Constant Field Values

Contents

• org.cy3sbml.*

org.cy3sbml.*

org.cy3sbml.CyActivator

Modifier and Type	Constant Field	Value
public static final String	PROPERTIES_FILE	"cy3sbml.props"

org.cy3sbml.IdentifiersConstants

Modifier and Type	Constant Field	Value
public static final String	OLS_BASE_URL	"https://www.ebi.ac.uk/ols4/ontologies/"

org.cy3sbml.ResourceExtractor

Modifier and Type	Constant Field	Value
public static final String	GUI_RESOURCES	"/gui/"

org.cy3sbml.SBML

Modifier and Type	Constant Field	Value
public static final String	ATTR_ARCHIVE	"archive"
public static final String	ATTR_AREA_UNITS	"areaUnits"
public static final String	ATTR_BOUNDARY_CONDITION	"boundaryCondition"
public static final String	ATTR_CHARGE	"sbml charge"
public static final String	ATTR_COFACTOR_CLONE	"cofactorClone"
public static final String	ATTR_COMP_CONVERSION_FACTOR	"comp_conversionFactor"
public static final String	ATTR_COMP_DELETION	"comp_deletion"
public static final String	ATTR_COMP_EXTENT_CONVERSION_FACTOR	"comp_extentConversionFactor"
public static final String	ATTR_COMP_IDREF	"comp_idRef"
public static final String	ATTR_COMP_METAIDREF	"comp_metaIdRef"
public static final String	ATTR_COMP_MODELREF	"comp_modelRef"
public static final String	ATTR_COMP_PORTREF	"comp_portRef"
public static final String	ATTR_COMP_RESOLUTION	"comp_resolution"
public static final String	ATTR_COMP_SBASEREF	"comp_sBaseRef"
public static final String	ATTR_COMP_SUBMODELREF	"comp_submodelRef"
public static final String	ATTR_COMP_TARGET_ID	"comp_targetId"
public static final String	ATTR_COMP_TARGET_METAID	"comp_targetMetaId"
public static final String	ATTR_COMP_TARGET_MODEL	"comp_targetModel"
public static final String	ATTR_COMP_TARGET_TYPE	"comp_targetType"
public static final String	ATTR_COMP_TIME_CONVERSION_FACTOR	"comp_timeConversionFactor"
public static final String	ATTR_COMP_UNITREF	"comp_unitRef"
public static final String	ATTR_COMPARTMENT	"sbml compartment"
public static final String	ATTR_COMPARTMENT_CODE	"compartmentCode"
public static final String	ATTR_CONSTANT	"constant"
public static final String	ATTR_CONVERSION_FACTOR	"conversionFactor"
public static final String	ATTR_CYID	"cyId"
public static final String	ATTR_DERIVED_UNITS	"derivedUnits"
public static final String	ATTR_DISTRIB_UNCERTAINTY	"distrib_uncertainty"
public static final String	ATTR_DISTRIB_UNCERTAINTY_COUNT	"distrib_uncertaintyCount"
public static final String	ATTR_EQUATION	"equation"
public static final String	ATTR_EXTENT_UNITS	"extentUnits"
public static final String	ATTR_FAST	"fast"
public static final String	ATTR_FBC_CHARGE	"fbc_charge"
public static final String	ATTR_FBC_CHEMICAL_FORMULA	"fbc_chemicalFormula"
public static final String	ATTR_FBC_COEFFICIENT	"fbc_coefficient"
public static final String	ATTR_FBC_LOWER_BOUND	"fbc_lowerBound"
public static final String	ATTR_FBC_LOWER_FLUX_BOUND	"fbc_lowerFluxBound"
public static final String	ATTR_FBC_OBJECTIVE_TEMPLATE	"fbc_objective-%1$s"
public static final String	ATTR_FBC_OBJECTIVE_VARIABLE_TYPE_TEMPLATE	"fbc_objective-%1$s_variableType"
public static final String	ATTR_FBC_STRICT	"fbc_strict"
public static final String	ATTR_FBC_UPPER_BOUND	"fbc_upperBound"
public static final String	ATTR_FBC_UPPER_FLUX_BOUND	"fbc_upperFluxBound"
