfg' -> './config/species/maize/maize_parameters.cfg' 192s '/usr/share/augustus/config/species/maize/maize_splicefile.txt.gz' -> './config/species/maize/maize_splicefile.txt.gz' 192s '/usr/share/augustus/config/species/maize/maize_weightmatrix.txt' -> './config/species/maize/maize_weightmatrix.txt' 192s '/usr/share/augustus/config/species/maize5' -> './config/species/maize5' 192s '/usr/share/augustus/config/species/maize5/maize5_exon_probs.pbl' -> './config/species/maize5/maize5_exon_probs.pbl' 192s '/usr/share/augustus/config/species/maize5/maize5_igenic_probs.pbl' -> './config/species/maize5/maize5_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/maize5/maize5_intron_probs.pbl' -> './config/species/maize5/maize5_intron_probs.pbl' 192s '/usr/share/augustus/config/species/maize5/maize5_metapars.cfg' -> './config/species/maize5/maize5_metapars.cfg' 192s '/usr/share/augustus/config/species/maize5/maize5_metapars.utr.cfg' -> './config/species/maize5/maize5_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/maize5/maize5_parameters.cfg' -> './config/species/maize5/maize5_parameters.cfg' 192s '/usr/share/augustus/config/species/maize5/maize5_utr_probs.pbl' -> './config/species/maize5/maize5_utr_probs.pbl' 192s '/usr/share/augustus/config/species/maize5/maize5_weightmatrix.txt' -> './config/species/maize5/maize5_weightmatrix.txt' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi' -> './config/species/mnemiopsis_leidyi' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/README.TXT' -> './config/species/mnemiopsis_leidyi/README.TXT' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_exon_probs.pbl' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_exon_probs.pbl' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_igenic_probs.pbl' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_intron_probs.pbl' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_intron_probs.pbl' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_metapars.cfg' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_metapars.cfg' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_metapars.cgp.cfg' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_metapars.utr.cfg' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_parameters.cfg' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_parameters.cfg' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_parameters.cgp.cfg' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_parameters.cgp.cfg' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_utr_probs.pbl' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_utr_probs.pbl' 192s '/usr/share/augustus/config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_weightmatrix.txt' -> './config/species/mnemiopsis_leidyi/mnemiopsis_leidyi_weightmatrix.txt' 192s '/usr/share/augustus/config/species/nasonia' -> './config/species/nasonia' 192s '/usr/share/augustus/config/species/nasonia/nasonia_exon_probs.pbl' -> './config/species/nasonia/nasonia_exon_probs.pbl' 192s '/usr/share/augustus/config/species/nasonia/nasonia_igenic_probs.pbl' -> './config/species/nasonia/nasonia_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/nasonia/nasonia_intron_probs.pbl' -> './config/species/nasonia/nasonia_intron_probs.pbl' 192s '/usr/share/augustus/config/species/nasonia/nasonia_metapars.cfg' -> './config/species/nasonia/nasonia_metapars.cfg' 192s '/usr/share/augustus/config/species/nasonia/nasonia_parameters.cfg' -> './config/species/nasonia/nasonia_parameters.cfg' 192s '/usr/share/augustus/config/species/nasonia/nasonia_weightmatrix.txt' -> './config/species/nasonia/nasonia_weightmatrix.txt' 192s '/usr/share/augustus/config/species/nematostella_vectensis' -> './config/species/nematostella_vectensis' 192s '/usr/share/augustus/config/species/nematostella_vectensis/README.TXT' -> './config/species/nematostella_vectensis/README.TXT' 192s '/usr/share/augustus/config/species/nematostella_vectensis/nematostella_vectensis_exon_probs.pbl' -> './config/species/nematostella_vectensis/nematostella_vectensis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/nematostella_vectensis/nematostella_vectensis_igenic_probs.pbl' -> './config/species/nematostella_vectensis/nematostella_vectensis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/nematostella_vectensis/nematostella_vectensis_intron_probs.pbl' -> './config/species/nematostella_vectensis/nematostella_vectensis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/nematostella_vectensis/nematostella_vectensis_parameters.cfg' -> './config/species/nematostella_vectensis/nematostella_vectensis_parameters.cfg' 192s '/usr/share/augustus/config/species/nematostella_vectensis/nematostella_vectensis_weightmatrix.txt' -> './config/species/nematostella_vectensis/nematostella_vectensis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/neurospora' -> './config/species/neurospora' 192s '/usr/share/augustus/config/species/neurospora/neurospora_exon_probs.pbl' -> './config/species/neurospora/neurospora_exon_probs.pbl' 192s '/usr/share/augustus/config/species/neurospora/neurospora_igenic_probs.pbl' -> './config/species/neurospora/neurospora_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/neurospora/neurospora_intron_probs.pbl' -> './config/species/neurospora/neurospora_intron_probs.pbl' 192s '/usr/share/augustus/config/species/neurospora/neurospora_parameters.cfg' -> './config/species/neurospora/neurospora_parameters.cfg' 192s '/usr/share/augustus/config/species/neurospora/neurospora_weightmatrix.txt' -> './config/species/neurospora/neurospora_weightmatrix.txt' 192s '/usr/share/augustus/config/species/neurospora_crassa' -> './config/species/neurospora_crassa' 192s '/usr/share/augustus/config/species/neurospora_crassa/neurospora_crassa_exon_probs.pbl' -> './config/species/neurospora_crassa/neurospora_crassa_exon_probs.pbl' 192s '/usr/share/augustus/config/species/neurospora_crassa/neurospora_crassa_igenic_probs.pbl' -> './config/species/neurospora_crassa/neurospora_crassa_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/neurospora_crassa/neurospora_crassa_intron_probs.pbl' -> './config/species/neurospora_crassa/neurospora_crassa_intron_probs.pbl' 192s '/usr/share/augustus/config/species/neurospora_crassa/neurospora_crassa_metapars.cfg' -> './config/species/neurospora_crassa/neurospora_crassa_metapars.cfg' 192s '/usr/share/augustus/config/species/neurospora_crassa/neurospora_crassa_parameters.cfg' -> './config/species/neurospora_crassa/neurospora_crassa_parameters.cfg' 192s '/usr/share/augustus/config/species/neurospora_crassa/neurospora_crassa_weightmatrix.txt' -> './config/species/neurospora_crassa/neurospora_crassa_weightmatrix.txt' 192s '/usr/share/augustus/config/species/parasteatoda' -> './config/species/parasteatoda' 192s '/usr/share/augustus/config/species/parasteatoda/parasteatoda_exon_probs.pbl' -> './config/species/parasteatoda/parasteatoda_exon_probs.pbl' 192s '/usr/share/augustus/config/species/parasteatoda/parasteatoda_igenic_probs.pbl' -> './config/species/parasteatoda/parasteatoda_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/parasteatoda/parasteatoda_intron_probs.pbl' -> './config/species/parasteatoda/parasteatoda_intron_probs.pbl' 192s '/usr/share/augustus/config/species/parasteatoda/parasteatoda_parameters.cfg' -> './config/species/parasteatoda/parasteatoda_parameters.cfg' 192s '/usr/share/augustus/config/species/parasteatoda/parasteatoda_utr_probs.pbl' -> './config/species/parasteatoda/parasteatoda_utr_probs.pbl' 192s '/usr/share/augustus/config/species/parasteatoda/parasteatoda_weightmatrix.txt' -> './config/species/parasteatoda/parasteatoda_weightmatrix.txt' 192s '/usr/share/augustus/config/species/pchrysosporium' -> './config/species/pchrysosporium' 