XML Schema Documentation

Table of Contents

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Schema Document Properties

Target Namespace http://pathvisio.org/GPML/2013a
Element and Attribute Namespaces
  • Global element and attribute declarations belong to this schema's target namespace.
  • By default, local element declarations belong to this schema's target namespace.
  • By default, local attribute declarations have no namespace.

Declared Namespaces

Prefix Namespace
xml http://www.w3.org/XML/1998/namespace
gpml http://pathvisio.org/GPML/2013a
xsd http://www.w3.org/2001/XMLSchema
Schema Component Representation
<xsd:schema targetNamespace="http://pathvisio.org/GPML/2013a" elementFormDefault="qualified">
...
</xsd:schema>
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Global Declarations

Element: Biopax

Name Biopax
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:Biopax>
Allow any elements from the following namespace(s): http://www.biopax.org/release/biopax-level3.owl# (skip validation). [0..*]
</gpml:Biopax>
Schema Component Representation
<xsd:element name="Biopax">
<xsd:complexType>
<xsd:sequence>
<xsd:any namespace="http://www.biopax.org/release/biopax-level3.owl#" processContents="skip" minOccurs="0" maxOccurs="unbounded"/>
</xsd:sequence>
</xsd:complexType>
</xsd:element>
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Element: DataNode

Name DataNode
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:DataNode
BiopaxRef="xsd:string [0..1]"
GraphId="xsd:ID [0..1]"
GroupRef="xsd:string [0..1]"
TextLabel="xsd:string [1]"
Type="xsd:string [0..1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
<gpml:Graphics
CenterX="xsd:float [1]"
CenterY="xsd:float [1]"
Width="gpml:Dimension [1]"
Height="gpml:Dimension [1]"
FontName="xsd:string [0..1]"
FontStyle="xsd:string (value comes from list: {'Normal'|'Italic'}) [0..1]"
FontDecoration="xsd:string (value comes from list: {'Normal'|'Underline'}) [0..1]"
FontStrikethru="xsd:string (value comes from list: {'Normal'|'Strikethru'}) [0..1]"
FontWeight="xsd:string (value comes from list: {'Normal'|'Bold'}) [0..1]"
FontSize="xsd:nonNegativeInteger [0..1]"
Align="xsd:string (value comes from list: {'Left'|'Center'|'Right'}) [0..1]"
Valign="xsd:string (value comes from list: {'Top'|'Middle'|'Bottom'}) [0..1]"
Color="gpml:ColorType [0..1]"
LineStyle="gpml:StyleType [0..1]"
LineThickness="xsd:float [0..1]"
FillColor="gpml:ColorType [0..1]"
ShapeType="xsd:string [0..1]"
ZOrder="xsd:integer [0..1]"/> [1]
<gpml:Xref
Database="xsd:string [1]"
ID="xsd:string [1]"/> [1]
</gpml:DataNode>
Schema Component Representation
<xsd:element name="DataNode">
<-- DataNode is the old GeneProduct, a gene in GenMAPP terminology. -->
<xsd:complexType>
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
<xsd:element name="Graphics" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:attributeGroup ref="gpml:RectAttributes"/>
<xsd:attributeGroup ref="gpml:FontAttributes"/>
<xsd:attributeGroup ref="gpml:ShapeStyleAttributes"/>
<xsd:attribute name="FillColor" type="gpml:ColorType" default="White"/>
<xsd:attribute name="ShapeType" type="xsd:string" default="Rectangle"/>
<xsd:attribute name="ZOrder" type="xsd:integer" use="optional"/>
</xsd:complexType>
</xsd:element>
<xsd:element name="Xref" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:attribute name="Database" type="xsd:string" use="required"/>
<xsd:attribute name="ID" type="xsd:string" use="required"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="GroupRef" type="xsd:string" use="optional"/>
<xsd:attribute name="TextLabel" type="xsd:string" use="required"/>
<xsd:attribute name="Type" type="xsd:string" default="Unknown">
<-- Old versions of GPML only allowed these values for Type: "Protein", "Rna", "Complex", "GeneProduct", "Metabolite" and "Unknown". It's recommended that you use these values as often as possible. -->
</xsd:attribute>
</xsd:complexType>
</xsd:element>
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Element: GraphicalLine