public static final String	ATTR_FBC_VARIABLE_TYPE	"fbc_variableType"
public static final String	ATTR_HAS_ONLY_SUBSTANCE_UNITS	"hasOnlySubstanceUnits"
public static final String	ATTR_ID	"sbml id"
public static final String	ATTR_INITIAL_AMOUNT	"sbml initial amount"
public static final String	ATTR_INITIAL_ASSIGNMENT	"initialAssignment"
public static final String	ATTR_INITIAL_CONCENTRATION	"sbml initial concentration"
public static final String	ATTR_KINETIC_LAW	"kineticLaw"
public static final String	ATTR_LAYOUT_GLYPH	"layout_glyph"
public static final String	ATTR_LAYOUT_GLYPH_TYPE	"layout_glyphType"
public static final String	ATTR_LAYOUT_HEIGHT	"layout_height"
public static final String	ATTR_LAYOUT_ID	"layout_id"
public static final String	ATTR_LAYOUT_ROLE	"layout_role"
public static final String	ATTR_LAYOUT_WIDTH	"layout_width"
public static final String	ATTR_LAYOUT_X	"layout_x"
public static final String	ATTR_LAYOUT_Y	"layout_y"
public static final String	ATTR_LENGTH_UNITS	"lengthUnits"
public static final String	ATTR_MATH	"math"
public static final String	ATTR_MESSAGE	"message"
public static final String	ATTR_METAID	"metaId"
public static final String	ATTR_NAME	"shared name"
public static final String	ATTR_PORT_SID	"portSid"
public static final String	ATTR_QUAL_INITIAL_LEVEL	"qual_initialLevel"
public static final String	ATTR_QUAL_MAX_LEVEL	"qual_maxLevel"
public static final String	ATTR_QUAL_OUTPUT_LEVEL	"qual_outputLevel"
public static final String	ATTR_QUAL_QUALITATIVE_SPECIES	"qual_qualitativeSpecies"
public static final String	ATTR_QUAL_RESULT_LEVELS	"qual_resultLevels"
public static final String	ATTR_QUAL_SIGN	"qual_sign"
public static final String	ATTR_QUAL_THRESHOLD_LEVEL	"qual_tresholdLevel"
public static final String	ATTR_QUAL_TRANSITION_EFFECT	"qual_transitionEffect"
public static final String	ATTR_REVERSIBLE	"reversible"
public static final String	ATTR_SBOTERM	"sbo"
public static final String	ATTR_SIZE	"size"
public static final String	ATTR_SPATIAL_DIMENSIONS	"spatialDimensions"
public static final String	ATTR_STOICHIOMETRY	"stoichiometry"
public static final String	ATTR_SUBSTANCE_UNITS	"substanceUnits"
public static final String	ATTR_TIME_UNITS	"timeUnits"
public static final String	ATTR_UNIT_EXPONENT	"exponent"
public static final String	ATTR_UNIT_KIND	"kind"
public static final String	ATTR_UNIT_MULTIPLIER	"multiplier"
public static final String	ATTR_UNIT_SCALE	"scale"
public static final String	ATTR_UNIT_SID	"unitSid"
public static final String	ATTR_UNITS	"units"
public static final String	ATTR_USE_VALUES_FROM_TRIGGER_TIME	"useValuesFromTriggerTime"
public static final String	ATTR_VALUE	"value"
public static final String	ATTR_VARIABLE	"variable"
public static final String	ATTR_VOLUME_UNITS	"volumeUnits"
public static final String	COMP_RESOLVED	"resolved"
public static final String	INTERACTION_ATTR	"interaction type"
public static final String	INTERACTION_ATTR_EXTENDED	"shared interaction"
public static final String	INTERACTION_COMP_SBASE_DELETION	"sbase-deletion"
public static final String	INTERACTION_COMP_SBASE_REPLACED_BY	"sbase-replacedBy"
public static final String	INTERACTION_COMP_SBASE_REPLACED_ELEMENT	"sbase-replacedElement"
public static final String	INTERACTION_COMP_SBASEREF_ID	"sbaseRef-id"
public static final String	INTERACTION_COMP_SBASEREF_METAID	"sbaseRef-metaId"
