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Download mew-regulatory-core JAR 1.1.0 with all dependencies

Main package of the regulatory plugin

Files of the artifact mew-regulatory-core version 1.1.0 from the group pt.uminho.ceb.biosystems.

Test

Artifact mew-regulatory-core
Group pt.uminho.ceb.biosystems
Version 1.1.0
Last update 09. July 2018
Organization not specified
URL https://github.com/MEWorkbench/regulatory
License not specified
Dependencies amount 17
Dependencies commons-codec, commons-io, commons-logging-api, dom4j, junit-dep, multiutils, reg4optflux-boolutils, mew-utilities, mew-core, JBiclustGE-datatools, MDDlib, LogicalModel, jsbml, jsbml-layout, jsbml-qual, antlr4-runtime, spi,
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Source code of mew-regulatory-core version 1.1.0

META-INF

META-INF.META-INF.MANIFEST.MF

META-INF.maven.pt.uminho.ceb.biosystems.mew-regulatory-core

META-INF.maven.pt.uminho.ceb.biosystems.mew-regulatory-core.META-INF.maven.pt.uminho.ceb.biosystems.mew-regulatory-core.pom.properties

META-INF.maven.pt.uminho.ceb.biosystems.mew-regulatory-core.META-INF.maven.pt.uminho.ceb.biosystems.mew-regulatory-core.pom.xml

.logback-test.xml.out

pt.uminho.ceb.biosystems.reg4optfluxcore.container

pt.uminho.ceb.biosystems.reg4optfluxcore.container.pt.uminho.ceb.biosystems.reg4optfluxcore.container.IntegratedModelContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.container.pt.uminho.ceb.biosystems.reg4optfluxcore.container.RegulatoryContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.container.components

pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.GeneType

pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.RegulatoryGeneCI

pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.RegulatoryModelComponent

pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.pt.uminho.ceb.biosystems.reg4optfluxcore.container.components.UnsuportedVariableException

pt.uminho.ceb.biosystems.reg4optfluxcore.container.interfaces

pt.uminho.ceb.biosystems.reg4optfluxcore.container.interfaces.pt.uminho.ceb.biosystems.reg4optfluxcore.container.interfaces.IContainerIntegratedModelBuilder

pt.uminho.ceb.biosystems.reg4optfluxcore.container.interfaces.pt.uminho.ceb.biosystems.reg4optfluxcore.container.interfaces.IContainerRegulatoryBuilder

pt.uminho.ceb.biosystems.reg4optfluxcore.converters

pt.uminho.ceb.biosystems.reg4optfluxcore.converters.pt.uminho.ceb.biosystems.reg4optfluxcore.converters.IntegratedModelConverter

pt.uminho.ceb.biosystems.reg4optfluxcore.graphs.auxiliar

pt.uminho.ceb.biosystems.reg4optfluxcore.graphs.auxiliar.pt.uminho.ceb.biosystems.reg4optfluxcore.graphs.auxiliar.AbstractSyntaxTreeNodeTools

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.BiomassCofactorsAnalyzer

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.GeneReactionsInteractionsContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.IntegratedNetworkInitialStateContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.LinkedGenesAnalyser

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.components.MetabolicComponentInteractionsContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.IIntegratedStedystateModel

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.IntegratedSteadyStateModel

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.InvalidIntegratedModelException

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.DynamicIntegratedModelOptionsContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.DynamicIntegratedNetworkVariablesContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.DynamicIntegratedSteadyStateModel

pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.integratedmodel.model.dynamic.IDynamicIntegratedSteadyStateModel

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.metabolicandregulatorynetworks

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.metabolicandregulatorynetworks.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.metabolicandregulatorynetworks.FlatFileIntegratedModelReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.metabolicandregulatorynetworks.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.metabolicandregulatorynetworks.SBMLIntegratedModelReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.IRegulatoryNetworkReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.ModDelimiters

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.RegModelAuxiliarStaticMethods

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.RegModelInfoContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.RegModelPreprocessingChecker

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.RegModelTempinformationContainer

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.components.RegulatoryModelFileType

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.AbstractRegulatoryNetworkReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.AbstractColumnBaseRegulatoryNetworkReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.excel

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.excel.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.excel.ExcelRegulatoryNetworkModelReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.text

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.text.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.columnbase.text.CSVRegulatoryNetworkModelReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.sbmlqual

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.sbmlqual.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.sbmlqual.SBMLQualReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.sbmlqual.transitions

pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.sbmlqual.transitions.pt.uminho.ceb.biosystems.reg4optfluxcore.io.readers.regulatorynetwork.formats.sbmlqual.transitions.QualTransitionsReader

pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers

pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.CSVRegulatoryModelExporter

pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.ExportRODDModelToSBMLqual

pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.IRegulatoryModelExporter

pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.RegulatoryModelExportFormat

pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.pt.uminho.ceb.biosystems.reg4optfluxcore.io.writers.SBMLqualRegulatoryModelExporter

pt.uminho.ceb.biosystems.reg4optfluxcore.logicalmodel.converters

pt.uminho.ceb.biosystems.reg4optfluxcore.logicalmodel.converters.pt.uminho.ceb.biosystems.reg4optfluxcore.logicalmodel.converters.AbstractOptfluxRegulatoryModelToLogicalModelConverter

pt.uminho.ceb.biosystems.reg4optfluxcore.logicalmodel.converters.pt.uminho.ceb.biosystems.reg4optfluxcore.logicalmodel.converters.OptfluxRegulatoryModelToBDDLogicalModelConverter

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.GeneExtinfo

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.Regulator

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.RegulatoryModelType

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.RegulatoryRule

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.RegulatoryVariable

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.components.VariableSignValue

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.IRegulatoryNetwork

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.InitialRegulatoryState

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.RegulatoryNetworkFormat

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.bddformat

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.bddformat.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.bddformat.BDDLogicalModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.bddformat.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.bddformat.IRODDRegulatoryModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.IOptfluxRegulatoryModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.OptfluxRegulatoryModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.DynamicRegulatoryBooleanModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.DynamicRegulatoryModelSnapshotContainerMultipleInputRules

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.DynamicRegulatoryModelSnapshotContainerSingleInputRule

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.IDynamicRegulatoryModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.RuleProcessor

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.dynamic.UnsuportedVariableMappingOperationException

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.IRegulatoryDecoder

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.IRegulatoryModelMapper

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.IRegulatoryOverrideModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.OverrideRegulatoryModel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatorynetwork.networkmodel.syntaxtreeformat.mapper.RegulatoryModelMapper

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.excel

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.excel.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.excel.RegAuxExcelResultsWriter

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.excel.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.excel.RegAuxModelReader

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.file

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.file.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.file.RegDirAndFileUtils

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.json

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.json.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.json.RegFieldsJson

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.json.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.json.RegGeneInfoJSONReader

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.pattern

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.pattern.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.pattern.RegPatternUtils

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.string

pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.string.pt.uminho.ceb.biosystems.reg4optfluxcore.regulatoryutils.string.RegStringUtils

pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs

pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs.pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs.ContainerStoichiometricGPRmodel

pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs.pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs.StoichiometricGPRSteadyStateModel

pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs.convert

pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs.convert.pt.uminho.ceb.biosystems.reg4optfluxcore.stoichiometricgprs.convert.SteadyStateGeneModelToStoichGPRConverter

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