Name GraphicalLine
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:GraphicalLine
GroupRef="xsd:string [0..1]"
BiopaxRef="xsd:string [0..1]"
GraphId="xsd:ID [0..1]"
Type="xsd:string [0..1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
<gpml:Graphics
Color="gpml:ColorType [0..1]"
LineThickness="xsd:float [0..1]"
LineStyle="gpml:StyleType [0..1]"
ConnectorType="xsd:string [0..1]"
ZOrder="xsd:integer [0..1]"> [1]
<gpml:Point
X="xsd:float [1]"
Y="xsd:float [1]"
RelX="xsd:float [0..1]"
RelY="xsd:float [0..1]"
GraphRef="xsd:IDREF [0..1]"
GraphId="xsd:ID [0..1]"
ArrowHead="xsd:string [0..1]"/> [2..*]
<gpml:Anchor
Position="xsd:float [1]"
GraphId="xsd:ID [0..1]"
Shape="xsd:string [0..1]"/> [0..*]
</gpml:Graphics>
</gpml:GraphicalLine>
Schema Component Representation
<xsd:element name="GraphicalLine">
<xsd:complexType>
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
<xsd:element name="Graphics" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:sequence>
<xsd:element name="Point" minOccurs="2" maxOccurs="unbounded">
<xsd:complexType>
<xsd:attribute name="X" type="xsd:float" use="required"/>
<xsd:attribute name="Y" type="xsd:float" use="required"/>
<-- relX and relY are the coordinates used when a point is linked to another object (when GraphRef is defined). They represent he coordinates of the point relative to the object that it's linked to, where 0,0 lies at the center of the object and 1,1 at the bottom-right corner -->
<xsd:attribute name="RelX" type="xsd:float" use="optional"/>
<xsd:attribute name="RelY" type="xsd:float" use="optional"/>
<xsd:attribute name="GraphRef" type="xsd:IDREF" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<-- Note: only the ArrowHead attribute on first and last points are used, the rest is ignored. !-->
<xsd:attribute name="ArrowHead" type="xsd:string" default="Line"/>
</xsd:complexType>
</xsd:element>
<xsd:element name="Anchor" minOccurs="0" maxOccurs="unbounded">
<xsd:complexType>
<xsd:attribute name="Position" type="xsd:float" use="required"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="Shape" type="xsd:string" default="ReceptorRound"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<xsd:attribute name="Color" type="gpml:ColorType" default="Black"/>
<xsd:attribute name="LineThickness" type="xsd:float"/>
<xsd:attribute name="LineStyle" type="gpml:StyleType" default="Solid"/>
<xsd:attribute name="ConnectorType" type="xsd:string" use="optional" default="Straight"/>
<xsd:attribute name="ZOrder" type="xsd:integer" use="optional"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<xsd:attribute name="GroupRef" type="xsd:string" use="optional"/>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="Type" type="xsd:string" use="optional"/>
</xsd:complexType>
</xsd:element>
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Element: Group

Name Group
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:Group
BiopaxRef="xsd:string [0..1]"
GroupId="xsd:string [1]"
GroupRef="xsd:string [0..1]"
Style="xsd:string [0..1]"
TextLabel="xsd:string [0..1]"
GraphId="xsd:ID [0..1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
</gpml:Group>
Schema Component Representation
<xsd:element name="Group">
<xsd:complexType>
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
</xsd:sequence>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
<xsd:attribute name="GroupId" type="xsd:string" use="required"/>
<xsd:attribute name="GroupRef" type="xsd:string" use="optional"/>
<xsd:attribute name="Style" type="xsd:string" default="None"/>
<xsd:attribute name="TextLabel" type="xsd:string" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
</xsd:complexType>
</xsd:element>
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Element: InfoBox

Name InfoBox
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:InfoBox
CenterX="xsd:float [1]"
CenterY="xsd:float [1]"/>
Schema Component Representation
<xsd:element name="InfoBox">
<-- InfoBox element holds the coordinates on the GenMAPP layout where the Information kept in the Info table will be displayed in the mapp. -->
<xsd:complexType>
<xsd:attribute name="CenterX" type="xsd:float" use="required"/>
<xsd:attribute name="CenterY" type="xsd:float" use="required"/>
</xsd:complexType>
</xsd:element>
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Element: Interaction

