MANIFEST.in
README.md
VERSION
setup.py
libsignetsim/LibSigNetSimException.py
libsignetsim/__init__.py
libsignetsim/__main__.py
libsignetsim.egg-info/PKG-INFO
libsignetsim.egg-info/SOURCES.txt
libsignetsim.egg-info/dependency_links.txt
libsignetsim.egg-info/requires.txt
libsignetsim.egg-info/top_level.txt
libsignetsim/combine/CombineArchive.py
libsignetsim/combine/CombineException.py
libsignetsim/combine/File.py
libsignetsim/combine/ListOfFiles.py
libsignetsim/combine/Manifest.py
libsignetsim/combine/__init__.py
libsignetsim/combine/tests/TestCreateArchive.py
libsignetsim/combine/tests/TestNoManifest.py
libsignetsim/combine/tests/TestOneStep.py
libsignetsim/combine/tests/TestParameterScan1D.py
libsignetsim/combine/tests/TestRunSedmls.py
libsignetsim/combine/tests/TestShowCase.py
libsignetsim/combine/tests/__init__.py
libsignetsim/combine/tests/files/00001-sbml-l3v1-sedml.xml
libsignetsim/combine/tests/files/00001-sbml-l3v1.xml
libsignetsim/combine/tests/files/00001.omex
libsignetsim/combine/tests/files/BIOMD0000000003.sedx
libsignetsim/combine/tests/files/CombineArchiveShowCase.omex
libsignetsim/combine/tests/files/experiment_0.xml
libsignetsim/combine/tests/files/oneStep.sedx
libsignetsim/combine/tests/files/parameterScan1D.sedx
libsignetsim/combine/tests/files/parameterScan2D.sedx
libsignetsim/continuation/EquilibriumPointCurve.py
libsignetsim/continuation/PyDSToolModel.py
libsignetsim/continuation/__init__.py
libsignetsim/continuation/tests/TestContinuation.py
libsignetsim/continuation/tests/TestContinuationDas.py
libsignetsim/continuation/tests/__init__.py
libsignetsim/continuation/tests/files/ras_das.xml
libsignetsim/continuation/tests/files/ras_das_full.xml
libsignetsim/continuation/tests/files/tyson2.xml
libsignetsim/cwriter/CMathWriter.py
libsignetsim/cwriter/CModelWriter.py
libsignetsim/cwriter/CWriterData.py
libsignetsim/cwriter/CWriterModelVsDataOptimization.py
libsignetsim/cwriter/CWriterModels.py
libsignetsim/cwriter/CWriterOptimization.py
libsignetsim/cwriter/__init__.py
libsignetsim/data/Experiment.py
libsignetsim/data/ExperimentalCondition.py
libsignetsim/data/ExperimentalData.py
libsignetsim/data/ListOfExperimentalData.py
libsignetsim/data/__init__.py
libsignetsim/data/tests/__init__.py
libsignetsim/data/tests/test_readwrite_data.py
libsignetsim/figure/SigNetSimFigure.py
libsignetsim/figure/__init__.py
libsignetsim/lib/scoreFunctions.c
libsignetsim/lib/scoreFunctions.h
libsignetsim/lib/integrate/Makefile
libsignetsim/lib/integrate/integrate.cpython-35m-x86_64-linux-gnu.so
libsignetsim/lib/integrate/integrate.so
libsignetsim/lib/integrate/src/dae.c
libsignetsim/lib/integrate/src/dae.h
libsignetsim/lib/integrate/src/datas.h
libsignetsim/lib/integrate/src/events.c
libsignetsim/lib/integrate/src/events.h
libsignetsim/lib/integrate/src/integrate.c
libsignetsim/lib/integrate/src/integrate.h
libsignetsim/lib/integrate/src/models.h
libsignetsim/lib/integrate/src/ode.c
libsignetsim/lib/integrate/src/ode.h
libsignetsim/lib/integrate/src/realtype_math.c
libsignetsim/lib/integrate/src/realtype_math.h
libsignetsim/lib/integrate/src/shared.c
libsignetsim/lib/integrate/src/shared.h
libsignetsim/lib/integrate/src/types.h
libsignetsim/lib/plsa/Makefile
libsignetsim/lib/plsa/libplsa-parallel.so
libsignetsim/lib/plsa/libplsa-serial.so
libsignetsim/lib/plsa/examples/funnel/Makefile
libsignetsim/lib/plsa/examples/funnel/main.c
libsignetsim/lib/plsa/examples/funnel/problem.c
libsignetsim/lib/plsa/examples/funnel/problem.h
libsignetsim/lib/plsa/examples/sigmoid/Makefile
libsignetsim/lib/plsa/examples/sigmoid/main.c
