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fbergmannfbergmann
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- updated sbgn ml schema
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‎samples/sbgn.xml‎

Lines changed: 32 additions & 9 deletions
Original file line numberDiff line numberDiff line change
@@ -1,9 +1,11 @@
11
<?xml version="1.0" encoding="UTF-8"?>
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<package name="SbgnML" fullname="Systems Biology Graphical Notation - Markup Language" number="100" offset="100000" version="1" required="false">
3-
<language name="SBGN" baseClass="SbgnBase" documentClass="SbgnDocument" prefix="Sbgn" libraryName="libSBGN" annotationElementName="Extension" isPackage="false">
4-
<library_version major="0" minor="1" revision="0"/>
3+
<language name="SBGN" baseClass="SbgnBase" documentClass="SbgnDocument" prefix="Sbgn" libraryName="libSBGN" annotationElementName="Extension" topLevelElementName="Extension" isPackage="false" uses_ASTNode="true" uses_XMLNode="true">
4+
<library_version major="2" minor="0" revision="0"/>
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<language_versions>
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<version level="0" version="3" namespace="http://sbgn.org/libsbgn/0.3"/>
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<version level="0" version="2" namespace="http://sbgn.org/libsbgn/0.2"/>
8+
<version level="0" version="1" namespace="http://sbgn.org/libsbgn/pd/0.1"/>
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</language_versions>
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</language>
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<versions>
@@ -26,31 +28,32 @@
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</element>
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<element name="Label" typeCode="SBGN_SBGNML_LABEL" hasListOf="false" hasChildren="false" hasMath="false" childrenOverwriteElementName="false" abstract="false" elementName="label">
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<attributes>
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<attribute name="id" required="false" type="ID" abstract="false"/>
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<attribute name="id" required="false" type="SId" abstract="false"/>
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<attribute name="text" required="true" type="string" abstract="false"/>
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<attribute name="bbox" required="false" type="element" element="BBox" abstract="false"/>
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</attributes>
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</element>
34-
<element name="Map" typeCode="SBGN_SBGNML_MAP" hasListOf="false" hasChildren="false" hasMath="false" childrenOverwriteElementName="false" abstract="false" elementName="map" additionalDecls="sbgn_map.h.txt" additionalDefs="sbgn_map.cpp.txt">
36+
<element name="Map" typeCode="SBGN_SBGNML_MAP" hasListOf="true" hasChildren="false" hasMath="false" childrenOverwriteElementName="false" minNumListOfChildren="1" maxNumListOfChildren="0" abstract="false" elementName="map" additionalDecls="sbgn_map.h.txt" additionalDefs="sbgn_map.cpp.txt">
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<attributes>
36-
<attribute name="id" required="false" type="ID" abstract="false"/>
37-
<attribute name="language" required="true" type="enum" element="Language" abstract="false"/>
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<attribute name="id" required="true" type="ID" abstract="false"/>
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<attribute name="language" required="false" type="enum" element="Language" abstract="false"/>
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<attribute name="bbox" required="false" type="element" element="BBox" abstract="false"/>
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<attribute name="glyph" required="false" type="inline_lo_element" element="Glyph" abstract="false"/>
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<attribute name="arc" required="false" type="inline_lo_element" element="Arc" abstract="false"/>
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<attribute name="arcgroup" required="false" type="inline_lo_element" element="ArcGroup" abstract="false"/>
44+
<attribute name="version" required="false" type="enum" element="MapType" abstract="false"/>
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</attributes>
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</element>
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<element name="Document" typeCode="SBGN_SBGNML_DOCUMENT" hasListOf="false" hasChildren="false" hasMath="false" childrenOverwriteElementName="false" abstract="false" elementName="sbgn">
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<attributes>
46-
<attribute name="map" required="true" type="element" element="Map" abstract="false"/>
49+
<attribute name="map" required="true" type="inline_lo_element" element="Map" abstract="false"/>
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</attributes>
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</element>
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<element name="Glyph" typeCode="SBGN_SBGNML_GLYPH" hasListOf="true" hasChildren="false" hasMath="false" childrenOverwriteElementName="true" minNumListOfChildren="0" maxNumListOfChildren="0" abstract="false" elementName="glyph">