Name Interaction
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:Interaction
GroupRef="xsd:string [0..1]"
BiopaxRef="xsd:string [0..1]"
GraphId="xsd:ID [0..1]"
Type="xsd:string [0..1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
<gpml:Graphics
Color="gpml:ColorType [0..1]"
LineThickness="xsd:float [0..1]"
LineStyle="gpml:StyleType [0..1]"
ConnectorType="xsd:string [0..1]"
ZOrder="xsd:integer [0..1]"> [1]
<gpml:Point
X="xsd:float [1]"
Y="xsd:float [1]"
RelX="xsd:float [0..1]"
RelY="xsd:float [0..1]"
GraphRef="xsd:IDREF [0..1]"
GraphId="xsd:ID [0..1]"
ArrowHead="xsd:string [0..1]"/> [2..*]
<gpml:Anchor
Position="xsd:float [1]"
GraphId="xsd:ID [0..1]"
Shape="xsd:string [0..1]"/> [0..*]
</gpml:Graphics>
<gpml:Xref
Database="xsd:string [1]"
ID="xsd:string [1]"/> [1]
</gpml:Interaction>
Schema Component Representation
<xsd:element name="Interaction">
<xsd:complexType>
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
<xsd:element name="Graphics" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:sequence>
<xsd:element name="Point" minOccurs="2" maxOccurs="unbounded">
<xsd:complexType>
<xsd:attribute name="X" type="xsd:float" use="required"/>
<xsd:attribute name="Y" type="xsd:float" use="required"/>
<-- relX and relY are the coordinates used when a point is linked to another object (when GraphRef is defined). They represent he coordinates of the point relative to the object that it's linked to, where 0,0 lies at the center of the object and 1,1 at the bottom-right corner -->
<xsd:attribute name="RelX" type="xsd:float" use="optional"/>
<xsd:attribute name="RelY" type="xsd:float" use="optional"/>
<xsd:attribute name="GraphRef" type="xsd:IDREF" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<-- Note: only the ArrowHead attribute on first and last points are used, the rest is ignored. !-->
<xsd:attribute name="ArrowHead" type="xsd:string" default="Line"/>
</xsd:complexType>
</xsd:element>
<xsd:element name="Anchor" minOccurs="0" maxOccurs="unbounded">
<xsd:complexType>
<xsd:attribute name="Position" type="xsd:float" use="required"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="Shape" type="xsd:string" default="ReceptorRound"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<xsd:attribute name="Color" type="gpml:ColorType" default="Black"/>
<xsd:attribute name="LineThickness" type="xsd:float"/>
<xsd:attribute name="LineStyle" type="gpml:StyleType" default="Solid"/>
<xsd:attribute name="ConnectorType" type="xsd:string" use="optional" default="Straight"/>
<xsd:attribute name="ZOrder" type="xsd:integer" use="optional"/>
</xsd:complexType>
</xsd:element>
<xsd:element name="Xref" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:attribute name="Database" type="xsd:string" use="required"/>
<xsd:attribute name="ID" type="xsd:string" use="required"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<xsd:attribute name="GroupRef" type="xsd:string" use="optional"/>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="Type" type="xsd:string" use="optional"/>
</xsd:complexType>
</xsd:element>
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Element: Label

Name Label
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:Label
Href="xsd:string [0..1]"
BiopaxRef="xsd:string [0..1]"
GraphId="xsd:ID [0..1]"
GroupRef="xsd:string [0..1]"
TextLabel="xsd:string [1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
<gpml:Graphics
CenterX="xsd:float [1]"
CenterY="xsd:float [1]"
Width="gpml:Dimension [1]"
Height="gpml:Dimension [1]"
FontName="xsd:string [0..1]"
FontStyle="xsd:string (value comes from list: {'Normal'|'Italic'}) [0..1]"
FontDecoration="xsd:string (value comes from list: {'Normal'|'Underline'}) [0..1]"
FontStrikethru="xsd:string (value comes from list: {'Normal'|'Strikethru'}) [0..1]"
FontWeight="xsd:string (value comes from list: {'Normal'|'Bold'}) [0..1]"
FontSize="xsd:nonNegativeInteger [0..1]"
Align="xsd:string (value comes from list: {'Left'|'Center'|'Right'}) [0..1]"
Valign="xsd:string (value comes from list: {'Top'|'Middle'|'Bottom'}) [0..1]"
Color="gpml:ColorType [0..1]"
LineStyle="gpml:StyleType [0..1]"
LineThickness="xsd:float [0..1]"
FillColor="gpml:ColorType [0..1]"
ShapeType="xsd:string [0..1]"
ZOrder="xsd:integer [0..1]"/> [1]
</gpml:Label>
Schema Component Representation
<xsd:element name="Label">
<xsd:complexType>
<-- This is text on a GenMAPP map that can have associated comments. -->
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
<xsd:element name="Graphics" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:attributeGroup ref="gpml:RectAttributes"/>
<xsd:attributeGroup ref="gpml:FontAttributes"/>
<xsd:attributeGroup ref="gpml:ShapeStyleAttributes"/>
<xsd:attribute name="FillColor" type="gpml:ColorType" default="Transparent"/>
<xsd:attribute name="ShapeType" type="xsd:string" default="None"/>
<xsd:attribute name="ZOrder" type="xsd:integer" use="optional"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<-- for a reference to a url !-->
<xsd:attribute name="Href" type="xsd:string" use="optional"/>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="GroupRef" type="xsd:string" use="optional"/>
<xsd:attribute name="TextLabel" type="xsd:string" use="required"/>
</xsd:complexType>
</xsd:element>
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Element: Legend

