AUTHORS.rst
CONTRIBUTING.rst
HISTORY.rst
LICENSE
MANIFEST.in
README.rst
setup.cfg
setup.py
cellmaps_pipeline/__init__.py
cellmaps_pipeline/cellmaps_pipelinecmd.py
cellmaps_pipeline/exceptions.py
cellmaps_pipeline/runner.py
cellmaps_pipeline.egg-info/PKG-INFO
cellmaps_pipeline.egg-info/SOURCES.txt
cellmaps_pipeline.egg-info/dependency_links.txt
cellmaps_pipeline.egg-info/not-zip-safe
cellmaps_pipeline.egg-info/requires.txt
cellmaps_pipeline.egg-info/top_level.txt
docs/Makefile
docs/authors.rst
docs/cellmaps_pipeline.rst
docs/cm4ai.rst
docs/conf.py
docs/contributing.rst
docs/devbranches.rst
docs/developer.rst
docs/history.rst
docs/hpa_bioplex.rst
docs/index.rst
docs/installation.rst
docs/integrationtesting.rst
docs/make.bat
docs/modules.rst
docs/ndex_save.rst
docs/newrelease.rst
docs/outputs.rst
docs/provenance.rst
docs/pypircfile.rst
docs/usage.rst
docs/usage_programmatically.rst
docs/usage_via_command.rst
docs/versioningscheme.rst
docs/_build/html/_images/apms_download.png
docs/_build/html/_images/apms_leftsidebar.png
docs/_build/html/_images/datatab.png
docs/_build/html/_images/if_download.png
docs/_build/html/_images/if_leftsidebar.png
docs/_build/html/_images/pipeline_common_files.png
docs/_build/html/_images/pipeline_overview.png
docs/_build/html/_images/pipeline_slurm_overview.png
docs/_build/html/_images/pipeline_step_1image.png
docs/_build/html/_images/pipeline_step_2image_embed.png
docs/_build/html/_images/pipeline_step_2ppi.png
docs/_build/html/_images/pipeline_step_2ppi_embed.png
docs/_build/html/_images/pipeline_step_3.png
docs/_build/html/_images/pipeline_step_4.png
docs/_build/html/_images/pipeline_step_5.png
docs/_build/html/_static/file.png
docs/_build/html/_static/minus.png
docs/_build/html/_static/plus.png
docs/images/apms_download.png
docs/images/apms_leftsidebar.png
docs/images/cm4ai_ifimage_download.png
docs/images/datatab.png
docs/images/if_download.png
docs/images/if_leftsidebar.png
docs/images/pipeline_common_files.png
docs/images/pipeline_overview.png
docs/images/pipeline_slurm_overview.png
docs/images/pipeline_step_1image.png
docs/images/pipeline_step_2image_embed.png
docs/images/pipeline_step_2ppi.png
docs/images/pipeline_step_2ppi_embed.png
docs/images/pipeline_step_3.png
docs/images/pipeline_step_4.png
docs/images/pipeline_step_5.png
tests/__init__.py
tests/test_cellmaps_pipelinecmd.py
tests/test_cellmapspipeline.py
tests/test_integration_cellmaps_pipeline.py
tests/test_pipelinerunner.py
tests/test_programmaticpipelinerunner.py
tests/test_slurmpipelinerunner.py