libsignetsim/lib/plsa/examples/sigmoid/problem.c
libsignetsim/lib/plsa/examples/sigmoid/problem.h
libsignetsim/lib/plsa/src/MPI.h
libsignetsim/lib/plsa/src/config.c
libsignetsim/lib/plsa/src/config.h
libsignetsim/lib/plsa/src/distributions.c
libsignetsim/lib/plsa/src/distributions.h
libsignetsim/lib/plsa/src/error.c
libsignetsim/lib/plsa/src/error.h
libsignetsim/lib/plsa/src/global.h
libsignetsim/lib/plsa/src/lsa.c
libsignetsim/lib/plsa/src/lsa.h
libsignetsim/lib/plsa/src/mixing.c
libsignetsim/lib/plsa/src/mixing.h
libsignetsim/lib/plsa/src/moves.c
libsignetsim/lib/plsa/src/moves.h
libsignetsim/lib/plsa/src/plsa.c
libsignetsim/lib/plsa/src/random.c
libsignetsim/lib/plsa/src/random.h
libsignetsim/lib/plsa/src/sa.h
libsignetsim/lib/plsa/src/score.c
libsignetsim/lib/plsa/src/score.h
libsignetsim/lib/plsa/src/state.c
libsignetsim/lib/plsa/src/state.h
libsignetsim/lib/plsa/src/tuning.c
libsignetsim/lib/plsa/src/tuning.h
libsignetsim/lib/plsa/src/types.h
libsignetsim/lib/plsa/stats/Makefile
libsignetsim/lib/plsa/stats/main.c
libsignetsim/lib/templates/data_optimization/Makefile
libsignetsim/lib/templates/data_optimization/main.c
libsignetsim/lib/templates/simulation/Makefile
libsignetsim/lib/templates/simulation/main.c
libsignetsim/model/ListOfMathVariables.py
libsignetsim/model/ListOfSbmlVariables.py
libsignetsim/model/ListOfVariables.py
libsignetsim/model/Model.py
libsignetsim/model/ModelException.py
libsignetsim/model/ModelInstance.py
libsignetsim/model/SbmlDocument.py
libsignetsim/model/Variable.py
libsignetsim/model/__init__.py
libsignetsim/model/math/CFE.py
libsignetsim/model/math/ConservationLaw.py
libsignetsim/model/math/DAE.py
libsignetsim/model/math/MathAsymmetricModel.py
libsignetsim/model/math/MathConservationMatrix.py
libsignetsim/model/math/MathDevelopper.py
libsignetsim/model/math/MathException.py
libsignetsim/model/math/MathFormula.py
libsignetsim/model/math/MathJacobianMatrix.py
libsignetsim/model/math/MathModel.py
libsignetsim/model/math/MathSlowModel.py
libsignetsim/model/math/MathStoichiometryMatrix.py
libsignetsim/model/math/MathSubmodel.py
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libsignetsim/model/math/ODE.py
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libsignetsim/model/math/container/__init__.py
libsignetsim/model/math/tests/TestMath.py
libsignetsim/model/math/tests/__init__.py
libsignetsim/model/sbml/AlgebraicRule.py
libsignetsim/model/sbml/AssignmentRule.py
libsignetsim/model/sbml/CVTerm.py
libsignetsim/model/sbml/Compartment.py
libsignetsim/model/sbml/ConservedMoiety.py
libsignetsim/model/sbml/Constraint.py
libsignetsim/model/sbml/Deletion.py
libsignetsim/model/sbml/Event.py
libsignetsim/model/sbml/EventAssignedVariable.py
libsignetsim/model/sbml/EventAssignment.py
libsignetsim/model/sbml/EventDelay.py
libsignetsim/model/sbml/EventPriority.py
libsignetsim/model/sbml/EventTrigger.py
libsignetsim/model/sbml/ExternalModelDefinition.py
libsignetsim/model/sbml/FunctionDefinition.py
libsignetsim/model/sbml/HasConversionFactor.py
libsignetsim/model/sbml/HasId.py
libsignetsim/model/sbml/HasParentObj.py
libsignetsim/model/sbml/HasRef.py
libsignetsim/model/sbml/HasReplacedElements.py
libsignetsim/model/sbml/HasSBaseRef.py
libsignetsim/model/sbml/HasUnits.py
libsignetsim/model/sbml/InitialAssignment.py
libsignetsim/model/sbml/InitiallyAssignedVariable.py
libsignetsim/model/sbml/KineticLaw.py
libsignetsim/model/sbml/KineticLawIdentifier.py
libsignetsim/model/sbml/ModelDefinition.py
libsignetsim/model/sbml/ModelUnits.py
libsignetsim/model/sbml/Parameter.py
libsignetsim/model/sbml/Port.py