Name Legend
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:Legend
CenterX="xsd:float [1]"
CenterY="xsd:float [1]"/>
Schema Component Representation
<xsd:element name="Legend">
<xsd:complexType>
<xsd:attribute name="CenterX" type="xsd:float" use="required"/>
<xsd:attribute name="CenterY" type="xsd:float" use="required"/>
</xsd:complexType>
</xsd:element>
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Element: Pathway

Name Pathway
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:Pathway
Name="xsd:string [1]"
Organism="xsd:string [0..1]"
Data-Source="xsd:string [0..1]"
Version="xsd:string [0..1]"
Author="xsd:string [0..1]"
Maintainer="xsd:string [0..1]"
Email="xsd:string [0..1]"
License="xsd:string [0..1]"
Last-Modified="xsd:string [0..1]"
BiopaxRef="xsd:string [0..1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
<gpml:Graphics
BoardWidth="gpml:Dimension [1]"
BoardHeight="gpml:Dimension [1]"/> [0..1]
<gpml:DataNode> ... </gpml:DataNode> [0..*]
<gpml:State> ... </gpml:State> [0..*]
<gpml:Interaction> ... </gpml:Interaction> [0..*]
<gpml:GraphicalLine> ... </gpml:GraphicalLine> [0..*]
<gpml:Label> ... </gpml:Label> [0..*]
<gpml:Shape> ... </gpml:Shape> [0..*]
<gpml:Group> ... </gpml:Group> [0..*]
<gpml:InfoBox> ... </gpml:InfoBox> [1]
<gpml:Legend> ... </gpml:Legend> [0..1]
<gpml:Biopax> ... </gpml:Biopax> [0..1]
</gpml:Pathway>
Schema Component Representation
<xsd:element name="Pathway">
<xsd:complexType>
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
<xsd:element name="Graphics" minOccurs="0" maxOccurs="1">
<xsd:complexType>
<xsd:attribute name="BoardWidth" type="gpml:Dimension" use="required"/>
<xsd:attribute name="BoardHeight" type="gpml:Dimension" use="required"/>
</xsd:complexType>
</xsd:element>
<xsd:element ref="gpml:DataNode" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element ref="gpml:State" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element ref="gpml:Interaction" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element ref="gpml:GraphicalLine" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element ref="gpml:Label" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element ref="gpml:Shape" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element ref="gpml:Group" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element ref="gpml:InfoBox" minOccurs="1" maxOccurs="1"/>
<xsd:element ref="gpml:Legend" minOccurs="0" maxOccurs="1"/>
<xsd:element ref="gpml:Biopax" minOccurs="0" maxOccurs="1"/>
</xsd:sequence>
<xsd:attribute name="Name" type="xsd:string" use="required">
<-- GenMAPP Pathway Title -->
</xsd:attribute>
<xsd:attribute name="Organism" type="xsd:string" use="optional">
<-- Organism is not a field in the GenMAPP database at this time, but we want to preserve this information when importing maps, and also when exporting maps. GenMAPP maps have the organism implied from the filename. -->
</xsd:attribute>
<xsd:attribute name="Data-Source" type="xsd:string" use="optional">
<-- On import to GenMAPP, Data-Source value could be 'KEGG', 'Cytoscape', etc. On export from GenMAPP, value should be 'GenMAPP' with version number. -->
</xsd:attribute>
<xsd:attribute name="Version" type="xsd:string" use="optional">
<-- GenMAPP version, use for export of maps from GenMAPP only. -->
</xsd:attribute>
<xsd:attribute name="Author" type="xsd:string" use="optional"/>
<xsd:attribute name="Maintainer" type="xsd:string" use="optional"/>
<xsd:attribute name="Email" type="xsd:string" use="optional"/>
<xsd:attribute name="License" type="xsd:string" use="optional"/>
<xsd:attribute name="Last-Modified" type="xsd:string" use="optional">
<-- Last modification date, in the form of YYYYMMDD -->
</xsd:attribute>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
</xsd:complexType>
</xsd:element>
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Element: Shape

