org.sbgn.bindings

Class Arc

java.lang.Object

org.sbgn.bindings.SBGNBase

org.sbgn.bindings.Arc

public class Arc
extends SBGNBase

Java class for anonymous complex type.

The following schema fragment specifies the expected content contained within this class.

 <complexType>
   <complexContent>
     <extension base="{http://sbgn.org/libsbgn/0.3}SBGNBase">
       <sequence>
         <element ref="{http://sbgn.org/libsbgn/0.3}glyph" maxOccurs="unbounded" minOccurs="0"/>
         <element ref="{http://sbgn.org/libsbgn/0.3}port" maxOccurs="unbounded" minOccurs="0"/>
         <element name="start">
           <complexType>
             <complexContent>
               <restriction base="{http://www.w3.org/2001/XMLSchema}anyType">
                 <attGroup ref="{http://sbgn.org/libsbgn/0.3}PointAttributes"/>
               </restriction>
             </complexContent>
           </complexType>
         </element>
         <element name="next" maxOccurs="unbounded" minOccurs="0">
           <complexType>
             <complexContent>
               <restriction base="{http://www.w3.org/2001/XMLSchema}anyType">
                 <sequence>
                   <element ref="{http://sbgn.org/libsbgn/0.3}point" maxOccurs="2" minOccurs="0"/>
                 </sequence>
                 <attGroup ref="{http://sbgn.org/libsbgn/0.3}PointAttributes"/>
               </restriction>
             </complexContent>
           </complexType>
         </element>
         <element name="end">
           <complexType>
             <complexContent>
               <restriction base="{http://www.w3.org/2001/XMLSchema}anyType">
                 <sequence>
                   <element ref="{http://sbgn.org/libsbgn/0.3}point" maxOccurs="2" minOccurs="0"/>
                 </sequence>
                 <attGroup ref="{http://sbgn.org/libsbgn/0.3}PointAttributes"/>
               </restriction>
             </complexContent>
           </complexType>
         </element>
       </sequence>
       <attribute name="class" use="required">
         <simpleType>
           <restriction base="{http://www.w3.org/2001/XMLSchema}string">
             <enumeration value="production"/>
             <enumeration value="consumption"/>
             <enumeration value="catalysis"/>
             <enumeration value="modulation"/>
             <enumeration value="stimulation"/>
             <enumeration value="inhibition"/>
             <enumeration value="assignment"/>
             <enumeration value="interaction"/>
             <enumeration value="absolute inhibition"/>
             <enumeration value="absolute stimulation"/>
             <enumeration value="positive influence"/>
             <enumeration value="negative influence"/>
             <enumeration value="unknown influence"/>
             <enumeration value="equivalence arc"/>
             <enumeration value="necessary stimulation"/>
             <enumeration value="logic arc"/>
           </restriction>
         </simpleType>
       </attribute>
       <attribute name="id" use="required" type="{http://www.w3.org/2001/XMLSchema}ID" />
       <attribute name="source" use="required" type="{http://www.w3.org/2001/XMLSchema}IDREF" />
       <attribute name="target" use="required" type="{http://www.w3.org/2001/XMLSchema}IDREF" />
     </extension>
   </complexContent>
 </complexType>
 

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	Arc.End Java class for anonymous complex type.
static class	Arc.Next Java class for anonymous complex type.
static class	Arc.Start Java class for anonymous complex type.

Nested classes/interfaces inherited from class org.sbgn.bindings.SBGNBase

SBGNBase.Extension, SBGNBase.Notes

Field Summary

Fields

Modifier and Type	Field and Description
protected String	clazz
protected Arc.End	end
protected List<Glyph>	glyph
protected String	id
protected List<Arc.Next>	next
protected List<Port>	port
protected Object	source
protected Arc.Start	start
protected Object	target

Fields inherited from class org.sbgn.bindings.SBGNBase

extension, notes

Constructor Summary

Constructors

Constructor and Description
Arc()

