[Crac-bugs] Build failed in Jenkins: crac-dev » --enable-shared,centos32 #73

ci-crac at inria.fr ci-crac at inria.fr
Ven 28 Mar 02:07:11 CET 2014


See <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/73/>

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Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
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Warning: read number 2 is ignored because its length is lower than the k-mer length
Warning: read number 2 is ignored because its length is lower than the k-mer length
PASS: testConsistency
==================
All 3 tests passed
==================
make[5]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/libGkArrays/tests'>
make[4]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/libGkArrays/tests'>
make[4]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/libGkArrays'>
make[4]: Nothing to be done for `check-am'.
make[4]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/libGkArrays'>
make[3]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/libGkArrays'>
make[3]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src'>
make[3]: Nothing to be done for `check-am'.
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make[2]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src'>
Making check in man
make[2]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/man'>
make[2]: Nothing to be done for `check'.
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Making check in scripts
make[2]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/scripts'>
make[2]: Nothing to be done for `check'.
make[2]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/scripts'>
Making check in test_f
make[2]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f'>
Making check in causes
make[3]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/causes'>
make[3]: Nothing to be done for `check'.
make[3]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/causes'>
Making check in bug
make[3]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug'>
make[3]: Nothing to be done for `check'.
make[3]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug'>
Making check in cigar
make[3]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar'>
make[3]: Nothing to be done for `check'.
make[3]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar'>
make[3]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f'>
make  check-TESTS
make[4]: Entering directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f'>
PASS: index_genomes.sh
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15646-genome> -r bug-15646-read.fa --detailed-sam -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15646.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11422 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15646-genome> -r bug-15646-read.fa --detailed-sam -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15646.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15646.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-genome> -r bug-15649-read.fa --detailed-sam -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11452 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-genome> -r bug-15649-read.fa --detailed-sam -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605_2-genome> -r bug-15605_2-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605_2.sam> --detailed-sam'
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11471 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605_2-genome> -r bug-15605_2-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605_2.sam> --detailed-sam
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605_2.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15630-genome> -r bug-15630-read.fa --detailed-sam -k 18 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15630.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11490 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15630-genome> -r bug-15630-read.fa --detailed-sam -k 18 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15630.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15630.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403-genome> -r bug-16403-read.fa --max-extension-length 2 --stringent-chimera -k 20 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11518 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403-genome> -r bug-16403-read.fa --max-extension-length 2 --stringent-chimera -k 20 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15847-genome> -r bug-15847-read.fa -k 22 --treat-multiple -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15847.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11537 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15847-genome> -r bug-15847-read.fa -k 22 --treat-multiple -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15847.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15847.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15639-genome> -r bug-15639-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15639.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11556 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15639-genome> -r bug-15639-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15639.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15639.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403-genome> -r bug-16403-read.fa -k 20 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16931.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11575 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403-genome> -r bug-16403-read.fa -k 20 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16931.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16931.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605-genome> -r bug-15605-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605.sam> --detailed-sam'
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11594 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605-genome> -r bug-15605-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605.sam> --detailed-sam
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15677-genome> -r bug-15677-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15677.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11613 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15677-genome> -r bug-15677-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15677.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15677.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-genome-2> -r bug-15649-read.fa --detailed-sam -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-2.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11632 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-genome-2> -r bug-15649-read.fa --detailed-sam -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-2.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-2.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15672-genome> -r bug-15672-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15672.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11651 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15672-genome> -r bug-15672-read.fa -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15672.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15672.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/causes/genome> -r snp.fa -k 22 --deep-snv --nb-nucleotides-snv-comparison 3 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/causes/snp.sam> --detailed-sam'
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11670 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/causes/genome> -r snp.fa -k 22 --deep-snv --nb-nucleotides-snv-comparison 3 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/causes/snp.sam> --detailed-sam
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/causes/snp.fa.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/genome> -r reads.fasta -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11851 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/genome> -r reads.fasta -k 22 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency.tap>
Launching ' <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/genome> -r reads_k18.fasta -k 18 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency2.sam'>
terminate called after throwing an instance of 'std::logic_error'
  what():  basic_string::_S_construct NULL not valid
./should-get.sh: line 128: 11933 Aborted                 (core dumped) <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/src/crac> -i <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/genome> -r reads_k18.fasta -k 18 -o <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency2.sam>
==> <https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency2.tap>
FAIL: launch_sg.sh
./test_index.sh: line 25: tempfile: command not found
./test_index.sh: line 48: ./test_index.tap: Permission denied
PASS: test_index.sh
================================================
1 of 3 tests failed
Please report to crac-bugs at lists.gforge.inria.fr
================================================
make[4]: *** [check-TESTS] Error 1
make[4]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f'>
make[3]: *** [check-am] Error 2
make[3]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f'>
make[2]: *** [check-recursive] Error 1
make[2]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build/test_f'>
make[1]: *** [check-recursive] Error 1
make[1]: Leaving directory `<https://ci.inria.fr/crac/job/crac-dev/./CONFIGURE_OPTIONS=--enable-shared,label=centos32/ws/crac-1.4.2/crac-1.4.2/_build'>
make: *** [distcheck] Error 1
Build step 'Execute shell' marked build as failure
TAP Reports Processing: START
Looking for TAP results report in workspace using pattern: **/*.tap 
Saving reports...
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605_2.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15605_2.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15630.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15630.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15639.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15639.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15646.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15646.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-2.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649-2.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15649.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15672.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15672.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15677.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15677.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15847.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-15847.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16403.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16931.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/bug/bug-16931.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/causes/snp.fa.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/causes/snp.fa.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency.tap].
Processing '/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency2.tap'
Parsing TAP test result [/net/www/ci/crac/jobs/crac-dev/configurations/axis-CONFIGURE_OPTIONS/--enable-shared/axis-label/centos32/builds/2014-03-28_02-01-13/tap-master-files/crac-1.4.2/crac-1.4.2/_build/test_f/cigar/consistency2.tap].
TAP Reports Processing: FINISH
[WARNINGS] Skipping publisher since build result is FAILURE



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