Name Shape
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:Shape
BiopaxRef="xsd:string [0..1]"
GraphId="xsd:ID [0..1]"
GroupRef="xsd:string [0..1]"
TextLabel="xsd:string [0..1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
<gpml:Graphics
CenterX="xsd:float [1]"
CenterY="xsd:float [1]"
Width="gpml:Dimension [1]"
Height="gpml:Dimension [1]"
FontName="xsd:string [0..1]"
FontStyle="xsd:string (value comes from list: {'Normal'|'Italic'}) [0..1]"
FontDecoration="xsd:string (value comes from list: {'Normal'|'Underline'}) [0..1]"
FontStrikethru="xsd:string (value comes from list: {'Normal'|'Strikethru'}) [0..1]"
FontWeight="xsd:string (value comes from list: {'Normal'|'Bold'}) [0..1]"
FontSize="xsd:nonNegativeInteger [0..1]"
Align="xsd:string (value comes from list: {'Left'|'Center'|'Right'}) [0..1]"
Valign="xsd:string (value comes from list: {'Top'|'Middle'|'Bottom'}) [0..1]"
Color="gpml:ColorType [0..1]"
LineStyle="gpml:StyleType [0..1]"
LineThickness="xsd:float [0..1]"
FillColor="gpml:ColorType [0..1]"
ShapeType="xsd:string [1]"
ZOrder="xsd:integer [0..1]"
Rotation="gpml:RotationType [0..1]"/> [1]
</gpml:Shape>
Schema Component Representation
<xsd:element name="Shape">
<xsd:complexType>
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
<xsd:element name="Graphics" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:attributeGroup ref="gpml:RectAttributes"/>
<xsd:attributeGroup ref="gpml:FontAttributes"/>
<xsd:attributeGroup ref="gpml:ShapeStyleAttributes"/>
<xsd:attribute name="FillColor" type="gpml:ColorType" default="Transparent"/>
<xsd:attribute name="ShapeType" type="xsd:string" use="required"/>
<xsd:attribute name="ZOrder" type="xsd:integer" use="optional"/>
<xsd:attribute name="Rotation" type="gpml:RotationType" default="Top"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="GroupRef" type="xsd:string" use="optional"/>
<xsd:attribute name="TextLabel" type="xsd:string" use="optional"/>
</xsd:complexType>
</xsd:element>
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Element: State

Name State
Type Locally-defined complex type
Nillable no
Abstract no
XML Instance Representation
<gpml:State
BiopaxRef="xsd:string [0..1]"
GraphId="xsd:ID [0..1]"
GraphRef="xsd:IDREF [0..1]"
TextLabel="xsd:string [1]"
StateType="xsd:string [0..1]">
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
<gpml:Graphics
RelX="xsd:float [1]"
RelY="xsd:float [1]"
Width="gpml:Dimension [1]"
Height="gpml:Dimension [1]"
Color="gpml:ColorType [0..1]"
LineStyle="gpml:StyleType [0..1]"
LineThickness="xsd:float [0..1]"
FillColor="gpml:ColorType [0..1]"
ShapeType="xsd:string [0..1]"
ZOrder="xsd:integer [0..1]"/> [1]
<gpml:Xref
Database="xsd:string [1]"
ID="xsd:string [1]"/> [0..1]
</gpml:State>
Schema Component Representation
<xsd:element name="State">
<xsd:complexType>
<xsd:sequence>
<xsd:group ref="gpml:CommentGroup"/>
<xsd:element name="Graphics" minOccurs="1" maxOccurs="1">
<xsd:complexType>
<xsd:attribute name="RelX" type="xsd:float" use="required"/>
<xsd:attribute name="RelY" type="xsd:float" use="required"/>
<xsd:attribute name="Width" type="gpml:Dimension" use="required"/>
<xsd:attribute name="Height" type="gpml:Dimension" use="required"/>
<xsd:attributeGroup ref="gpml:ShapeStyleAttributes"/>
<xsd:attribute name="FillColor" type="gpml:ColorType" default="White"/>
<xsd:attribute name="ShapeType" type="xsd:string" default="Rectangle"/>
<xsd:attribute name="ZOrder" type="xsd:integer" use="optional"/>
</xsd:complexType>
</xsd:element>
<xsd:element name="Xref" minOccurs="0" maxOccurs="1">
<xsd:complexType>
<xsd:attribute name="Database" type="xsd:string" use="required"/>
<xsd:attribute name="ID" type="xsd:string" use="required"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
<xsd:attribute name="BiopaxRef" type="xsd:string" use="optional"/>
<xsd:attribute name="GraphId" type="xsd:ID" use="optional"/>
<xsd:attribute name="GraphRef" type="xsd:IDREF" use="optional"/>
<xsd:attribute name="TextLabel" type="xsd:string" use="required"/>
<xsd:attribute name="StateType" type="xsd:string" default="Unknown"/>
<-- Biological modification type. suggested values: Phosphorylated, Glycosylated, Activated, ... !-->
</xsd:complexType>
</xsd:element>
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Global Definitions