public static final String	INTERACTION_COMP_SBASEREF_PORT	"sbaseRef-port"
public static final String	INTERACTION_COMP_SBASEREF_SUBMODEL	"sbaseRef-submodel"
public static final String	INTERACTION_COMP_SBASEREF_UNIT	"sbaseRef-unit"
public static final String	INTERACTION_DELAY_EVENT	"delay_event"
public static final String	INTERACTION_EVENT_EVENT_ASSIGNMENT	"reference_eventAssignment"
public static final String	INTERACTION_FBC_ASSOCIATION_ASSOCIATION	"association_association"
public static final String	INTERACTION_FBC_ASSOCIATION_REACTION	"association_reaction"
public static final String	INTERACTION_FBC_GENEPRODUCT_SPECIES	"species_geneProduct"
public static final String	INTERACTION_FBC_PARAMETER_USER_DEFINED_CONSTRAINT	"parameter_userDefinedConstraint"
public static final String	INTERACTION_FBC_VARIABLE_USER_DEFINED_CONSTRAINT	"variable_userDefinedConstraint"
public static final String	INTERACTION_LAYOUT_REFERENCE	"layout:reference"
public static final String	INTERACTION_LOCALPARAMETER_KINETICLAW	"localParameter_kineticLaw"
public static final String	INTERACTION_PARAMETER_REACTION	"parameter_reaction"
public static final String	INTERACTION_PRIORITY_EVENT	"priority_event"
public static final String	INTERACTION_QUAL_TRANSITION_INPUT	"input_transition"
public static final String	INTERACTION_QUAL_TRANSITION_OUTPUT	"transition_output"
public static final String	INTERACTION_REACTION_ACTIVATOR	"reaction-activator"
public static final String	INTERACTION_REACTION_COMPARTMENT	"reaction_compartment"
public static final String	INTERACTION_REACTION_INHIBITOR	"reaction-inhibitor"
public static final String	INTERACTION_REACTION_KINETICLAW	"reaction_kineticLaw"
public static final String	INTERACTION_REACTION_MODIFIER	"reaction-modifier"
public static final String	INTERACTION_REACTION_PRODUCT	"reaction-product"
public static final String	INTERACTION_REACTION_REACTANT	"reaction-reactant"
public static final String	INTERACTION_REFERENCE_EVENT_ASSIGNMENT	"reference_eventAssignment"
public static final String	INTERACTION_REFERENCE_FUNCTIONDEFINITION	"reference_functionDefinition"
public static final String	INTERACTION_REFERENCE_INITIAL_ASSIGNMENT	"reference_initialAssignment"
public static final String	INTERACTION_REFERENCE_KINETICLAW	"reference_kineticLaw"
public static final String	INTERACTION_REFERENCE_RULE	"reference_rule"
public static final String	INTERACTION_SBASE_UNITDEFINITION	"sbase_unitDefinition"
public static final String	INTERACTION_SPECIES_COMPARTMENT	"species_compartment"
public static final String	INTERACTION_TRIGGER_EVENT	"trigger_event"
public static final String	INTERACTION_UNIT_UNITDEFINITION	"unit_unitDefinition"
public static final String	INTERACTION_VARIABLE_EVENT_ASSIGNMENT	"variable_eventAssignment"
public static final String	INTERACTION_VARIABLE_INITIAL_ASSIGNMENT	"variable_initialAssignment"
public static final String	INTERACTION_VARIABLE_RULE	"variable_rule"
public static final String	LABEL	"label"
public static final String	LEVEL_VERSION	"sbmlVersion"
public static final String	NETWORKTYPE_ATTR	"sbmlNetwork"
public static final String	NETWORKTYPE_LAYOUT	"sbmlLayout"
public static final String	NETWORKTYPE_SBML	"sbml"
public static final String	NODETYPE_ALGEBRAIC_RULE	"algebraicRule"
public static final String	NODETYPE_ASSIGNMENT_RULE	"assignmentRule"