192s '/usr/share/augustus/config/species/pchrysosporium/pchrysosporium_exon_probs.pbl' -> './config/species/pchrysosporium/pchrysosporium_exon_probs.pbl' 192s '/usr/share/augustus/config/species/pchrysosporium/pchrysosporium_igenic_probs.pbl' -> './config/species/pchrysosporium/pchrysosporium_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/pchrysosporium/pchrysosporium_intron_probs.pbl' -> './config/species/pchrysosporium/pchrysosporium_intron_probs.pbl' 192s '/usr/share/augustus/config/species/pchrysosporium/pchrysosporium_parameters.cfg' -> './config/species/pchrysosporium/pchrysosporium_parameters.cfg' 192s '/usr/share/augustus/config/species/pchrysosporium/pchrysosporium_weightmatrix.txt' -> './config/species/pchrysosporium/pchrysosporium_weightmatrix.txt' 192s '/usr/share/augustus/config/species/pea_aphid' -> './config/species/pea_aphid' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_exon_probs.pbl' -> './config/species/pea_aphid/pea_aphid_exon_probs.pbl' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_igenic_probs.pbl' -> './config/species/pea_aphid/pea_aphid_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_intron_probs.pbl' -> './config/species/pea_aphid/pea_aphid_intron_probs.pbl' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_metapars.cfg' -> './config/species/pea_aphid/pea_aphid_metapars.cfg' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_parameters.cfg' -> './config/species/pea_aphid/pea_aphid_parameters.cfg' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_trans_shadow_partial_utr.pbl' -> './config/species/pea_aphid/pea_aphid_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_utr_probs.pbl' -> './config/species/pea_aphid/pea_aphid_utr_probs.pbl' 192s '/usr/share/augustus/config/species/pea_aphid/pea_aphid_weightmatrix.txt' -> './config/species/pea_aphid/pea_aphid_weightmatrix.txt' 192s '/usr/share/augustus/config/species/pfalciparum' -> './config/species/pfalciparum' 192s '/usr/share/augustus/config/species/pfalciparum/pfalciparum_exon_probs.pbl' -> './config/species/pfalciparum/pfalciparum_exon_probs.pbl' 192s '/usr/share/augustus/config/species/pfalciparum/pfalciparum_igenic_probs.pbl' -> './config/species/pfalciparum/pfalciparum_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/pfalciparum/pfalciparum_intron_probs.pbl' -> './config/species/pfalciparum/pfalciparum_intron_probs.pbl' 192s '/usr/share/augustus/config/species/pfalciparum/pfalciparum_metapars.cfg' -> './config/species/pfalciparum/pfalciparum_metapars.cfg' 192s '/usr/share/augustus/config/species/pfalciparum/pfalciparum_parameters.cfg' -> './config/species/pfalciparum/pfalciparum_parameters.cfg' 192s '/usr/share/augustus/config/species/pfalciparum/pfalciparum_trans_shadow_partial.pbl' -> './config/species/pfalciparum/pfalciparum_trans_shadow_partial.pbl' 192s '/usr/share/augustus/config/species/pfalciparum/pfalciparum_weightmatrix.txt' -> './config/species/pfalciparum/pfalciparum_weightmatrix.txt' 192s '/usr/share/augustus/config/species/phanerochaete_chrysosporium' -> './config/species/phanerochaete_chrysosporium' 192s '/usr/share/augustus/config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_exon_probs.pbl' -> './config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_exon_probs.pbl' 192s '/usr/share/augustus/config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_igenic_probs.pbl' -> './config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_intron_probs.pbl' -> './config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_intron_probs.pbl' 192s '/usr/share/augustus/config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_metapars.cfg' -> './config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_metapars.cfg' 192s '/usr/share/augustus/config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_parameters.cfg' -> './config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_parameters.cfg' 192s '/usr/share/augustus/config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_weightmatrix.txt' -> './config/species/phanerochaete_chrysosporium/phanerochaete_chrysosporium_weightmatrix.txt' 192s '/usr/share/augustus/config/species/pichia_stipitis' -> './config/species/pichia_stipitis' 192s '/usr/share/augustus/config/species/pichia_stipitis/pichia_stipitis_exon_probs.pbl' -> './config/species/pichia_stipitis/pichia_stipitis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/pichia_stipitis/pichia_stipitis_igenic_probs.pbl' -> './config/species/pichia_stipitis/pichia_stipitis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/pichia_stipitis/pichia_stipitis_intron_probs.pbl' -> './config/species/pichia_stipitis/pichia_stipitis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/pichia_stipitis/pichia_stipitis_metapars.cfg' -> './config/species/pichia_stipitis/pichia_stipitis_metapars.cfg' 192s '/usr/share/augustus/config/species/pichia_stipitis/pichia_stipitis_parameters.cfg' -> './config/species/pichia_stipitis/pichia_stipitis_parameters.cfg' 192s '/usr/share/augustus/config/species/pichia_stipitis/pichia_stipitis_weightmatrix.txt' -> './config/species/pichia_stipitis/pichia_stipitis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/pisaster' -> './config/species/pisaster' 192s '/usr/share/augustus/config/species/pisaster/extrinsic.pisaster.cfg' -> './config/species/pisaster/extrinsic.pisaster.cfg' 192s '/usr/share/augustus/config/species/pisaster/pisaster_exon_probs.pbl' -> './config/species/pisaster/pisaster_exon_probs.pbl' 192s '/usr/share/augustus/config/species/pisaster/pisaster_igenic_probs.pbl' -> './config/species/pisaster/pisaster_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/pisaster/pisaster_intron_probs.pbl' -> './config/species/pisaster/pisaster_intron_probs.pbl' 192s '/usr/share/augustus/config/species/pisaster/pisaster_metapars.cfg' -> './config/species/pisaster/pisaster_metapars.cfg' 192s '/usr/share/augustus/config/species/pisaster/pisaster_metapars.cgp.cfg' -> './config/species/pisaster/pisaster_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/pisaster/pisaster_metapars.utr.cfg' -> './config/species/pisaster/pisaster_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/pisaster/pisaster_parameters.cfg' -> './config/species/pisaster/pisaster_parameters.cfg' 192s '/usr/share/augustus/config/species/pisaster/pisaster_weightmatrix.txt' -> './config/species/pisaster/pisaster_weightmatrix.txt' 192s '/usr/share/augustus/config/species/pneumocystis' -> './config/species/pneumocystis' 192s '/usr/share/augustus/config/species/pneumocystis/README.TXT' -> './config/species/pneumocystis/README.TXT' 192s '/usr/share/augustus/config/species/pneumocystis/pneumocystis_exon_probs.pbl' -> './config/species/pneumocystis/pneumocystis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/pneumocystis/pneumocystis_igenic_probs.pbl' -> './config/species/pneumocystis/pneumocystis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/pneumocystis/pneumocystis_intron_probs.pbl' -> './config/species/pneumocystis/pneumocystis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/pneumocystis/pneumocystis_metapars.cfg' -> './config/species/pneumocystis/pneumocystis_metapars.cfg' 192s '/usr/share/augustus/config/species/pneumocystis/pneumocystis_metaparsBAK.cfg' -> './config/species/pneumocystis/pneumocystis_metaparsBAK.cfg' 192s '/usr/share/augustus/config/species/pneumocystis/pneumocystis_parameters.cfg' -> './config/species/pneumocystis/pneumocystis_parameters.cfg' 192s '/usr/share/augustus/config/species/pneumocystis/pneumocystis_weightmatrix.txt' -> './config/species/pneumocystis/pneumocystis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/rhincodon' -> './config/species/rhincodon' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_exon_probs.pbl' -> './config/species/rhincodon/rhincodon_exon_probs.pbl' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_igenic_probs.pbl' -> './config/species/rhincodon/rhincodon_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_intron_probs.pbl' -> './config/species/rhincodon/rhincodon_intron_probs.pbl' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_metapars.cfg' -> './config/species/rhincodon/rhincodon_metapars.cfg' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_metapars.cgp.cfg' -> './config/species/rhincodon/rhincodon_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_metapars.utr.cfg' -> './config/species/rhincodon/rhincodon_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_parameters.cfg' -> './config/species/rhincodon/rhincodon_parameters.cfg' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_parameters.cfg.orig1' -> './config/species/rhincodon/rhincodon_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/rhincodon/rhincodon_weightmatrix.txt' -> './config/species/rhincodon/rhincodon_weightmatrix.txt' 192s '/usr/share/augustus/config/species/rhizopus_oryzae' -> './config/species/rhizopus_oryzae' 192s '/usr/share/augustus/config/species/rhizopus_oryzae/rhizopus_oryzae_exon_probs.pbl' -> './config/species/rhizopus_oryzae/rhizopus_oryzae_exon_probs.pbl' 192s '/usr/share/augustus/config/species/rhizopus_oryzae/rhizopus_oryzae_igenic_probs.pbl' -> './config/species/rhizopus_oryzae/rhizopus_oryzae_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/rhizopus_oryzae/rhizopus_oryzae_intron_probs.pbl' -> './config/species/rhizopus_oryzae/rhizopus_oryzae_intron_probs.pbl' 192s '/usr/share/augustus/config/species/rhizopus_oryzae/rhizopus_oryzae_metapars.cfg' -> './config/species/rhizopus_oryzae/rhizopus_oryzae_metapars.cfg' 192s '/usr/share/augustus/config/species/rhizopus_oryzae/rhizopus_oryzae_parameters.cfg' -> './config/species/rhizopus_oryzae/rhizopus_oryzae_parameters.cfg' 192s '/usr/share/augustus/config/species/rhizopus_oryzae/rhizopus_oryzae_weightmatrix.txt' -> './config/species/rhizopus_oryzae/rhizopus_oryzae_weightmatrix.txt' 192s '/usr/share/augustus/config/species/rhodnius' -> './config/species/rhodnius' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_exon_probs.pbl' -> './config/species/rhodnius/rhodnius_exon_probs.pbl' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_igenic_probs.pbl' -> './config/species/rhodnius/rhodnius_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_intron_probs.pbl' -> './config/species/rhodnius/rhodnius_intron_probs.pbl' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_metapars.cfg' -> './config/species/rhodnius/rhodnius_metapars.cfg' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_metapars.utr.cfg' -> './config/species/rhodnius/rhodnius_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_parameters.cfg' -> './config/species/rhodnius/rhodnius_parameters.cfg' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_utr_probs.pbl' -> './config/species/rhodnius/rhodnius_utr_probs.pbl' 192s '/usr/share/augustus/config/species/rhodnius/rhodnius_weightmatrix.txt' -> './config/species/rhodnius/rhodnius_weightmatrix.txt' 192s '/usr/share/augustus/config/species/rice' -> './config/species/rice' 192s '/usr/share/augustus/config/species/rice/README.TXT' -> './config/species/rice/README.TXT' 192s '/usr/share/augustus/config/species/rice/rice_exon_probs.pbl' -> './config/species/rice/rice_exon_probs.pbl' 192s '/usr/share/augustus/config/species/rice/rice_igenic_probs.pbl' -> './config/species/rice/rice_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/rice/rice_intron_probs.pbl' -> './config/species/rice/rice_intron_probs.pbl' 192s '/usr/share/augustus/config/species/rice/rice_metapars.cfg' -> './config/species/rice/rice_metapars.cfg' 192s '/usr/share/augustus/config/species/rice/rice_metapars.utr.cfg' -> './config/species/rice/rice_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/rice/rice_parameters.cfg' -> './config/species/rice/rice_parameters.cfg' 192s '/usr/share/augustus/config/species/rice/rice_utr_probs.pbl' -> './config/species/rice/rice_utr_probs.pbl' 192s '/usr/share/augustus/config/species/rice/rice_weightmatrix.txt' -> './config/species/rice/rice_weightmatrix.txt' 192s '/usr/share/augustus/config/species/s_aureus' -> './config/species/s_aureus' 192s '/usr/share/augustus/config/species/s_aureus/README.TXT' -> './config/species/s_aureus/README.TXT' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_exon_probs.pbl' -> './config/species/s_aureus/s_aureus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_igenic_probs.pbl' -> './config/species/s_aureus/s_aureus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_metapars.cfg' -> './config/species/s_aureus/s_aureus_metapars.cfg' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_metapars.utr.cfg' -> './config/species/s_aureus/s_aureus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_ovlp_len.pbl' -> './config/species/s_aureus/s_aureus_ovlp_len.pbl' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_parameters.cfg' -> './config/species/s_aureus/s_aureus_parameters.cfg' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_parameters.cgp.cfg' -> './config/species/s_aureus/s_aureus_parameters.cgp.cfg' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_trans_shadow_bacterium.pbl' -> './config/species/s_aureus/s_aureus_trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/species/s_aureus/s_aureus_weightmatrix.txt' -> './config/species/s_aureus/s_aureus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/s_pneumoniae' -> './config/species/s_pneumoniae' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_exon_probs.pbl' -> './config/species/s_pneumoniae/s_pneumoniae_exon_probs.pbl' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_igenic_probs.pbl' -> './config/species/s_pneumoniae/s_pneumoniae_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_metapars.cfg' -> './config/species/s_pneumoniae/s_pneumoniae_metapars.cfg' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_metapars.utr.cfg' -> './config/species/s_pneumoniae/s_pneumoniae_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_ovlp_len.pbl' -> './config/species/s_pneumoniae/s_pneumoniae_ovlp_len.pbl' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_parameters.cfg' -> './config/species/s_pneumoniae/s_pneumoniae_parameters.cfg' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig1' -> './config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig2' -> './config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig2' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig3' -> './config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig3' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig4' -> './config/species/s_pneumoniae/s_pneumoniae_parameters.cfg.orig4' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_trans_shadow_bacterium.pbl' -> './config/species/s_pneumoniae/s_pneumoniae_trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/species/s_pneumoniae/s_pneumoniae_weightmatrix.txt' -> './config/species/s_pneumoniae/s_pneumoniae_weightmatrix.txt' 192s '/usr/share/augustus/config/species/saccharomyces' -> './config/species/saccharomyces' 192s '/usr/share/augustus/config/species/saccharomyces/saccharomyces_exon_probs.pbl' -> './config/species/saccharomyces/saccharomyces_exon_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces/saccharomyces_igenic_probs.pbl' -> './config/species/saccharomyces/saccharomyces_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces/saccharomyces_intron_probs.pbl' -> './config/species/saccharomyces/saccharomyces_intron_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces/saccharomyces_parameters.cfg' -> './config/species/saccharomyces/saccharomyces_parameters.cfg' 