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container
container
 
 
.gitignore
.gitignore
 
 
LICENSE
LICENSE
 
 
README.md
README.md
 
 
cbrain_psom_worker_submit.sh
cbrain_psom_worker_submit.sh
 
 
demo_pipe1.jpg
demo_pipe1.jpg
 
 
demo_pipe2.jpg
demo_pipe2.jpg
 
 
docker_psom_worker_submit.sh
docker_psom_worker_submit.sh
 
 
example_init_qsub.csh
example_init_qsub.csh
 
 
example_init_qsub.sh
example_init_qsub.sh
 
 
logo_psom.png
logo_psom.png
 
 
logo_psom.svg
logo_psom.svg
 
 
logo_psom_black.png
logo_psom_black.png
 
 
psom_add_clean.m
psom_add_clean.m
 
 
psom_add_job.m
psom_add_job.m
 
 
psom_build_dependencies.m
psom_build_dependencies.m
 
 
psom_bundle_cleanup.m
psom_bundle_cleanup.m
 
 
psom_char2cell.m
psom_char2cell.m
 
 
psom_clean.m
psom_clean.m
 
 
psom_clean_logs.m
psom_clean_logs.m
 
 
psom_cmp_var.m
psom_cmp_var.m
 
 
psom_condor.sh
psom_condor.sh
 
 
psom_deamon.m
psom_deamon.m
 
 
psom_defaults.m
psom_defaults.m
 
 
psom_demo_clean.m
psom_demo_clean.m
 
 
psom_demo_pipeline.m
psom_demo_pipeline.m
 
 
psom_exist.m
psom_exist.m
 
 
psom_file_tmp.m
psom_file_tmp.m
 
 
psom_files2cell.m
psom_files2cell.m
 
 
psom_find_str_cell.m
psom_find_str_cell.m
 
 
psom_garbage.m
psom_garbage.m
 
 
psom_gb_vars.m
psom_gb_vars.m
 
 
psom_heartbeat.m
psom_heartbeat.m
 
 
psom_is_dag.m
psom_is_dag.m
 
 
psom_is_files_out_ok.m
psom_is_files_out_ok.m
 
 
psom_job_status.m
psom_job_status.m
 
 
psom_manager.m
psom_manager.m
 
 
psom_merge_pipeline.m
psom_merge_pipeline.m
 
 
psom_mkdir.m
psom_mkdir.m
 
 
psom_path_tmp.m
psom_path_tmp.m
 
 
psom_pipeline2job.m
psom_pipeline2job.m
 
 
psom_pipeline_init.m
psom_pipeline_init.m
 
 
psom_pipeline_visu.m
psom_pipeline_visu.m
 
 
psom_quarantine_svn.m
psom_quarantine_svn.m
 
 
psom_read_xml.m
psom_read_xml.m
 
 
psom_rm_blank.m
psom_rm_blank.m
 
 
psom_run_in_docker.sh
psom_run_in_docker.sh
 
 
psom_run_in_singularity.sh
psom_run_in_singularity.sh
 
 
psom_run_job.m
psom_run_job.m
 
 
psom_run_job.sh
psom_run_job.sh
 
 
psom_run_pipeline.m
psom_run_pipeline.m
 
 
psom_run_script.m
psom_run_script.m
 
 
psom_set_defaults.m
psom_set_defaults.m
 
 
psom_set_rand_seed.m
psom_set_rand_seed.m
 
 
psom_string2lines.m
psom_string2lines.m
 
 
psom_string2words.m
psom_string2words.m
 
 
psom_string_remove.m
psom_string_remove.m
 
 
psom_struct_cell_string2char.m
psom_struct_cell_string2char.m
 
 
psom_struct_defaults.m
psom_struct_defaults.m
 
 
psom_submit.sh
psom_submit.sh
 
 
psom_subset_pipeline.m
psom_subset_pipeline.m
 
 
psom_template_brick.m
psom_template_brick.m
 
 
psom_test_hist.m
psom_test_hist.m
 
 
psom_test_io.m
psom_test_io.m
 
 
psom_test_pipe_tutorial.m
psom_test_pipe_tutorial.m
 
 
psom_test_sleep.m
psom_test_sleep.m
 
 
psom_update_svn.m
psom_update_svn.m
 
 
psom_version_svn.m
psom_version_svn.m
 
 
psom_visu_dependencies.m
psom_visu_dependencies.m
 
 
psom_worker.m
psom_worker.m
 
 
psom_worker.py
psom_worker.py
 
 
psom_write_dependencies.m
psom_write_dependencies.m
 
 
psom_write_graph.m
psom_write_graph.m
 
 
psom_write_pipeline2xml.m
psom_write_pipeline2xml.m
 
 
psom_xml2struct.m
psom_xml2struct.m
 
 

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The pipeline system for Octave and Matlab (PSOM) is a lightweight library designed to script complex multistage data processing, or "pipelines". PSOM is an open-source software distributed under MIT license. The latest release 1.0.2 is at a stable, production stage, and has been tested under Linux, Windows and Mac OSX. PSOM can handle smoothly pipelines with thousands of jobs involving tens of thousands of files, and distribute those amongst hundreds of processors.

Please refer to the PSOM website for the user documentation, and the github wiki for the documentation for developpers.

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pipeline system for octave and matlab

psom.simexp-lab.org

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Singularity mode improvement and bugfixes Latest
Jan 20, 2017
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