Attribute Group: FontAttributes

Name FontAttributes
XML Instance Representation
FontName="xsd:string [0..1]"
FontStyle="xsd:string (value comes from list: {'Normal'|'Italic'}) [0..1]"
FontDecoration="xsd:string (value comes from list: {'Normal'|'Underline'}) [0..1]"
FontStrikethru="xsd:string (value comes from list: {'Normal'|'Strikethru'}) [0..1]"
FontWeight="xsd:string (value comes from list: {'Normal'|'Bold'}) [0..1]"
FontSize="xsd:nonNegativeInteger [0..1]"
Align="xsd:string (value comes from list: {'Left'|'Center'|'Right'}) [0..1]"
Valign="xsd:string (value comes from list: {'Top'|'Middle'|'Bottom'}) [0..1]"
Schema Component Representation
<xsd:attributeGroup name="FontAttributes">
<xsd:attribute name="FontName" type="xsd:string" default="Arial"/>
<xsd:attribute name="FontStyle" default="Normal">
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Normal"/>
<xsd:enumeration value="Italic"/>
</xsd:restriction>
</xsd:simpleType>
</xsd:attribute>
<xsd:attribute name="FontDecoration" default="Normal">
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Normal"/>
<xsd:enumeration value="Underline"/>
</xsd:restriction>
</xsd:simpleType>
</xsd:attribute>
<xsd:attribute name="FontStrikethru" default="Normal">
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Normal"/>
<xsd:enumeration value="Strikethru"/>
</xsd:restriction>
</xsd:simpleType>
</xsd:attribute>
<xsd:attribute name="FontWeight" default="Normal">
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Normal"/>
<xsd:enumeration value="Bold"/>
</xsd:restriction>
</xsd:simpleType>
</xsd:attribute>
<xsd:attribute name="FontSize" type="xsd:nonNegativeInteger" default="12"/>
<xsd:attribute name="Align" default="Center">
<-- Horizontal alignment -->
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Left"/>
<xsd:enumeration value="Center"/>
<xsd:enumeration value="Right"/>
</xsd:restriction>
</xsd:simpleType>
</xsd:attribute>
<xsd:attribute name="Valign" default="Top">
<-- Vertical alignment -->
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Top"/>
<xsd:enumeration value="Middle"/>
<xsd:enumeration value="Bottom"/>
</xsd:restriction>
</xsd:simpleType>
</xsd:attribute>
</xsd:attributeGroup>
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Attribute Group: RectAttributes

Name RectAttributes
XML Instance Representation
CenterX="xsd:float [1]"
CenterY="xsd:float [1]"
Width="gpml:Dimension [1]"
Height="gpml:Dimension [1]"
Schema Component Representation
<xsd:attributeGroup name="RectAttributes">
<xsd:attribute name="CenterX" type="xsd:float" use="required"/>
<xsd:attribute name="CenterY" type="xsd:float" use="required"/>
<xsd:attribute name="Width" type="gpml:Dimension" use="required"/>
<xsd:attribute name="Height" type="gpml:Dimension" use="required"/>
</xsd:attributeGroup>
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Attribute Group: ShapeStyleAttributes

Name ShapeStyleAttributes
XML Instance Representation
Color="gpml:ColorType [0..1]"
LineStyle="gpml:StyleType [0..1]"
LineThickness="xsd:float [0..1]"
Schema Component Representation
<xsd:attributeGroup name="ShapeStyleAttributes">
<xsd:attribute name="Color" type="gpml:ColorType" default="Black"/>
<xsd:attribute name="LineStyle" type="gpml:StyleType" default="Solid"/>
<xsd:attribute name="LineThickness" type="xsd:float" default="1.0"/>
</xsd:attributeGroup>
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Model Group: CommentGroup