192s '/usr/share/augustus/config/species/saccharomyces/saccharomyces_weightmatrix.txt' -> './config/species/saccharomyces/saccharomyces_weightmatrix.txt' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_S288C' -> './config/species/saccharomyces_cerevisiae_S288C' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_exon_probs.pbl' -> './config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_exon_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_igenic_probs.pbl' -> './config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_intron_probs.pbl' -> './config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_intron_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_metapars.cfg' -> './config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_metapars.cfg' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_parameters.cfg' -> './config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_parameters.cfg' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_weightmatrix.txt' -> './config/species/saccharomyces_cerevisiae_S288C/saccharomyces_cerevisiae_S288C_weightmatrix.txt' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_rm11-1a_1' -> './config/species/saccharomyces_cerevisiae_rm11-1a_1' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_exon_probs.pbl' -> './config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_exon_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_igenic_probs.pbl' -> './config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_intron_probs.pbl' -> './config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_intron_probs.pbl' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_metapars.cfg' -> './config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_metapars.cfg' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_parameters.cfg' -> './config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_parameters.cfg' 192s '/usr/share/augustus/config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_weightmatrix.txt' -> './config/species/saccharomyces_cerevisiae_rm11-1a_1/saccharomyces_cerevisiae_rm11-1a_1_weightmatrix.txt' 192s '/usr/share/augustus/config/species/schistosoma' -> './config/species/schistosoma' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_exon_probs.pbl' -> './config/species/schistosoma/schistosoma_exon_probs.pbl' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_igenic_probs.pbl' -> './config/species/schistosoma/schistosoma_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_intron_probs.pbl' -> './config/species/schistosoma/schistosoma_intron_probs.pbl' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_metapars.cfg' -> './config/species/schistosoma/schistosoma_metapars.cfg' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_parameters.cfg' -> './config/species/schistosoma/schistosoma_parameters.cfg' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_parameters.cfg.opt' -> './config/species/schistosoma/schistosoma_parameters.cfg.opt' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_splicefile.txt' -> './config/species/schistosoma/schistosoma_splicefile.txt' 192s '/usr/share/augustus/config/species/schistosoma/schistosoma_weightmatrix.txt' -> './config/species/schistosoma/schistosoma_weightmatrix.txt' 192s '/usr/share/augustus/config/species/schistosoma2' -> './config/species/schistosoma2' 192s '/usr/share/augustus/config/species/schistosoma2/README.TXT' -> './config/species/schistosoma2/README.TXT' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_exon_probs.pbl' -> './config/species/schistosoma2/schistosoma2_exon_probs.pbl' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_igenic_probs.pbl' -> './config/species/schistosoma2/schistosoma2_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_intron_probs.pbl' -> './config/species/schistosoma2/schistosoma2_intron_probs.pbl' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_metapars.cfg' -> './config/species/schistosoma2/schistosoma2_metapars.cfg' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_metapars.cgp.cfg' -> './config/species/schistosoma2/schistosoma2_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_metapars.utr.cfg' -> './config/species/schistosoma2/schistosoma2_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_parameters.cfg' -> './config/species/schistosoma2/schistosoma2_parameters.cfg' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_utr_probs.pbl' -> './config/species/schistosoma2/schistosoma2_utr_probs.pbl' 192s '/usr/share/augustus/config/species/schistosoma2/schistosoma2_weightmatrix.txt' -> './config/species/schistosoma2/schistosoma2_weightmatrix.txt' 192s '/usr/share/augustus/config/species/schizosaccharomyces_pombe' -> './config/species/schizosaccharomyces_pombe' 192s '/usr/share/augustus/config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_exon_probs.pbl' -> './config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_exon_probs.pbl' 192s '/usr/share/augustus/config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_igenic_probs.pbl' -> './config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_intron_probs.pbl' -> './config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_intron_probs.pbl' 192s '/usr/share/augustus/config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_metapars.cfg' -> './config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_metapars.cfg' 192s '/usr/share/augustus/config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_parameters.cfg' -> './config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_parameters.cfg' 192s '/usr/share/augustus/config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_weightmatrix.txt' -> './config/species/schizosaccharomyces_pombe/schizosaccharomyces_pombe_weightmatrix.txt' 192s '/usr/share/augustus/config/species/scyliorhinus' -> './config/species/scyliorhinus' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_exon_probs.pbl' -> './config/species/scyliorhinus/scyliorhinus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_igenic_probs.pbl' -> './config/species/scyliorhinus/scyliorhinus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_intron_probs.pbl' -> './config/species/scyliorhinus/scyliorhinus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_metapars.cfg' -> './config/species/scyliorhinus/scyliorhinus_metapars.cfg' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_metapars.cgp.cfg' -> './config/species/scyliorhinus/scyliorhinus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_metapars.utr.cfg' -> './config/species/scyliorhinus/scyliorhinus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_parameters.cfg' -> './config/species/scyliorhinus/scyliorhinus_parameters.cfg' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_parameters.cfg.orig1' -> './config/species/scyliorhinus/scyliorhinus_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/scyliorhinus/scyliorhinus_weightmatrix.txt' -> './config/species/scyliorhinus/scyliorhinus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/sealamprey' -> './config/species/sealamprey' 192s '/usr/share/augustus/config/species/sealamprey/sealamprey_exon_probs.pbl' -> './config/species/sealamprey/sealamprey_exon_probs.pbl' 192s '/usr/share/augustus/config/species/sealamprey/sealamprey_igenic_probs.pbl' -> './config/species/sealamprey/sealamprey_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/sealamprey/sealamprey_intron_probs.pbl' -> './config/species/sealamprey/sealamprey_intron_probs.pbl' 192s '/usr/share/augustus/config/species/sealamprey/sealamprey_metapars.cfg' -> './config/species/sealamprey/sealamprey_metapars.cfg' 192s '/usr/share/augustus/config/species/sealamprey/sealamprey_parameters.cfg' -> './config/species/sealamprey/sealamprey_parameters.cfg' 192s '/usr/share/augustus/config/species/sealamprey/sealamprey_weightmatrix.txt' -> './config/species/sealamprey/sealamprey_weightmatrix.txt' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus' -> './config/species/strongylocentrotus_purpuratus' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/README.TXT' -> './config/species/strongylocentrotus_purpuratus/README.TXT' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_exon_probs.pbl' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_igenic_probs.pbl' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_intron_probs.pbl' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_intron_probs.pbl' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_metapars.cfg' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_metapars.cfg' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_metapars.cgp.cfg' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_metapars.utr.cfg' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_parameters.cfg' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_parameters.cfg' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_parameters.cgp.cfg' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_parameters.cgp.cfg' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_utr_probs.pbl' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_utr_probs.pbl' 192s '/usr/share/augustus/config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_weightmatrix.txt' -> './config/species/strongylocentrotus_purpuratus/strongylocentrotus_purpuratus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus' -> './config/species/sulfolobus_solfataricus' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_exon_probs.pbl' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_exon_probs.pbl' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_igenic_probs.pbl' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_metapars.cfg' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_metapars.cfg' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_metapars.utr.cfg' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_ovlp_len.pbl' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_ovlp_len.pbl' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_parameters.cfg' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_parameters.cfg' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_trans_shadow_bacterium.pbl' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_weightmatrix.txt' -> './config/species/sulfolobus_solfataricus/sulfolobus_solfataricus_weightmatrix.txt' 192s '/usr/share/augustus/config/species/sunflower' -> './config/species/sunflower' 192s '/usr/share/augustus/config/species/sunflower/README.TXT' -> './config/species/sunflower/README.TXT' 192s '/usr/share/augustus/config/species/sunflower/sunflower_exon_probs.pbl' -> './config/species/sunflower/sunflower_exon_probs.pbl' 192s '/usr/share/augustus/config/species/sunflower/sunflower_igenic_probs.pbl' -> './config/species/sunflower/sunflower_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/sunflower/sunflower_intron_probs.pbl' -> './config/species/sunflower/sunflower_intron_probs.pbl' 192s '/usr/share/augustus/config/species/sunflower/sunflower_metapars.cfg' -> './config/species/sunflower/sunflower_metapars.cfg' 192s '/usr/share/augustus/config/species/sunflower/sunflower_metapars.cgp.cfg' -> './config/species/sunflower/sunflower_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/sunflower/sunflower_metapars.utr.cfg' -> './config/species/sunflower/sunflower_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/sunflower/sunflower_parameters.cfg' -> './config/species/sunflower/sunflower_parameters.cfg' 192s '/usr/share/augustus/config/species/sunflower/sunflower_weightmatrix.txt' -> './config/species/sunflower/sunflower_weightmatrix.txt' 192s '/usr/share/augustus/config/species/template_prokaryotic' -> './config/species/template_prokaryotic' 192s '/usr/share/augustus/config/species/template_prokaryotic/template_prokaryotic_metapars.cfg' -> './config/species/template_prokaryotic/template_prokaryotic_metapars.cfg' 192s '/usr/share/augustus/config/species/template_prokaryotic/template_prokaryotic_metapars.utr.cfg' -> './config/species/template_prokaryotic/template_prokaryotic_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/template_prokaryotic/template_prokaryotic_ovlp_len.pbl' -> './config/species/template_prokaryotic/template_prokaryotic_ovlp_len.pbl' 192s '/usr/share/augustus/config/species/template_prokaryotic/template_prokaryotic_parameters.cfg' -> './config/species/template_prokaryotic/template_prokaryotic_parameters.cfg' 192s '/usr/share/augustus/config/species/template_prokaryotic/template_prokaryotic_trans_shadow_bacterium.pbl' -> './config/species/template_prokaryotic/template_prokaryotic_trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/species/template_prokaryotic/template_prokaryotic_weightmatrix.txt' -> './config/species/template_prokaryotic/template_prokaryotic_weightmatrix.txt' 192s '/usr/share/augustus/config/species/tetrahymena' -> './config/species/tetrahymena' 192s '/usr/share/augustus/config/species/tetrahymena/tetrahymena_exon_probs.pbl' -> './config/species/tetrahymena/tetrahymena_exon_probs.pbl' 192s '/usr/share/augustus/config/species/tetrahymena/tetrahymena_igenic_probs.pbl' -> './config/species/tetrahymena/tetrahymena_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/tetrahymena/tetrahymena_intron_probs.pbl' -> './config/species/tetrahymena/tetrahymena_intron_probs.pbl' 192s '/usr/share/augustus/config/species/tetrahymena/tetrahymena_metapars.cfg' -> './config/species/tetrahymena/tetrahymena_metapars.cfg' 192s '/usr/share/augustus/config/species/tetrahymena/tetrahymena_parameters.cfg' -> './config/species/tetrahymena/tetrahymena_parameters.cfg' 192s '/usr/share/augustus/config/species/tetrahymena/tetrahymena_weightmatrix.txt' -> './config/species/tetrahymena/tetrahymena_weightmatrix.txt' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis' -> './config/species/thermoanaerobacter_tengcongensis' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_exon_probs.pbl' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_igenic_probs.pbl' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_metapars.cfg' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_metapars.cfg' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_metapars.utr.cfg' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_ovlp_len.pbl' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_ovlp_len.pbl' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_parameters.cfg' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_parameters.cfg' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_trans_shadow_bacterium.pbl' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_trans_shadow_bacterium.pbl' 192s '/usr/share/augustus/config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_weightmatrix.txt' -> './config/species/thermoanaerobacter_tengcongensis/thermoanaerobacter_tengcongensis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/tomato' -> './config/species/tomato' 192s '/usr/share/augustus/config/species/tomato/tomato_exon_probs.pbl' -> './config/species/tomato/tomato_exon_probs.pbl' 192s '/usr/share/augustus/config/species/tomato/tomato_igenic_probs.pbl' -> './config/species/tomato/tomato_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/tomato/tomato_intron_probs.pbl' -> './config/species/tomato/tomato_intron_probs.pbl' 192s '/usr/share/augustus/config/species/tomato/tomato_metapars.cfg' -> './config/species/tomato/tomato_metapars.cfg' 192s '/usr/share/augustus/config/species/tomato/tomato_metapars.utr.cfg' -> './config/species/tomato/tomato_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/tomato/tomato_parameters.cfg' -> './config/species/tomato/tomato_parameters.cfg' 192s '/usr/share/augustus/config/species/tomato/tomato_utr_probs.pbl' -> './config/species/tomato/tomato_utr_probs.pbl' 192s '/usr/share/augustus/config/species/tomato/tomato_weightmatrix.txt' -> './config/species/tomato/tomato_weightmatrix.txt' 192s '/usr/share/augustus/config/species/toxoplasma' -> './config/species/toxoplasma' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_exon_probs.pbl' -> './config/species/toxoplasma/toxoplasma_exon_probs.pbl' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_igenic_probs.pbl' -> './config/species/toxoplasma/toxoplasma_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_intron_probs.pbl' -> './config/species/toxoplasma/toxoplasma_intron_probs.pbl' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_metaparameters.cfg' -> './config/species/toxoplasma/toxoplasma_metaparameters.cfg' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_parameters.cfg' -> './config/species/toxoplasma/toxoplasma_parameters.cfg' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_trans_shadow_partial_utr.pbl' -> './config/species/toxoplasma/toxoplasma_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_utr_probs.pbl' -> './config/species/toxoplasma/toxoplasma_utr_probs.pbl' 192s '/usr/share/augustus/config/species/toxoplasma/toxoplasma_weightmatrix.txt' -> './config/species/toxoplasma/toxoplasma_weightmatrix.txt' 192s '/usr/share/augustus/config/species/tribolium2012' -> './config/species/tribolium2012' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_exon_probs.pbl' -> './config/species/tribolium2012/tribolium2012_exon_probs.pbl' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_exon_probs.pbl.HMM' -> './config/species/tribolium2012/tribolium2012_exon_probs.pbl.HMM' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_exon_probs.pbl1' -> './config/species/tribolium2012/tribolium2012_exon_probs.pbl1' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_exon_probs.pbl2' -> './config/species/tribolium2012/tribolium2012_exon_probs.pbl2' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_exon_probs.pbl3' -> './config/species/tribolium2012/tribolium2012_exon_probs.pbl3' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_exon_probs.pbl4' -> './config/species/tribolium2012/tribolium2012_exon_probs.pbl4' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_igenic_probs.pbl' -> './config/species/tribolium2012/tribolium2012_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_igenic_probs.pbl.HMM' -> './config/species/tribolium2012/tribolium2012_igenic_probs.pbl.HMM' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_igenic_probs.pbl1' -> './config/species/tribolium2012/tribolium2012_igenic_probs.pbl1' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_igenic_probs.pbl2' -> './config/species/tribolium2012/tribolium2012_igenic_probs.pbl2' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_igenic_probs.pbl3' -> './config/species/tribolium2012/tribolium2012_igenic_probs.pbl3' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_igenic_probs.pbl4' -> './config/species/tribolium2012/tribolium2012_igenic_probs.pbl4' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_intron_probs.pbl' -> './config/species/tribolium2012/tribolium2012_intron_probs.pbl' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_intron_probs.pbl.HMM' -> './config/species/tribolium2012/tribolium2012_intron_probs.pbl.HMM' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_intron_probs.pbl1' -> './config/species/tribolium2012/tribolium2012_intron_probs.pbl1' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_intron_probs.pbl2' -> './config/species/tribolium2012/tribolium2012_intron_probs.pbl2' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_intron_probs.pbl3' -> './config/species/tribolium2012/tribolium2012_intron_probs.pbl3' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_intron_probs.pbl4' -> './config/species/tribolium2012/tribolium2012_intron_probs.pbl4' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_metapars.cfg' -> './config/species/tribolium2012/tribolium2012_metapars.cfg' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_metapars.utr.cfg' -> './config/species/tribolium2012/tribolium2012_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg' -> './config/species/tribolium2012/tribolium2012_parameters.cfg' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg.orig1' -> './config/species/tribolium2012/tribolium2012_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg.orig2' -> './config/species/tribolium2012/tribolium2012_parameters.cfg.orig2' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg.orig3' -> './config/species/tribolium2012/tribolium2012_parameters.cfg.orig3' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg.orig4' -> './config/species/tribolium2012/tribolium2012_parameters.cfg.orig4' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg.orig5' -> './config/species/tribolium2012/tribolium2012_parameters.cfg.orig5' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg.orig6' -> './config/species/tribolium2012/tribolium2012_parameters.cfg.orig6' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_parameters.cfg.orig7' -> './config/species/tribolium2012/tribolium2012_parameters.cfg.orig7' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_trans_shadow_partial_utr.pbl' -> './config/species/tribolium2012/tribolium2012_trans_shadow_partial_utr.pbl' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_utr_probs.pbl' -> './config/species/tribolium2012/tribolium2012_utr_probs.pbl' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_utr_probs.pbl.HMM' -> './config/species/tribolium2012/tribolium2012_utr_probs.pbl.HMM' 192s '/usr/share/augustus/config/species/tribolium2012/tribolium2012_weightmatrix.txt' -> './config/species/tribolium2012/tribolium2012_weightmatrix.txt' 192s '/usr/share/augustus/config/species/trichinella' -> './config/species/trichinella' 192s '/usr/share/augustus/config/species/trichinella/trichinella_exon_probs.pbl' -> './config/species/trichinella/trichinella_exon_probs.pbl' 192s '/usr/share/augustus/config/species/trichinella/trichinella_igenic_probs.pbl' -> './config/species/trichinella/trichinella_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/trichinella/trichinella_intron_probs.pbl' -> './config/species/trichinella/trichinella_intron_probs.pbl' 192s '/usr/share/augustus/config/species/trichinella/trichinella_metapars.cfg' -> './config/species/trichinella/trichinella_metapars.cfg' 192s '/usr/share/augustus/config/species/trichinella/trichinella_metapars.utr.cfg' -> './config/species/trichinella/trichinella_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/trichinella/trichinella_parameters.cfg' -> './config/species/trichinella/trichinella_parameters.cfg' 192s '/usr/share/augustus/config/species/trichinella/trichinella_utr_probs.pbl' -> './config/species/trichinella/trichinella_utr_probs.pbl' 192s '/usr/share/augustus/config/species/trichinella/trichinella_weightmatrix.txt' -> './config/species/trichinella/trichinella_weightmatrix.txt' 192s '/usr/share/augustus/config/species/ustilago' -> './config/species/ustilago' 192s '/usr/share/augustus/config/species/ustilago/ustilago_exon_probs.pbl' -> './config/species/ustilago/ustilago_exon_probs.pbl' 192s '/usr/share/augustus/config/species/ustilago/ustilago_igenic_probs.pbl' -> './config/species/ustilago/ustilago_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/ustilago/ustilago_intron_probs.pbl' -> './config/species/ustilago/ustilago_intron_probs.pbl' 