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java.lang.Objectorg.biojava.bio.annodb.MergingAnnotationDB
public class MergingAnnotationDB
An AnnotationDB that provides a merged view of a list of underlying DBs.
Field Summary |
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Fields inherited from interface org.biojava.bio.annodb.AnnotationDB |
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EMPTY |
Constructor Summary | |
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MergingAnnotationDB(java.lang.String name)
Create a new MergingAnnotationDB with a name and no DBs to merge. |
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MergingAnnotationDB(java.lang.String name,
java.util.List merged)
Create a new MergingAnnotationDB with a name and a list of DBs to merge. |
Method Summary | |
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void |
addAnnotationDB(AnnotationDB toAdd)
Add a DB to be merged in this view. |
AnnotationDB |
filter(AnnotationType at)
Find all Annotation instances in this DB that are of a particular type. |
java.util.List |
getMerged()
Return a list of merged DBs. |
java.lang.String |
getName()
The name of this AnnotationDB. |
AnnotationType |
getSchema()
Get an AnnotationType that accepts all Annotation instances in this DB. |
java.util.Iterator |
iterator()
Loop over each Annotation in this db. |
void |
removeAnnotationDB(AnnotationDB toRemove)
Remove a DB from this view. |
AnnotationDB |
search(AnnotationType at)
Find all Annotation instances in this DB and any Annotations that are child properties of these that match an AnnotationType. |
int |
size()
The number of Annotation instances in the DB. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public MergingAnnotationDB(java.lang.String name)
name
- the name of this DBpublic MergingAnnotationDB(java.lang.String name, java.util.List merged)
name
- the name of this DBmerged
- a list of DBs to mergeMethod Detail |
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public void addAnnotationDB(AnnotationDB toAdd)
toAdd
- the AnnotationDB to addpublic void removeAnnotationDB(AnnotationDB toRemove)
toRemove
- the AnnotationDB to removepublic java.util.List getMerged()
public java.lang.String getName()
AnnotationDB
The name of this AnnotationDB.
getName
in interface AnnotationDB
public AnnotationType getSchema()
AnnotationDB
Get an AnnotationType that accepts all Annotation instances in this DB.
The schema should accept all Annotations in the DB. However, it may hit other Annotations. So, AnnotationType.ALL is always a valid schema. Obviously, the more retrictive it is, the more usefull it becomes for introspection.
getSchema
in interface AnnotationDB
public java.util.Iterator iterator()
AnnotationDB
iterator
in interface AnnotationDB
public int size()
AnnotationDB
size
in interface AnnotationDB
public AnnotationDB filter(AnnotationType at)
AnnotationDB
filter
in interface AnnotationDB
at
- the AnnotationType to match
public AnnotationDB search(AnnotationType at)
AnnotationDB
search
in interface AnnotationDB
at
- the AnnotationType to search with
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