libsignetsim/model/sbml/RateRule.py
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libsignetsim/model/sbml/ReplacedElement.py
libsignetsim/model/sbml/Rule.py
libsignetsim/model/sbml/RuledVariable.py
libsignetsim/model/sbml/SbmlAnnotation.py
libsignetsim/model/sbml/SbmlModel.py
libsignetsim/model/sbml/SbmlModelAnnotation.py
libsignetsim/model/sbml/SbmlModelCreator.py
libsignetsim/model/sbml/SbmlModelHistory.py
libsignetsim/model/sbml/SbmlObject.py
libsignetsim/model/sbml/SbmlVariable.py
libsignetsim/model/sbml/SimpleSbmlObject.py
libsignetsim/model/sbml/Species.py
libsignetsim/model/sbml/SpeciesReference.py
libsignetsim/model/sbml/SubModel.py
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libsignetsim/model/sbml/container/HasIds.py
libsignetsim/model/sbml/container/HasMetaIds.py
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libsignetsim/model/sbml/container/ListOfEvents.py
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libsignetsim/model/sbml/container/ListOfFunctionDefinitions.py
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libsignetsim/model/sbml/container/ListOfPorts.py
libsignetsim/model/sbml/container/ListOfReactions.py
libsignetsim/model/sbml/container/ListOfReplacedElements.py
libsignetsim/model/sbml/container/ListOfRules.py
libsignetsim/model/sbml/container/ListOfSbmlObjects.py
libsignetsim/model/sbml/container/ListOfSpecies.py
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libsignetsim/model/tests/TestAnnotation.py
libsignetsim/model/tests/TestFindKineticLaws.py
libsignetsim/model/tests/TestLoadLargeModel.py
libsignetsim/model/tests/TestLocalParameters.py
libsignetsim/model/tests/TestMetaIds.py
libsignetsim/model/tests/TestModelDefinition.py
libsignetsim/model/tests/TestReduceModel.py
libsignetsim/model/tests/TestReduceModelMultiCompartment.py
libsignetsim/model/tests/TestReduceRas.py
libsignetsim/model/tests/TestRenameSbmlId.py
libsignetsim/model/tests/TestSubstitutions.py
libsignetsim/model/tests/TestUnits.py
libsignetsim/model/tests/TestXPaths.py
libsignetsim/model/tests/__init__.py
libsignetsim/model/tests/files/BIOMD0000000001.xml
libsignetsim/model/tests/files/gerard.xml
libsignetsim/model/tests/files/modelqlzB7i.xml
libsignetsim/model/tests/files/modelx8Ow70.xml
libsignetsim/model/tests/files/ras_das.xml
libsignetsim/model/tests/files/tyson2.xml
libsignetsim/model/tests/files/comp_model/modelEHfev9.xml
libsignetsim/model/tests/files/comp_model/modelI1vrys.xml
libsignetsim/model/tests/files/comp_model/modelcEvRcX.xml
libsignetsim/model/tests/files/comp_model/modelz9xdww.xml
libsignetsim/numl/AtomicDescription.py
libsignetsim/numl/AtomicValue.py
libsignetsim/numl/CompositeDescription.py
libsignetsim/numl/CompositeValue.py
libsignetsim/numl/Dimension.py
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libsignetsim/numl/NMBase.py
libsignetsim/numl/NuMLDocument.py
libsignetsim/numl/NuMLException.py
libsignetsim/numl/OntologyTerm.py
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libsignetsim/numl/tests/test_example_notes.py
libsignetsim/numl/tests/test_experiment.py
libsignetsim/numl/tests/files/example.xml
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libsignetsim/optimization/tests/files/ras_data.xml
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libsignetsim/sedml/Algorithm.py
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libsignetsim/uris/GoResolver.py
libsignetsim/uris/MIRIAMRegistry.py
libsignetsim/uris/NCBITaxonomyResolver.py
libsignetsim/uris/PubmedResolver.py
libsignetsim/uris/SBOResolver.py
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