public static final String	NODETYPE_ATTR	"sbml type"
public static final String	NODETYPE_ATTR_EXTENDED	"sbml type ext"
public static final String	NODETYPE_COMP_DELETION	"comp_deletion"
public static final String	NODETYPE_COMP_PORT	"comp_port"
public static final String	NODETYPE_COMP_REPLACED_BY	"comp_replacedBy"
public static final String	NODETYPE_COMP_REPLACED_ELEMENT	"comp_replacedElement"
public static final String	NODETYPE_COMP_SUBMODEL	"comp_submodel"
public static final String	NODETYPE_COMPARTMENT	"compartment"
public static final String	NODETYPE_CONSTRAINT	"constraint"
public static final String	NODETYPE_EVENT	"event"
public static final String	NODETYPE_EVENT_ASSIGNMENT	"eventAssignment"
public static final String	NODETYPE_FBC_AND	"fbc_and"
public static final String	NODETYPE_FBC_GENEPRODUCT	"fbc_geneProduct"
public static final String	NODETYPE_FBC_OR	"fbc_or"
public static final String	NODETYPE_FBC_USER_DEFINED_CONSTRAINT	"fbc_userDefinedConstraint"
public static final String	NODETYPE_FUNCTION_DEFINITION	"functionDefinition"
public static final String	NODETYPE_GROUP	"group"
public static final String	NODETYPE_INITIAL_ASSIGNMENT	"initialAssignment"
public static final String	NODETYPE_KINETIC_LAW	"kineticLaw"
public static final String	NODETYPE_LAYOUT_COMPARTMENTGLYPH	"layout:compartmentGlyph"
public static final String	NODETYPE_LAYOUT_GENERALGLYPH	"layout:generalGlyph"
public static final String	NODETYPE_LAYOUT_GENERATED	"layout:generated"
public static final String	NODETYPE_LAYOUT_GRAPHICALOBJECT	"layout:graphicalObject"
public static final String	NODETYPE_LAYOUT_REACTIONGLYPH	"layout:reactionGlyph"
public static final String	NODETYPE_LAYOUT_SPECIESGLYPH	"layout:speciesGlyph"
public static final String	NODETYPE_LOCAL_PARAMETER	"localParameter"
public static final String	NODETYPE_PARAMETER	"parameter"
public static final String	NODETYPE_QUAL_SPECIES	"qual_species"
public static final String	NODETYPE_QUAL_TRANSITION	"qual_transition"
public static final String	NODETYPE_RATE_RULE	"rateRule"
public static final String	NODETYPE_REACTION	"reaction"
public static final String	NODETYPE_REACTION_IRREVERSIBLE	"reaction irreversible"
public static final String	NODETYPE_REACTION_REVERSIBLE	"reaction reversible"
public static final String	NODETYPE_SPECIES	"species"
public static final String	NODETYPE_UNIT	"unit"
public static final String	NODETYPE_UNIT_DEFINITION	"unitDefinition"
public static final String	PREFIX_NETWORK_FLAT	"Flat"
public static final String	PROPERTY_VISUAL_STYLE	"cy3sbml.visualStyle"
public static final String	SBML_LAYOUT	"force-directed"
public static final String	STYLE_CY3SBML	"cy3sbml"
public static final String	STYLE_CY3SBML_DARK	"cy3sbml-dark"
public static final String	STYLE_SUFFIX_LAYOUT	"-layout"
public static final String	SUBNETWORK_ALL	"all"
public static final String	SUBNETWORK_ATTR	"sbmlSubnetwork"
public static final String	SUBNETWORK_BASE	"base"
public static final String	SUBNETWORK_KINETIC	"kinetic"
public static final String	SUBNETWORK_LAYOUT	"layout"
public static final String	SUFFIX_SUBNETWORK_ALL	"__all"
public static final String	SUFFIX_SUBNETWORK_BASE	""
public static final String	SUFFIX_SUBNETWORK_KINETIC	"__kinetic"
public static final String	SUFFIX_SUBNETWORK_LAYOUT	"__layout_"

