after parse:
########################
#    PARGENES v1.2.0   #
########################

2020-12-25 10:13:45.879700
ParGenes was called as follow:
/opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes-hpc-debug.py -a /opt/conda/conda-bld/pargenes_1608889558035/work/tests/smalldata/fasta_files -o /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug -c 4 -m --modeltest-global-parameters /opt/conda/conda-bld/pargenes_1608889558035/work/tests/smalldata/only_1_models.txt --scheduler onecore

[0:00:00] end of MSAs initializations
Binaries directory: /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries
Calling mpi-scheduler: mpiexec -n 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/mpi-scheduler --onecore-scheduler 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/raxml-ng /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/parse_run/parse_command.txt /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/parse_run
Logs will be redirected to /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/parse_run/logs.txt
[Warning] [0:00:00] 1/5 commands failed
  Number of families: 5
  Average number of taxa: 4
  Max number of taxa: 10
  Average number of sites: 33
  Max number of sites: 50
  Recommended MAXIMUM number of cores: 1
[Warning] [0:00:00] Found 1 invalid MSAs (see /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/invalid_msas.txt)
[0:00:00] end of parsing mpi-scheduler run
[0:00:00] end of anlysing parsing results
Calling mpi-scheduler: mpiexec -n 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/mpi-scheduler --onecore-scheduler 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/modeltest-ng /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/modeltest_run/modeltest_command.txt /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/modeltest_run
Logs will be redirected to /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/modeltest_run/logs.txt
[0:00:00] end of modeltest mpi-scheduler run
[0:00:00] end of parsing  modeltest results
Calling mpi-scheduler: mpiexec -n 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/mpi-scheduler --onecore-scheduler 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/raxml-ng /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/parse_run/parse_command.txt /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/parse_run
Logs will be redirected to /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/parse_run/logs.txt
[Warning] [0:00:00] 1/5 commands failed
  Number of families: 5
  Average number of taxa: 4
  Max number of taxa: 10
  Average number of sites: 33
  Max number of sites: 50
  Recommended MAXIMUM number of cores: 1
[Warning] [0:00:00] Found 1 invalid MSAs (see /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/invalid_msas.txt)
[0:00:00] end of the second parsing step
Calling mpi-scheduler: mpiexec -n 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/mpi-scheduler --onecore-scheduler 4 /opt/conda/conda-bld/pargenes_1608889558035/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_plac/bin/pargenes_src/../pargenes_binaries/raxml-ng /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/mlsearch_run/mlsearch_command.txt /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/mlsearch_run
Logs will be redirected to /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/mlsearch_run/logs.txt
[0:00:01] end of mlsearch mpi-scheduler run
[Warning] [0:00:01] Total number of jobs that failed: 1
[Warning] [0:00:01] For a detailed list, see /opt/conda/conda-bld/pargenes_1608889558035/work/tests/tests_outputs/test_modeltest/pargenes-hpc-debug/failed_commands.txt
[0:00:01] END OF THE RUN OF pargenescore.pyc
