CHANGELOG.md
CONTRIBUTING.md
DISCLAIMER.md
LICENSE
MANIFEST.in
README.md
VERSION
requirements.txt
setup.cfg
setup.py
docker/Dockerfile
docker/Dockerfile.workflow
docker/README.md
docker/build.sh
docs/Makefile
docs/conf.py
docs/index.rst
src/geneflow/__init__.py
src/geneflow/__main__.py
src/geneflow/app_installer.py
src/geneflow/config.py
src/geneflow/data.py
src/geneflow/data_manager.py
src/geneflow/definition.py
src/geneflow/environment.py
src/geneflow/log.py
src/geneflow/shell_wrapper.py
src/geneflow/stageable_data.py
src/geneflow/template_compiler.py
src/geneflow/uri_parser.py
src/geneflow/workflow.py
src/geneflow/workflow_dag.py
src/geneflow/workflow_input.py
src/geneflow/workflow_installer.py
src/geneflow/workflow_step.py
src/geneflow.egg-info/PKG-INFO
src/geneflow.egg-info/SOURCES.txt
src/geneflow.egg-info/dependency_links.txt
src/geneflow.egg-info/entry_points.txt
src/geneflow.egg-info/not-zip-safe
src/geneflow.egg-info/requires.txt
src/geneflow.egg-info/top_level.txt
src/geneflow/cli/__init__.py
src/geneflow/cli/add_apps.py
src/geneflow/cli/add_workflows.py
src/geneflow/cli/common.py
src/geneflow/cli/help.py
src/geneflow/cli/init_db.py
src/geneflow/cli/install_workflow.py
src/geneflow/cli/make_app.py
src/geneflow/cli/migrate_db.py
src/geneflow/cli/run.py
src/geneflow/cli/run_pending.py
src/geneflow/data/migrations/.gitignore
src/geneflow/data/migrations/20200529-01.py
src/geneflow/data/migrations/20201105-01.py
src/geneflow/data/sql/geneflow-sqlite.sql
src/geneflow/data/sql/geneflow.sql
src/geneflow/data/templates/agave-app-def.json.j2.j2
src/geneflow/data/templates/test.sh.j2
src/geneflow/data/templates/wrapper-script.sh.j2
src/geneflow/data/templates/wrapper-script.sh.j2-old
src/geneflow/extend/__init__.py
src/geneflow/extend/agave_step.py
src/geneflow/extend/agave_workflow.py
src/geneflow/extend/agave_wrapper.py
src/geneflow/extend/contexts.py
src/geneflow/extend/data_manager_contexts.py
src/geneflow/extend/gridengine_step.py
src/geneflow/extend/gridengine_workflow.py
src/geneflow/extend/local_step.py
src/geneflow/extend/local_workflow.py
src/geneflow/extend/slurm_step.py
src/geneflow/extend/slurm_workflow.py