org.cy3sbml.SBMLCore

Modifier and Type	Constant Field	Value
public static final String	INTERACTION_TYPE_ATTR	"interaction type"
public static final String	INTERACTION_TYPE_REACTION_MODIFIER	"reaction-modifier"
public static final String	INTERACTION_TYPE_REACTION_PRODUCT	"reaction-product"
public static final String	INTERACTION_TYPE_REACTION_REACTANT	"reaction-reactant"
public static final String	KINETIC_LAW_ATTR_TEMPLATE	"kineticLaw-%1$s"
public static final String	KINETIC_LAW_UNITS_ATTR_TEMPLATE	"kineticLaw-%1$s-units"
public static final String	NODE_NAME_ATTR_LABEL	"name"
public static final String	SBML_CHARGE_ATTR	"sbml charge"
public static final String	SBML_COMPARTMENT_ATTR	"sbml compartment"
public static final String	SBML_ID_ATTR	"sbml id"
public static final String	SBML_INITIAL_AMOUNT_ATTR	"sbml initial amount"
public static final String	SBML_INITIAL_CONCENTRATION_ATTR	"sbml initial concentration"
public static final String	SBML_TYPE_ATTR	"sbml type"
public static final String	SBML_TYPE_REACTION	"reaction"
public static final String	SBML_TYPE_SPECIES	"species"

org.cy3sbml.biomodel.Biomodel

Modifier and Type	Constant Field	Value
public static final String	ACCESSION	"accession"
public static final String	AUTHORS	"authors"
public static final String	DESCRIPTION	"description"
public static final String	NAME	"name"
public static final String	PUBLICATION	"publication"
public static final String	PUBLICATION_ID	"publicationId"
public static final String	SUBMISSION_ID	"submissionId"

org.cy3sbml.biomodel.BiomodelLoader

Modifier and Type	Constant Field	Value
public static final String	SUFFIX	".xml"

org.cy3sbml.biomodel.BiomodelsQuery

Modifier and Type	Constant Field	Value
public static final int	MAX_RESULTS	1000

org.cy3sbml.biomodel.SearchContent

Modifier and Type	Constant Field	Value
public static final String	CONNECT_AND	"AND"
public static final String	CONNECT_OR	"OR"
public static final String	CONTENT_MODE	"MODE"
public static final String	CONTENT_NAME	"NAME"
public static final String	PARSED_IDS	"PARSED IDS"

org.cy3sbml.commands.Commands

Modifier and Type	Constant Field	Value
public static final String	NAMESPACE	"cy3sbml"

org.cy3sbml.gui.BrowserHyperlinkListener

Modifier and Type	Constant Field	Value
public static final String	URL_BIOMODELS	"https://cy3sbml-biomodels"
public static final String	URL_CHANGESTATE	"https://cy3sbml-changestate"
public static final String	URL_COFACTOR_MERGE	"https://cy3sbml-cofactor-merge"
public static final String	URL_COFACTOR_SPLIT	"https://cy3sbml-cofactor-split"
public static final String	URL_EXAMPLES	"https://cy3sbml-examples"
public static final String	URL_HELP	"https://cy3sbml-help"
public static final String	URL_HTML_SBASE	"http://html-sbase"
public static final String	URL_IMPORT	"https://cy3sbml-import"
public static final String	URL_LOADLAYOUT	"https://cy3sbml-layoutload"
public static final String	URL_SAVELAYOUT	"https://cy3sbml-layoutsave"
public static final String	URL_SBMLFILE	"http://sbml-file"
public static final String	URL_SELECT_ID	"http://select-id/"
public static final String	URL_SELECT_METAID	"http://select-metaid/"
public static final String	URL_SELECT_TARGET	"http://select-target/"