Name CommentGroup
XML Instance Representation
<gpml:Comment
Source="xsd:string [0..1]"> [0..*]
xsd:string
</gpml:Comment>
<gpml:PublicationXref
ID="xsd:string [1]"
Database="xsd:string [1]"/> [0..*]
<gpml:BiopaxRef> ... </gpml:BiopaxRef> [0..*]
<gpml:Attribute
Key="xsd:string [1]"
Value="xsd:string [1]"/> [0..*]
Schema Component Representation
<xsd:group name="CommentGroup">
<xsd:sequence>
<xsd:element name="Comment" minOccurs="0" maxOccurs="unbounded">
<xsd:complexType>
<xsd:simpleContent>
<xsd:extension base="xsd:string">
<xsd:attribute name="Source" type="xsd:string"/>
</xsd:extension>
</xsd:simpleContent>
</xsd:complexType>
</xsd:element>
<xsd:element name="PublicationXref" minOccurs="0" maxOccurs="unbounded">
<xsd:complexType>
<xsd:attribute name="ID" type="xsd:string" use="required"/>
<xsd:attribute name="Database" type="xsd:string" use="required"/>
</xsd:complexType>
</xsd:element>
<xsd:element name="BiopaxRef" minOccurs="0" maxOccurs="unbounded"/>
<xsd:element name="Attribute" minOccurs="0" maxOccurs="unbounded">
<xsd:complexType>
<xsd:attribute name="Key" type="xsd:string" use="required"/>
<xsd:attribute name="Value" type="xsd:string" use="required"/>
</xsd:complexType>
</xsd:element>
</xsd:sequence>
</xsd:group>
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Simple Type: ColorType

Super-types: None
Sub-types: None
Name ColorType
Content
  • Union of following types:
    • Locally defined type:
      • Base XSD Type: hexBinary
    • Locally defined type:
      • Base XSD Type: string
      • value comes from list: {'Aqua'|'Black'|'Blue'|'Fuchsia'|'Gray'|'Green'|'Lime'|'Maroon'|'Navy'|'Olive'|'Purple'|'Red'|'Silver'|'Teal'|'White'|'Yellow'|'Transparent'}
Schema Component Representation
<xsd:simpleType name="ColorType">
<xsd:union>
<xsd:simpleType>
<xsd:restriction base="xsd:hexBinary"/>
</xsd:simpleType>
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Aqua"/>
<xsd:enumeration value="Black"/>
<xsd:enumeration value="Blue"/>
<xsd:enumeration value="Fuchsia"/>
<xsd:enumeration value="Gray"/>
<xsd:enumeration value="Green"/>
<xsd:enumeration value="Lime"/>
<xsd:enumeration value="Maroon"/>
<xsd:enumeration value="Navy"/>
<xsd:enumeration value="Olive"/>
<xsd:enumeration value="Purple"/>
<xsd:enumeration value="Red"/>
<xsd:enumeration value="Silver"/>
<xsd:enumeration value="Teal"/>
<xsd:enumeration value="White"/>
<xsd:enumeration value="Yellow"/>
<xsd:enumeration value="Transparent"/>
</xsd:restriction>
</xsd:simpleType>
</xsd:union>
</xsd:simpleType>
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Simple Type: Dimension

Super-types: xsd:float < Dimension (by restriction)
Sub-types: None
Name Dimension
Content
  • Base XSD Type: float
  • value >= 0
Schema Component Representation
<xsd:simpleType name="Dimension">
<xsd:restriction base="xsd:float">
<xsd:minInclusive value="0"/>
</xsd:restriction>
</xsd:simpleType>
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Simple Type: RotationType

Super-types: None
Sub-types: None
Name RotationType
Content
  • Union of following types:
    • Locally defined type:
      • Base XSD Type: string
      • value comes from list: {'Top'|'Right'|'Bottom'|'Left'}
    • Locally defined type:
      • Base XSD Type: float
Schema Component Representation
<xsd:simpleType name="RotationType">
<xsd:union>
<xsd:simpleType>
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Top"/>
<-- rotation of 0.0 !-->
<xsd:enumeration value="Right"/>
<-- rotation of 1/2 pi !-->
<xsd:enumeration value="Bottom"/>
<-- rotation of 1 pi !-->
<xsd:enumeration value="Left"/>
<-- rotation of 3/2 pi !-->
</xsd:restriction>
</xsd:simpleType>
<xsd:simpleType>
<xsd:restriction base="xsd:float"/>
<-- rotation is always measured in radians !-->
</xsd:simpleType>
</xsd:union>
</xsd:simpleType>
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Simple Type: StyleType

Super-types: xsd:string < StyleType (by restriction)
Sub-types: None
Name StyleType
Content
  • Base XSD Type: string
  • value comes from list: {'Solid'|'Broken'}
Schema Component Representation
<xsd:simpleType name="StyleType">
<xsd:restriction base="xsd:string">
<xsd:enumeration value="Solid"/>
<xsd:enumeration value="Broken"/>
</xsd:restriction>
</xsd:simpleType>
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Legend

Complex Type:

Schema Component Type

AusAddress

Schema Component Name
Super-types: Address < AusAddress (by extension)
Sub-types:
  • QLDAddress (by restriction)
If this schema component is a type definition, its type hierarchy is shown in a gray-bordered box.
Name AusAddress
Abstract no
The table above displays the properties of this schema component.
XML Instance Representation
<... country="Australia">
<unitNo> string </unitNo> [0..1]
<houseNo> string </houseNo> [1]
<street> string </street> [1]
Start Choice[1]
<city> string </city> [1]
<town> string </town> [1]
End Choice
<state> AusStates </state> [1]
<postcode> string <<pattern = [1-9][0-9]{3}>> </postcode> [1]?
</...>

The XML Instance Representation table above shows the schema component's content as an XML instance.

