org.cybertory.MSS
Class X_GridFeaturesIntensities
java.lang.Object
org.cybertory.MSS.XMLHandler
org.cybertory.MSS.XMLHandlerStd
org.cybertory.MSS.X_GridFeaturesIntensities
- All Implemented Interfaces:
- java.lang.Comparable
- public class X_GridFeaturesIntensities
- extends XMLHandlerStd
XML wrapper for GridFeaturesIntensities.
For microarrays where all zones are the same size, located on a regular
grid (evenly spaced metarows and metacols).
Also, the spacing between rows and columns (within zones) is consistent
amongst all the zones.
Method Summary |
java.lang.Object |
parseElement(org.jdom.Element elem,
XMLAltData altData)
Given that the element already extracted from it's context, parse
the data (whose type should match that of the handler). |
org.jdom.Element |
schemaTypedef()
From somewhere, we have to get the number of metarows,metarows as well
as the number of rows,cols. |
java.lang.String |
typeDescription()
|
Methods inherited from class org.cybertory.MSS.XMLHandler |
alternateElement, compareTo, extractChildren, getAllHandlers, getHandledClasses, getHandler, getHandlersDefs, getXMLChildFilter, getXMLChildFilter, handledClass, handlersReport, parseChildren, parseRequest, parseXMLDocument, schemaDocument, schemaInContext, schemaInContext, schemaInContext, schemaInContext |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
X_GridFeaturesIntensities
public X_GridFeaturesIntensities()
throws XMLUnhandledTypeException
typeDescription
public java.lang.String typeDescription()
- Overrides:
typeDescription
in class XMLHandler
schemaTypedef
public org.jdom.Element schemaTypedef()
throws XMLUnhandledTypeException
- From somewhere, we have to get the number of metarows,metarows as well
as the number of rows,cols. This information could be explicit or
it could be inferred from the raw data.
- Specified by:
schemaTypedef
in class XMLHandlerStd
- Returns:
- a JDOM Element with schema for type
- Throws:
XMLUnhandledTypeException
parseElement
public java.lang.Object parseElement(org.jdom.Element elem,
XMLAltData altData)
throws XMLParseException,
XMLUnhandledTypeException
- Description copied from class:
XMLHandlerStd
- Given that the element already extracted from it's context, parse
the data (whose type should match that of the handler).
- Specified by:
parseElement
in class XMLHandlerStd
- Parameters:
elem
- the JDOM element containing the dataaltData
- the background data context for parsing
- Returns:
- an object of the appropriate type
- Throws:
XMLParseException
XMLUnhandledTypeException