org.cy3sbml.gui.GUIConstants

Modifier and Type	Constant Field	Value
public static final String	DESCRIPTION_BIOMODELS	"BioModels Import"
public static final String	DESCRIPTION_CHANGESTATE	"Hide|show panel"
public static final String	DESCRIPTION_COFACTOR_MERGE	"Merge cofactor nodes"
public static final String	DESCRIPTION_COFACTOR_SPLIT	"Split cofactor nodes"
public static final String	DESCRIPTION_EXAMPLES	"SBML examples"
public static final String	DESCRIPTION_HELP	"Help"
public static final String	DESCRIPTION_IMPORT	"Import SBML"
public static final String	DESCRIPTION_LOADLAYOUT	"Load Layout"
public static final String	DESCRIPTION_SAVELAYOUT	"Save Layout"
public static final float	GRAVITY_BIOMODELS	110.0f
public static final float	GRAVITY_CHANGESTATE	100.0f
public static final float	GRAVITY_COFACTOR_MERGE	113.5f
public static final float	GRAVITY_COFACTOR_SPLIT	113.0f
public static final float	GRAVITY_EXAMPLES	106.0f
public static final float	GRAVITY_HELP	112.0f
public static final float	GRAVITY_IMPORT	101.0f
public static final float	GRAVITY_LOADLAYOUT	114.0f
public static final float	GRAVITY_SAVELAYOUT	120.0f
public static final String	HTML_EXAMPLE_RESOURCE	"/gui/examples.html"
public static final String	HTML_HELP_RESOURCE	"/gui/help.html"
public static final String	ICON_BIOMODELS	"/gui/images/biomodels.png"
public static final String	ICON_BIOMODELS_DEPRECATED	"/gui/images/biomodels_deprecated.png"
public static final String	ICON_CHANGESTATE	"/gui/images/changestate.png"
public static final String	ICON_COFACTOR_MERGE	"/gui/images/cofactor-merge.png"
public static final String	ICON_COFACTOR_SPLIT	"/gui/images/cofactor-split.png"
public static final String	ICON_CY3SBML	"/gui/images/logos/cy3sbml_icon.png"
public static final String	ICON_EXAMPLES	"/gui/images/examples.png"
public static final String	ICON_HELP	"/gui/images/help.png"
public static final String	ICON_IMPORT	"/gui/images/import.png"
public static final String	ICON_LOADLAYOUT	"/gui/images/layout-load.png"
public static final String	ICON_SAVELAYOUT	"/gui/images/layout-save.png"
public static final String	LOGO_BIOMODELS	"/gui/images/logos/biomodels_logo.png"

org.cy3sbml.gui.SBaseHTMLFactory

Modifier and Type	Constant Field	Value
public static final String	CY3SBML	"cy3sbml"
public static final String	delim	"/"
public static final String	FILENAME_NAMESPACE	"identifiersOrgNamespace.txt"
public static final transient String	IDENTIFIERS_BASE	"https://identifiers.org/"
public static final String	SBO	"SBO"

org.cy3sbml.layout.XMLInterface

Modifier and Type	Constant Field	Value
public static final String	BOX	"boundingBox"
public static final String	BOX_CYID	"cyId"
public static final String	BOX_GLYPH	"glyph"
public static final String	BOX_HEIGHT	"height"
public static final String	BOX_ID	"id"
public static final String	BOX_LIST	"listOfBoundingBoxes"
public static final String	BOX_WIDTH	"width"
public static final String	BOX_X	"xpos"
public static final String	BOX_Y	"ypos"
public static final String	LAYOUT	"layout"