Method Summary

Modifier and Type	Method and Description
String	getClazz() Gets the value of the clazz property.
Arc.End	getEnd() Gets the value of the end property.
List<Glyph>	getGlyph() <?xml version="1.0" encoding="UTF-8"?><p xmlns="http://sbgn.org/libsbgn/0.3" xmlns:sbgn="http://sbgn.org/libsbgn/0.3" xmlns:xsd="http://www.w3.org/2001/XMLSchema"> In PD, an arc can contain a single optional sub-glyph.
String	getId() Gets the value of the id property.
List<Arc.Next>	getNext() Gets the value of the next property.
List<Port>	getPort() <?xml version="1.0" encoding="UTF-8"?><p xmlns="http://sbgn.org/libsbgn/0.3" xmlns:sbgn="http://sbgn.org/libsbgn/0.3" xmlns:xsd="http://www.w3.org/2001/XMLSchema"> Ports are only allowed in ER.
Object	getSource() Gets the value of the source property.
Arc.Start	getStart() Gets the value of the start property.
Object	getTarget() Gets the value of the target property.
void	setClazz(String value) Sets the value of the clazz property.
void	setEnd(Arc.End value) Sets the value of the end property.
void	setId(String value) Sets the value of the id property.
void	setSource(Object value) Sets the value of the source property.
void	setStart(Arc.Start value) Sets the value of the start property.
void	setTarget(Object value) Sets the value of the target property.

Methods inherited from class org.sbgn.bindings.SBGNBase

getExtension, getNotes, setExtension, setNotes

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

glyph

protected List<Glyph> glyph

port

protected List<Port> port

start

protected Arc.Start start

next

protected List<Arc.Next> next

end

protected Arc.End end

clazz

protected String clazz

id

protected String id

source

protected Object source

target

protected Object target

Constructor Detail

Arc

public Arc()

Method Detail

getGlyph

public List<Glyph> getGlyph()

 <?xml version="1.0" encoding="UTF-8"?><p xmlns="http://sbgn.org/libsbgn/0.3" xmlns:sbgn="http://sbgn.org/libsbgn/0.3" xmlns:xsd="http://www.w3.org/2001/XMLSchema">
                                         In PD, an arc can contain a single optional sub-glyph.
                                         This glyph must be a stoichiometry marker
                                         (square with a numeric label)
                                     </p>
 

 <?xml version="1.0" encoding="UTF-8"?><p xmlns="http://sbgn.org/libsbgn/0.3" xmlns:sbgn="http://sbgn.org/libsbgn/0.3" xmlns:xsd="http://www.w3.org/2001/XMLSchema">
                                         In ER, an arc can contain several sub-glyphs.
                                         This can be zero or one cardinality glyphs
                                         (e.g. cis or trans), plus zero to many
                                         outcome glyphs (black dot)
                                     </p>
 

Gets the value of the glyph property.

This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the JAXB object. This is why there is not a set method for the glyph property.

For example, to add a new item, do as follows:

    getGlyph().add(newItem);
 

Objects of the following type(s) are allowed in the list Glyph

getPort

public List<Port> getPort()

 <?xml version="1.0" encoding="UTF-8"?><p xmlns="http://sbgn.org/libsbgn/0.3" xmlns:sbgn="http://sbgn.org/libsbgn/0.3" xmlns:xsd="http://www.w3.org/2001/XMLSchema">
                                         Ports are only allowed in ER.
                                     </p>
 

Gets the value of the port property.

This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the JAXB object. This is why there is not a set method for the port property.

For example, to add a new item, do as follows:

    getPort().add(newItem);
 

Objects of the following type(s) are allowed in the list Port

getStart

public Arc.Start getStart()

Gets the value of the start property.

Returns:

possible object is Arc.Start

setStart

public void setStart(Arc.Start value)

Sets the value of the start property.

Parameters:

value - allowed object is Arc.Start

getNext

public List<Arc.Next> getNext()

Gets the value of the next property.

This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the JAXB object. This is why there is not a set method for the next property.

For example, to add a new item, do as follows:

    getNext().add(newItem);
 

Objects of the following type(s) are allowed in the list Arc.Next

getEnd

public Arc.End getEnd()

Gets the value of the end property.

Returns:

possible object is Arc.End

setEnd

public void setEnd(Arc.End value)

Sets the value of the end property.

Parameters:

value - allowed object is Arc.End

getClazz

public String getClazz()

Gets the value of the clazz property.

Returns:

possible object is String

setClazz

public void setClazz(String value)

Sets the value of the clazz property.

Parameters:

value - allowed object is String

getId

public String getId()

Gets the value of the id property.

Returns:

possible object is String

setId

public void setId(String value)

Sets the value of the id property.

Parameters:

value - allowed object is String

getSource

public Object getSource()

Gets the value of the source property.

Returns:

possible object is Object

setSource

public void setSource(Object value)

Sets the value of the source property.

Parameters:

value - allowed object is Object

getTarget

public Object getTarget()

Gets the value of the target property.

Returns:

possible object is Object

setTarget

public void setTarget(Object value)

Sets the value of the target property.

Parameters:

value - allowed object is Object