192s '/usr/share/augustus/config/species/ustilago/ustilago_parameters.cfg' -> './config/species/ustilago/ustilago_parameters.cfg' 192s '/usr/share/augustus/config/species/ustilago/ustilago_weightmatrix.txt' -> './config/species/ustilago/ustilago_weightmatrix.txt' 192s '/usr/share/augustus/config/species/ustilago_maydis' -> './config/species/ustilago_maydis' 192s '/usr/share/augustus/config/species/ustilago_maydis/ustilago_maydis_exon_probs.pbl' -> './config/species/ustilago_maydis/ustilago_maydis_exon_probs.pbl' 192s '/usr/share/augustus/config/species/ustilago_maydis/ustilago_maydis_igenic_probs.pbl' -> './config/species/ustilago_maydis/ustilago_maydis_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/ustilago_maydis/ustilago_maydis_intron_probs.pbl' -> './config/species/ustilago_maydis/ustilago_maydis_intron_probs.pbl' 192s '/usr/share/augustus/config/species/ustilago_maydis/ustilago_maydis_metapars.cfg' -> './config/species/ustilago_maydis/ustilago_maydis_metapars.cfg' 192s '/usr/share/augustus/config/species/ustilago_maydis/ustilago_maydis_parameters.cfg' -> './config/species/ustilago_maydis/ustilago_maydis_parameters.cfg' 192s '/usr/share/augustus/config/species/ustilago_maydis/ustilago_maydis_weightmatrix.txt' -> './config/species/ustilago_maydis/ustilago_maydis_weightmatrix.txt' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1' -> './config/species/verticillium_albo_atrum1' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_exon_probs.pbl' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_exon_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_igenic_probs.pbl' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_intron_probs.pbl' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_intron_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_metapars.cfg' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_metapars.cfg' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_metapars.utr.cfg' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_parameters.cfg' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_parameters.cfg' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_utr_probs.pbl' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_utr_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_weightmatrix.txt' -> './config/species/verticillium_albo_atrum1/verticillium_albo_atrum1_weightmatrix.txt' 192s '/usr/share/augustus/config/species/verticillium_longisporum1' -> './config/species/verticillium_longisporum1' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_exon_probs.pbl' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_exon_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_igenic_probs.pbl' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_intron_probs.pbl' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_intron_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_metapars.cfg' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_metapars.cfg' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_metapars.utr.cfg' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_parameters.cfg' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_parameters.cfg' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_parameters.cfg.orig1' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_parameters.cfg.orig1' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_utr_probs.pbl' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_utr_probs.pbl' 192s '/usr/share/augustus/config/species/verticillium_longisporum1/verticillium_longisporum1_weightmatrix.txt' -> './config/species/verticillium_longisporum1/verticillium_longisporum1_weightmatrix.txt' 192s '/usr/share/augustus/config/species/volvox' -> './config/species/volvox' 192s '/usr/share/augustus/config/species/volvox/volvox_exon_probs.pbl' -> './config/species/volvox/volvox_exon_probs.pbl' 192s '/usr/share/augustus/config/species/volvox/volvox_igenic_probs.pbl' -> './config/species/volvox/volvox_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/volvox/volvox_intron_probs.pbl' -> './config/species/volvox/volvox_intron_probs.pbl' 192s '/usr/share/augustus/config/species/volvox/volvox_metapars.cfg' -> './config/species/volvox/volvox_metapars.cfg' 192s '/usr/share/augustus/config/species/volvox/volvox_metapars.cgp.cfg' -> './config/species/volvox/volvox_metapars.cgp.cfg' 192s '/usr/share/augustus/config/species/volvox/volvox_metapars.utr.cfg' -> './config/species/volvox/volvox_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/volvox/volvox_parameters.cfg' -> './config/species/volvox/volvox_parameters.cfg' 192s '/usr/share/augustus/config/species/volvox/volvox_utr_probs.pbl' -> './config/species/volvox/volvox_utr_probs.pbl' 192s '/usr/share/augustus/config/species/volvox/volvox_weightmatrix.txt' -> './config/species/volvox/volvox_weightmatrix.txt' 192s '/usr/share/augustus/config/species/wheat' -> './config/species/wheat' 192s '/usr/share/augustus/config/species/wheat/README.txt' -> './config/species/wheat/README.txt' 192s '/usr/share/augustus/config/species/wheat/wheat_exon_probs.pbl' -> './config/species/wheat/wheat_exon_probs.pbl' 192s '/usr/share/augustus/config/species/wheat/wheat_igenic_probs.pbl' -> './config/species/wheat/wheat_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/wheat/wheat_intron_probs.pbl' -> './config/species/wheat/wheat_intron_probs.pbl' 192s '/usr/share/augustus/config/species/wheat/wheat_parameters.cfg' -> './config/species/wheat/wheat_parameters.cfg' 192s '/usr/share/augustus/config/species/wheat/wheat_utr_probs.pbl' -> './config/species/wheat/wheat_utr_probs.pbl' 192s '/usr/share/augustus/config/species/wheat/wheat_weightmatrix.txt' -> './config/species/wheat/wheat_weightmatrix.txt' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica' -> './config/species/yarrowia_lipolytica' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_exon_probs.pbl' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_exon_probs.pbl' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_igenic_probs.pbl' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_intron_probs.pbl' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_intron_probs.pbl' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_metapars.cfg' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_metapars.cfg' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_metapars.utr.cfg' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_parameters.cfg' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_parameters.cfg' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_utr_probs.pbl' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_utr_probs.pbl' 192s '/usr/share/augustus/config/species/yarrowia_lipolytica/yarrowia_lipolytica_weightmatrix.txt' -> './config/species/yarrowia_lipolytica/yarrowia_lipolytica_weightmatrix.txt' 192s '/usr/share/augustus/config/species/zebrafish' -> './config/species/zebrafish' 192s '/usr/share/augustus/config/species/zebrafish/README.TXT' -> './config/species/zebrafish/README.TXT' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_exon_probs.pbl' -> './config/species/zebrafish/zebrafish_exon_probs.pbl' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_exon_probs.pbl.HMM' -> './config/species/zebrafish/zebrafish_exon_probs.pbl.HMM' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_igenic_probs.pbl' -> './config/species/zebrafish/zebrafish_igenic_probs.pbl' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_igenic_probs.pbl.HMM' -> './config/species/zebrafish/zebrafish_igenic_probs.pbl.HMM' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_intron_probs.pbl' -> './config/species/zebrafish/zebrafish_intron_probs.pbl' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_intron_probs.pbl.HMM' -> './config/species/zebrafish/zebrafish_intron_probs.pbl.HMM' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_metapars.cfg' -> './config/species/zebrafish/zebrafish_metapars.cfg' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_metapars.utr.cfg' -> './config/species/zebrafish/zebrafish_metapars.utr.cfg' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_parameters.cfg' -> './config/species/zebrafish/zebrafish_parameters.cfg' 192s '/usr/share/augustus/config/species/zebrafish/zebrafish_weightmatrix.txt' -> './config/species/zebrafish/zebrafish_weightmatrix.txt' 192s Will create parameters for a EUKARYOTIC species! 