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<attributes>
51-
<attribute name="id" required="true" type="ID" abstract="false"/>
54+
<attribute name="id" required="true" type="SId" abstract="false"/>
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<attribute name="clazz" required="true" type="string" xmlName="class" abstract="false"/>
53-
<attribute name="compartmentRef" required="false" type="IDREF" element="Glyph" abstract="false"/>
56+
<attribute name="compartmentRef" required="false" type="SIdRef" element="Glyph" abstract="false"/>
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<attribute name="compartmentOrder" required="false" type="double" abstract="false"/>
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<attribute name="orientation" required="false" type="enum" element="Orientation" abstract="false"/>
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<attribute name="label" required="false" type="element" element="Label" abstract="false"/>
@@ -61,6 +64,8 @@
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<attribute name="bbox" required="true" type="element" element="BBox" abstract="false"/>
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<attribute name="glyph" required="false" type="inline_lo_element" element="Glyph" xmlName="glyph" abstract="false"/>
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<attribute name="port" required="false" type="inline_lo_element" element="Port" xmlName="port" abstract="false"/>
67+
<attribute name="mapRef" required="false" type="SIdRef" element="Map" abstract="false"/>
68+
<attribute name="tagRef" required="false" type="SIdRef" element="Glyph" abstract="false"/>
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</attributes>
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</element>
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<element name="Port" typeCode="SBGN_SBGNML_PORT" hasListOf="true" hasChildren="false" hasMath="false" childrenOverwriteElementName="false" minNumListOfChildren="0" maxNumListOfChildren="0" abstract="false" elementName="port">
@@ -177,13 +182,31 @@
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<enumValue name="SBGNML_ENTITYTYPE_MACROMOLECULE" value="macromolecule"/>
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<enumValue name="SBGNML_ENTITYTYPE_NUCLEIC_ACID_FEATURE" value="nucleic acid feature"/>
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<enumValue name="SBGNML_ENTITYTYPE_COMPLEX" value="complex"/>
185+
<enumValue name="SBGNML_ENTITYTYPE_PERTURBATION" value="perturbation"/>
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</enumValues>
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</enum>
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<enum name="ArcGroupType">
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<enumValues>
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<enumValue name="SBGNML_ARCGROUPTYPE_INTERACTION" value="interaction"/>
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</enumValues>
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</enum>
193+
<enum name="MapType">
194+
<enumValues>
195+
<enumValue name="SBGNML_MAPTYPE_PD_L1_V1_3" value="http://identifiers.org/combine.specifications/sbgn.pd.level-1.version-1.3"/>
196+
<enumValue name="SBGNML_MAPTYPE_PD_L1_V1_2" value="http://identifiers.org/combine.specifications/sbgn.pd.level-1.version-1.2"/>
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<enumValue name="SBGNML_MAPTYPE_PD_L1_V1_1" value="http://identifiers.org/combine.specifications/sbgn.pd.level-1.version-1.1"/>
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<enumValue name="SBGNML_MAPTYPE_PD_L1_V1_0" value="http://identifiers.org/combine.specifications/sbgn.pd.level-1.version-1.0"/>
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<enumValue name="SBGNML_MAPTYPE_PD_L1_V1" value="http://identifiers.org/combine.specifications/sbgn.pd.level-1.version-1"/>
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<enumValue name="SBGNML_MAPTYPE_ER_L1_V2" value="http://identifiers.org/combine.specifications/sbgn.er.level-1.version-2"/>
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<enumValue name="SBGNML_MAPTYPE_ER_L1_V1_2" value="http://identifiers.org/combine.specifications/sbgn.er.level-1.version-1.2"/>
202+
<enumValue name="SBGNML_MAPTYPE_ER_L1_V1_1" value="http://identifiers.org/combine.specifications/sbgn.er.level-1.version-1.1"/>
203+
<enumValue name="SBGNML_MAPTYPE_ER_L1_V1_0" value="http://identifiers.org/combine.specifications/sbgn.er.level-1.version-1.0"/>
204+
<enumValue name="SBGNML_MAPTYPE_ER_L1_V1" value="http://identifiers.org/combine.specifications/sbgn.er.level-1.version-1"/>
205+
<enumValue name="SBGNML_MAPTYPE_AF_L1_V1_2" value="http://identifiers.org/combine.specifications/sbgn.af.level-1.version-1.2"/>
206+
<enumValue name="SBGNML_MAPTYPE_AF_L1_V1_0" value="http://identifiers.org/combine.specifications/sbgn.af.level-1.version-1.0"/>
207+
<enumValue name="SBGNML_MAPTYPE_AF_L1_V1" value="http://identifiers.org/combine.specifications/sbgn.af.level-1.version-1"/>
208+
</enumValues>
209+
</enum>
187210
</enums>
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</pkgVersion>
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</versions>

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