org.cy3sbml.miriam.Fields

Modifier and Type	Constant Field	Value
public static final String	AUTH_HELP_DESCRIPTION	"authHelpDescription"
public static final String	AUTH_HELP_URL	"authHelpUrl"
public static final String	CREATED	"created"
public static final String	DEPRECATED	"deprecated"
public static final String	DEPRECATION_DATE	"deprecationDate"
public static final String	DEPRECATION_OFFLINE_DATE	"deprecationOfflineDate"
public static final String	DEPRECATION_STATEMENT	"deprecationStatement"
public static final String	DESCRIPTION	"description"
public static final String	ID	"id"
public static final String	ID1	"mirId"
public static final String	ID2	"sampleId"
public static final String	INSTITUTION	"institution"
public static final String	LOCATION	"location"
public static final String	MIR_ID	"mirId"
public static final String	MODIFIED	"modified"
public static final String	NAME	"name"
public static final String	NAMESPACE_EMBEDDED_IN_LUI	"namespaceEmbeddedInLui"
public static final String	NAMESPACES	"namespaces"
public static final String	NO_DESCRIPTION_AVAILABLE	"No description available"
public static final String	OFFICIAL	"official"
public static final String	PATTERN	"pattern"
public static final String	PREFIX	"prefix"
public static final String	PROTECTED_URLS	"protectedUrls"
public static final String	PROVIDER_CODE	"providerCode"
public static final String	RENDER_DEPRECATED_LANDING	"renderDeprecatedLanding"
public static final String	RENDER_PROTECTED_LANDING	"renderProtectedLanding"
public static final String	RESOURCE_HOME_URL	"resourceHomeUrl"
public static final String	RESOURCES	"resources"
public static final String	SAMPLE_ID	"sampleId"
public static final String	TRUE	"true"
public static final String	URL_PATTERN	"urlPattern"

org.cy3sbml.miriam.RegistryUtil

Modifier and Type	Constant Field	Value
public static final String	NAMESPACES	"namespaces"
public static final String	PAYLOAD	"payload"
public static final String	PREFIX	"prefix"
public static final String	URL_MIRIAM_JSON	"https://registry.api.identifiers.org/resolutionApi/getResolverDataset"

org.cy3sbml.styles.StyleInfo_cy3sbml

Modifier and Type	Constant Field	Value
public static final String	NAME	"cy3sbml"
public static final String	TEMPLATE	"/styles/template_cy3sbml.xml"

org.cy3sbml.styles.StyleInfo_cy3sbmlDark

Modifier and Type	Constant Field	Value
public static final String	NAME	"cy3sbml-dark"
public static final String	TEMPLATE	"/styles/template_cy3sbml-dark.xml"

org.cy3sbml.uniprot.UniprotHTMLFields

Modifier and Type	Constant Field	Value
public static final String	ACCESSION	"{ACCESSION}"
public static final String	BASE_URL	"{BASE_URL}"
public static final String	CATALYTIC_ACTIVITY	"CATALYTIC_ACTIVITY"
public static final String	COMMENT_TEXT	"{COMMENT_TEXT}"
public static final String	FUNCTION_COMMENT	"FUNCTION_COMMENT"
public static final String	PATHWAY	"PATHWAY"
public static final String	PATHWAY_NAME	"{PATHWAY_NAME}"
public static final String	REACTION_NAME	"{REACTION_NAME}"
public static final String	UNIPROT_ID	"{UNIPROT_ID}"
public static final String	UNIPROT_LINK	"UNIPROT_LINK"
public static final String	UNIPROT_URL	"https://www.uniprot.org/uniprot"

org.cy3sbml.util.MappingUtil

Modifier and Type	Constant Field	Value
public static final String	PREFIX_ALGEBRAIC_RULE	"algebraicRule_"
public static final String	PREFIX_CONSTRAINT	"constraint_"
public static final String	PREFIX_EVENT	"event_"
public static final String	PREFIX_EVENT_ASSIGNMENT	"event_"
public static final String	PREFIX_INITIAL_ASSIGNMENT	"assignment_"
public static final String	PREFIX_KINETIC_LAW	"law_"
public static final String	PREFIX_RULE	"rule_"
public static final String	PREFIX_UNITSID	"UnitSId__"
public static final String	SEPARATOR	"_"

org.cy3sbml.util.SBMLUtil

Modifier and Type	Constant Field	Value
public static final String	ATTR_CHARGE	"charge"
public static final String	ATTR_COMPARTMENT	"compartment"
public static final String	ATTR_INITIAL_AMOUNT	"amount"
public static final String	ATTR_INITIAL_CONCENTRATION	"initialConcentration"
public static final String	TEMPLATE_ALGEBRAIC_RULE	"<~>"
public static final String	TEMPLATE_ASSIGNMENT_RULE	"<%s>"
public static final String	TEMPLATE_RATE_RULE	"<d/dt %s>"