192s creating directory /tmp/tmp.hbvYBBnUFi/config/species/test/ ... 192s creating /tmp/tmp.hbvYBBnUFi/config/species/test/test_parameters.cfg ... 192s creating /tmp/tmp.hbvYBBnUFi/config/species/test/test_weightmatrix.txt ... 192s creating /tmp/tmp.hbvYBBnUFi/config/species/test/test_metapars.cfg ... 192s The necessary files for training test have been created. 192s Now, either run etraining or optimize_parameters.pl with --species=test. 192s etraining quickly estimates the parameters from a file with training genes. 192s optimize_augustus.pl alternates running etraining and augustus to find optimal metaparameters. 192s 192s # Read in 1 genbank sequences. 192s Quantiles of the GC contents in the training set: 192s 0% 0.402 192s 5% 0.402 10% 0.402 192s 15% 0.402 20% 0.402 192s 25% 0.402 30% 0.402 192s 35% 0.402 40% 0.402 192s 45% 0.402 50% 0.402 192s 55% 0.402 60% 0.402 192s 65% 0.402 70% 0.402 192s 75% 0.402 80% 0.402 192s 85% 0.402 90% 0.402 192s 95% 0.402 100% 0.402 192s HMM-training the parameters... 192s i= 0 bc= (0.237, 0.263, 0.263, 0.237) 193s ** building model for exons *EXON* 193s start codon frequencies: ATG(1) 193s # admissible start codons and their probabilities: ATG(1), CTG(0), TTG(0) 193s number of bases in the reading frames: 570 571 570 193s --- frame = 0 --- minPatSum = 233 193s --- frame = 1 --- minPatSum = 233 193s --- frame = 2 --- minPatSum = 233 193s --- initial frame = 0 --- minPatSum = 233 193s --- initial frame = 1 --- minPatSum = 233 193s --- initial frame = 2 --- minPatSum = 233 193s --- internal exon terminal frame = 0 --- minPatSum = 233 193s --- internal exon terminal frame = 1 --- minPatSum = 233 193s --- internal exon terminal frame = 2 --- minPatSum = 233 193s single, initial, internal, terminal mean exon lengths : 193s n.a. 627 191 7 193s single exon : 0 193s initial exon 0 : 1 193s initial exon 1 : 0 193s initial exon 2 : 0 193s internal exon 0 : 3 193s internal exon 1 : 0 193s internal exon 2 : 3 193s terminal exon : 1 193s Frequency of stop codons: 193s tag: 0 (0) 193s taa: 1 (1) 193s tga: 0 (0) 193s end *EXON* 193s Storing parameters to file... 193s Writing exon model parameters [1] to file /tmp/tmp.hbvYBBnUFi/config/species/test/test_exon_probs.pbl. 193s # This output was generated with AUGUSTUS (version 3.5.0). 193s # AUGUSTUS is a gene prediction tool written by M. Stanke (mario.stanke@uni-greifswald.de), 193s # O. Keller, S. König, L. Gerischer, L. Romoth, Katharina Hoff, Henry Mehlan and Daniel Honsel. 193s # Please cite: Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler (2008), 193s # Using native and syntenically mapped cDNA alignments to improve de novo gene finding 193s # Bioinformatics 24: 637-644, doi 10.1093/bioinformatics/btn013 193s # No extrinsic information on sequences given. 193s # Sources of extrinsic information: M RM 193s # Initializing the parameters using config directory /tmp/tmp.hbvYBBnUFi/config/ ... 193s # test version. Using default transition matrix. 193s # admissible start codons and their probabilities: ATG(1), CTG(0), TTG(0) 193s # Looks like /tmp/autopkgtest.0uVNl1/build.soj/src/examples/example.fa is in fasta format. 193s # We have hints for 0 sequences and for 0 of the sequences in the input set. 193s # 193s # ----- prediction on sequence number 1 (length = 9453, name = HS04636) ----- 193s # 193s # Predicted genes for sequence number 1 on both strands 193s # start gene g1 193s HS04636 AUGUSTUS gene 1 1163 0.06 + . g1 193s HS04636 AUGUSTUS transcript 1 1163 0.06 + . g1.t1 193s HS04636 AUGUSTUS intron 1 350 0.36 + . transcript_id "g1.t1"; gene_id "g1"; 193s HS04636 AUGUSTUS intron 673 856 0.17 + . transcript_id "g1.t1"; gene_id "g1"; 193s HS04636 AUGUSTUS CDS 351 672 0.11 + 2 transcript_id "g1.t1"; gene_id "g1"; 193s HS04636 AUGUSTUS CDS 857 1163 0.32 + 1 transcript_id "g1.t1"; gene_id "g1"; 193s HS04636 AUGUSTUS stop_codon 1161 1163 . + 0 transcript_id "g1.t1"; gene_id "g1"; 193s # protein sequence = [VQTRHGGGGGRGDSLRPRTSGPLRFLERKPSVLLPSPGIPSKAISPELALGSARAKTAKKKRHLAETCAPGAVELGEE 193s # REGSDRRVGTTPSAPKLGQLPGFPIFSFPVRSTSRNSSAAPPSAPQPDALRQQSLPPRRALPAARMLARALLLCAVLALSHTGEYLAPRTGDSGSTHP 193s # GRVSALTSWVYPSTPTSLRIEKLRDLGKSLDR] 193s # Evidence for and against this transcript: 193s # % of transcript supported by hints (any source): 0 193s # CDS exons: 0/2 193s # CDS introns: 0/2 193s # 5'UTR exons and introns: 0/0 193s # 3'UTR exons and introns: 0/0 193s # hint groups fully obeyed: 0 193s # incompatible hint groups: 0 193s # end gene g1 193s ### 193s # 193s # ----- prediction on sequence number 2 (length = 2344, name = HS08198) ----- 193s # 193s # Predicted genes for sequence number 2 on both strands 193s # start gene g2 193s HS08198 AUGUSTUS gene 1 2271 0.02 - . g2 193s HS08198 AUGUSTUS transcript 1 2271 0.02 - . g2.t1 193s HS08198 AUGUSTUS intron 1 112 0.38 - . transcript_id "g2.t1"; gene_id "g2"; 193s HS08198 AUGUSTUS intron 950 1314 0.05 - . transcript_id "g2.t1"; gene_id "g2"; 193s HS08198 AUGUSTUS intron 2041 2116 0.39 - . transcript_id "g2.t1"; gene_id "g2"; 193s HS08198 AUGUSTUS CDS 113 949 0.16 - 1 transcript_id "g2.t1"; gene_id "g2"; 193s HS08198 AUGUSTUS CDS 1315 2040 0.26 - 1 transcript_id "g2.t1"; gene_id "g2"; 193s HS08198 AUGUSTUS CDS 2117 2271 0.39 - 0 transcript_id "g2.t1"; gene_id "g2"; 193s HS08198 AUGUSTUS start_codon 2269 2271 . - 0 transcript_id "g2.t1"; gene_id "g2"; 193s # protein sequence = [MAYAREDLPSQIPRAEIGPVTLRGLQPTGSAGLLKRRGGGREGLGGTGAGPDRQKIPCPGWQGPDLRLVSRRTGSGHP 193s # TGGVVSRGTDFSALELCAGLTSSLLQQRRDSAGASGPPHHAAMLAPAVHSPSRTWNWSAASQKPGAPRQGSGWTSAREWGWLSWGPAGDTHRTWGSRR 193s # SGPQSGGPPGPAAQTHSGPSRSQGASGLQGRQGSWGPGTRRRGGLWERGLCVPCPSGPSSLLPHQACLSLLPGPLLSRRIRMGERKCVPMAHPAPRGG 193s # PVSVQSLSACLVTEAGPHIPPGAERRVGVRVQGCSGTHSFRKVLTAMAVPWGATCSVVASARWPCSCRKRQAEPTATRSQVPANWGQTMGELEGTVGG 193s # PLTCFPLHPPQLHLLPSPPQQLLPVSLYPSHNFYLPPSTPPNFYLLRIKIGLGLDGADGGCGPAWPLRLLAQRASCQEQSQEGRSPRGQHGGGSRVAG 193s # LWEAKGSTTKSQDRVYSAVTEPSPGSPCPSVASPPPTSSLLVSLASICTSWQGLAPCPMYKVRVDLWLFIHFSCTPDFHRQSLALYTLSSLNHHPVVL 193s # SPWP] 193s # Evidence for and against this transcript: 193s # % of transcript supported by hints (any source): 0 193s # CDS exons: 0/3 193s # CDS introns: 0/3 193s # 5'UTR exons and introns: 0/0 193s # 3'UTR exons and introns: 0/0 193s # hint groups fully obeyed: 0 193s # incompatible hint groups: 0 193s # end gene g2 193s ### 193s # command line: 193s # augustus --species=test /tmp/autopkgtest.0uVNl1/build.soj/src/examples/example.fa 194s autopkgtest [02:39:24]: test test-example-with-training: -----------------------] 195s autopkgtest [02:39:25]: test test-example-with-training: - - - - - - - - - - results - - - - - - - - - - 195s test-example-with-training PASS 195s autopkgtest [02:39:25]: @@@@@@@@@@@@@@@@@@@@ summary 195s test-example PASS 195s test-example-with-training PASS 200s Creating nova instance adt-noble-arm64-augustus-20240327-023609-juju-7f2275-prod-proposed-migration-environment-3-d663e7c5-ebcd-4585-b742-630c18e6427d from image adt/ubuntu-noble-arm64-server-20240327.img (UUID 4cac5f13-6ada-4e25-827f-1de2aa2ec4b4)...