uk.ac.ebi.arrayexpress2.magetab.datamodel.sdrf.node

Class ProtocolApplicationNode

java.lang.Object

uk.ac.ebi.arrayexpress2.magetab.datamodel.graph.AbstractNode

uk.ac.ebi.arrayexpress2.magetab.datamodel.sdrf.node.AbstractSDRFNode

uk.ac.ebi.arrayexpress2.magetab.datamodel.sdrf.node.ProtocolApplicationNode

All Implemented Interfaces:

Node, SDRFNode

public class ProtocolApplicationNode
extends AbstractSDRFNode

A protocol "node" in the graph. Protocols are special types of nodes, which are described in the spec as "annotations on an edge" - effectively this makes them an annotation/attribute node on the parent. They are consequently dealt with the same as other attribute nodes.

To obtain Protocols, you should not use the SDRF AbstractGraph.getNodes(Class) method, instead look for the public field on the node to which this protocol is associated. So, for example..

   SourceNode src = ...
   List protocols = src.protocols
 

Author:

Tony Burdett

Field Summary

Fields

Modifier and Type	Field and Description
Map<String,List<String>>	comments
String	date
List<ParameterValueAttribute>	parameterValues
PerformerAttribute	performer
String	protocol
String	termAccessionNumber
String	termSourceREF

Fields inherited from class uk.ac.ebi.arrayexpress2.magetab.datamodel.graph.AbstractNode

nodeName

Constructor Summary

Constructors

Constructor and Description
ProtocolApplicationNode()

Method Summary

Methods

Modifier and Type	Method and Description
String	getNodeType() Get the type of this node in the graph.
String[]	headers() Returns a string array representing the headers of this node and all it's attributes.
String[]	values() Returns the strings representing the values of this node and all it's attributes, indexed by the matching headers.

Methods inherited from class uk.ac.ebi.arrayexpress2.magetab.datamodel.sdrf.node.AbstractSDRFNode

toString

Methods inherited from class uk.ac.ebi.arrayexpress2.magetab.datamodel.graph.AbstractNode

addChildNode, addChildNode, addParentNode, addParentNode, equals, getChildNodes, getLog, getNodeName, getParentNodes, hashCode, removeChildNode, removeParentNode, setNodeName, updateChildNode, updateParentNode

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface uk.ac.ebi.arrayexpress2.magetab.datamodel.graph.Node

addChildNode, addChildNode, addParentNode, addParentNode, getChildNodes, getNodeName, getParentNodes, removeChildNode, removeParentNode, setNodeName, updateChildNode, updateParentNode

Field Detail

protocol

public String protocol

termSourceREF

public String termSourceREF

termAccessionNumber

public String termAccessionNumber

parameterValues

public final List<ParameterValueAttribute> parameterValues

performer

public PerformerAttribute performer

date

public String date

comments

public final Map<String,List<String>> comments

Constructor Detail

ProtocolApplicationNode

public ProtocolApplicationNode()

Method Detail

headers

public String[] headers()

Description copied from interface: SDRFNode

Returns a string array representing the headers of this node and all it's attributes.

Returns:

the headers unique to this node

values

public String[] values()

Description copied from interface: SDRFNode

Returns the strings representing the values of this node and all it's attributes, indexed by the matching headers. So, SDRFNode.headers() and SDRFNode.values() have exactly the same length and the same order.

Returns:

the values for this node

getNodeType

public String getNodeType()

Description copied from interface: Node

Get the type of this node in the graph.

Returns:

the standardised header string for this node