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examples/README.md
examples/bngl/Dolan-PLoS-Comput-Biol-2015-NHEJ.omex
examples/bngl/test-bngl.omex
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examples/sbml-core/Edelstein-Biol-Cybern-1996-Nicotinic-excitation/BIOMD0000000002_sim.sedml
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examples/sbml-core/Parmar-BMC-Syst-Biol-2017-iron-distribution/BIOMD0000000734.xml
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examples/sbml-core/Szymanska-J-Theor-Biol-2009-HSP-synthesis/Szymanska2009.xml
examples/sbml-core/Szymanska-J-Theor-Biol-2009-HSP-synthesis/expected-results.json
examples/sbml-core/Szymanska-J-Theor-Biol-2009-HSP-synthesis/manifest.xml
examples/sbml-core/Szymanska-J-Theor-Biol-2009-HSP-synthesis/metadata.rdf
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examples/sbml-fbc/Escherichia-coli-core-metabolism.omex
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examples/sbml-fbc/Escherichia-coli-core-metabolism/flux-map.escher.json
examples/sbml-fbc/Escherichia-coli-core-metabolism/flux-map.vg.json
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examples/sbml-qual/Chaouiya-BMC-Syst-Biol-2013-EGF-TNFa-signaling.omex
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle.omex
examples/sbml-qual/Chaouiya-BMC-Syst-Biol-2013-EGF-TNFa-signaling/BIOMD0000000562_url.xml
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examples/sbml-qual/Chaouiya-BMC-Syst-Biol-2013-EGF-TNFa-signaling/metadata.rdf
examples/sbml-qual/Chaouiya-BMC-Syst-Biol-2013-EGF-TNFa-signaling/reports.h5
examples/sbml-qual/Chaouiya-BMC-Syst-Biol-2013-EGF-TNFa-signaling/simulation.sedml
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/Figure2.jpg
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/activity-flow-diagram.ginml
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/activity-flow-diagram.vg.json
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/expected-results.json
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/manifest.xml
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/metadata.rdf
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/model.xml
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/reports.h5
examples/sbml-qual/Irons-J-Theor-Biol-2009-yeast-cell-cycle/simulation.sedml
examples/smoldyn/Lotka-Volterra.omex
examples/smoldyn/Lotka-Volterra/expected-results.json
examples/smoldyn/Lotka-Volterra/manifest.xml
examples/smoldyn/Lotka-Volterra/metadata.rdf
examples/smoldyn/Lotka-Volterra/model.txt
examples/smoldyn/Lotka-Volterra/reports.h5
examples/smoldyn/Lotka-Volterra/simulation.sedml
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells.omex
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells/Figure4.gif
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells/GH3_Katp.ode
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells/expected-results.json
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells/manifest.xml
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells/metadata.rdf
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells/reports.h5
examples/xpp/Wu-Biochem-Pharmacol-2006-pituitary-GH3-cells/simulation.sedml
scripts/zip_examples.py
tests/requirements.txt
tests/test_config.py
tests/test_data_model.py
tests/test_examples.py
tests/test_exec_cli.py
tests/test_exec_core.py
tests/test_exec_gh_action.py
tests/test_utils.py
tests/test_version.py
tests/fixtures/COPASI.specs.json
tests/results/test_results_io.py
tests/test_case/test_cli.py
tests/test_case/test_combine_archive.py
tests/test_case/test_docker_image.py
tests/test_case/test_log.py
tests/test_case/test_published_project.py
tests/test_case/test_results_report.py
tests/test_case/test_sedml.py
tests/test_case/test_test_case_utils.py