net.sf.basedb.util
Class AnnotationUtil.AnnotatableWrapper

java.lang.Object
  net.sf.basedb.util.AnnotationUtil.AnnotatableWrapper

Enclosing class:

AnnotationUtil

static class AnnotationUtil.AnnotatableWrapper
extends Object

This wrapper class is needed because we need to keep track of the RawBioAssay.getArrayNum() property until we have loaded the Labeled Extracts of a Hybridization.

The 'normal' value of arrayNum is 0, which means that it is ignored. When we reach a RawBioAssay item, we use the arrayNum on that. The array num is kept as we move up to Scan and Hybridization. When the Hybridization is reached we use the arrayNum to call Hybridization.getAnnotatableParents(int) so that we only get labeled extracts that are linked with the correct array num.

Field Summary

private int	arrayNum
private Annotatable	item

Constructor Summary

AnnotationUtil.AnnotatableWrapper(Annotatable item, int arrayNum)

Method Summary

boolean	equals(Object o) A wrapper is equal to another if they references the same item and have the same arrayNum.
(package private) Annotatable	getAnnotatable() The annotatable that we are wrapping.
(package private) Set<AnnotationUtil.AnnotatableWrapper>	getAnnotatableParentWrappers() Get all annotatable parents wrapped inside AnnotatableWrapper:s
private static int	getArrayNum(Annotatable item, int arrayNum) Get the array num to use.
int	hashCode()

Methods inherited from class java.lang.Object

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

Field Detail

item

private final Annotatable item

arrayNum

private final int arrayNum

Constructor Detail

AnnotationUtil.AnnotatableWrapper

AnnotationUtil.AnnotatableWrapper(Annotatable item,
                                  int arrayNum)

Method Detail

getArrayNum

private static int getArrayNum(Annotatable item,
                               int arrayNum)

Get the array num to use. This method returns:

• RawBioAssay.getArrayNum() if the item is a raw bioassay
• 'arrayNum' if the items is a Scan or Hybridization
• 0 in all other cases.

getAnnotatable

Annotatable getAnnotatable()

The annotatable that we are wrapping.

getAnnotatableParentWrappers

Set<AnnotationUtil.AnnotatableWrapper> getAnnotatableParentWrappers()
                                                              throws BaseException

Get all annotatable parents wrapped inside AnnotatableWrapper:s

Throws:

BaseException

equals

public boolean equals(Object o)

A wrapper is equal to another if they references the same item and have the same arrayNum.

Overrides:

equals in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object