Schema Component Representation
<complexTypename="AusAddress">
<complexContent>
<extensionbase="Address">
<sequence>
<elementname="state" type="AusStates"/>
<elementname="postcode">
<simpleType>
<restrictionbase="string">
<patternvalue="[1-9][0-9]{3}"/>
</restriction>
</simpleType>
</element>
</sequence>
<attributename="country" type="string" fixed="Australia"/>
</extension>
</complexContent>
</complexType>
The Schema Component Representation table above displays the underlying XML representation of the schema component. (Annotations are not shown.)
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Glossary

Abstract (Applies to complex type definitions and element declarations). An abstract element or complex type cannot used to validate an element instance. If there is a reference to an abstract element, only element declarations that can substitute the abstract element can be used to validate the instance. For references to abstract type definitions, only derived types can be used.

All Model Group Child elements can be provided in any order in instances. See: http://www.w3.org/TR/xmlschema-1/#element-all.

Choice Model Group Only one from the list of child elements and model groups can be provided in instances. See: http://www.w3.org/TR/xmlschema-1/#element-choice.

Collapse Whitespace Policy Replace tab, line feed, and carriage return characters with space character (Unicode character 32). Then, collapse contiguous sequences of space characters into single space character, and remove leading and trailing space characters.

Disallowed Substitutions (Applies to element declarations). If substitution is specified, then substitution group members cannot be used in place of the given element declaration to validate element instances. If derivation methods, e.g. extension, restriction, are specified, then the given element declaration will not validate element instances that have types derived from the element declaration's type using the specified derivation methods. Normally, element instances can override their declaration's type by specifying an xsi:type attribute.

Key Constraint Like Uniqueness Constraint, but additionally requires that the specified value(s) must be provided. See: http://www.w3.org/TR/xmlschema-1/#cIdentity-constraint_Definitions.

Key Reference Constraint Ensures that the specified value(s) must match value(s) from a Key Constraint or Uniqueness Constraint. See: http://www.w3.org/TR/xmlschema-1/#cIdentity-constraint_Definitions.

Model Group Groups together element content, specifying the order in which the element content can occur and the number of times the group of element content may be repeated. See: http://www.w3.org/TR/xmlschema-1/#Model_Groups.

Nillable (Applies to element declarations). If an element declaration is nillable, instances can use the xsi:nil attribute. The xsi:nil attribute is the boolean attribute, nil, from the http://www.w3.org/2001/XMLSchema-instance namespace. If an element instance has an xsi:nil attribute set to true, it can be left empty, even though its element declaration may have required content.

Notation A notation is used to identify the format of a piece of data. Values of elements and attributes that are of type, NOTATION, must come from the names of declared notations. See: http://www.w3.org/TR/xmlschema-1/#cNotation_Declarations.

Preserve Whitespace Policy Preserve whitespaces exactly as they appear in instances.

Prohibited Derivations (Applies to type definitions). Derivation methods that cannot be used to create sub-types from a given type definition.

Prohibited Substitutions (Applies to complex type definitions). Prevents sub-types that have been derived using the specified derivation methods from validating element instances in place of the given type definition.

Replace Whitespace Policy Replace tab, line feed, and carriage return characters with space character (Unicode character 32).

Sequence Model Group Child elements and model groups must be provided in the specified order in instances. See: http://www.w3.org/TR/xmlschema-1/#element-sequence.

Substitution Group Elements that are members of a substitution group can be used wherever the head element of the substitution group is referenced.

Substitution Group Exclusions (Applies to element declarations). Prohibits element declarations from nominating themselves as being able to substitute a given element declaration, if they have types that are derived from the original element's type using the specified derivation methods.

Target Namespace The target namespace identifies the namespace that components in this schema belongs to. If no target namespace is provided, then the schema components do not belong to any namespace.

Uniqueness Constraint Ensures uniqueness of an element/attribute value, or a combination of values, within a specified scope. See: http://www.w3.org/TR/xmlschema-1/#cIdentity-constraint_Definitions.

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