Static Public Member Functions
static< TextendsAnnotation > AnnotationList< T >	load (File file, Class< T > clazz, TabbedReader.Factory<?extends T > factory) throws IOException

static< TextendsAnnotation > AnnotationList< T >	load (File file, Class< T > clazz, TabbedReader.Factory<?extends T > factory, CoordinateSpace cs) throws IOException

static< TextendsAnnotation > AnnotationList< T >	load (File file, Class< T > clazz, TabbedReader.Factory<?extends T > factory, CoordinateSpace cs, Collection< Predicate<?super T >> filters) throws IOException

static< TextendsAnnotation > AnnotationList< T >	load (File file, Class< T > clazz, TabbedReader.Factory<?extends T > factory, CoordinateSpace cs, Predicate<?super T > filter) throws IOException

static< TextendsAnnotation > CloseableIterator< T >	read (File file, Class< T > clazz, TabbedReader.Factory<?extends T > factory, Predicate<?super T > filter) throws IOException

static< TextendsAnnotation > CloseableIterator< T >	read (File file, Class< T > clazz, TabbedReader.Factory<?extends T > factory) throws IOException

Detailed Description

Author: engreitz This class is responsible for reading annotation files and generating AnnotationLists from them. Parsing logic is partially copied from broad.core.annotation.AnnotationReader

Member Function Documentation

static <TextendsAnnotation> AnnotationList<T> umms.core.annotation.AnnotationFileReader.load	(	File	file,
		Class< T >	clazz,
		TabbedReader.Factory<?extends T >	factory
	)		throws IOException

static

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static <TextendsAnnotation> AnnotationList<T> umms.core.annotation.AnnotationFileReader.load	(	File	file,
		Class< T >	clazz,
		TabbedReader.Factory<?extends T >	factory,
		CoordinateSpace	cs
	)		throws IOException

static

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static <TextendsAnnotation> AnnotationList<T> umms.core.annotation.AnnotationFileReader.load	(	File	file,
		Class< T >	clazz,
		TabbedReader.Factory<?extends T >	factory,
		CoordinateSpace	cs,
		Collection< Predicate<?super T >>	filters
	)		throws IOException

static

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static <TextendsAnnotation> AnnotationList<T> umms.core.annotation.AnnotationFileReader.load	(	File	file,
		Class< T >	clazz,
		TabbedReader.Factory<?extends T >	factory,
		CoordinateSpace	cs,
		Predicate<?super T >	filter
	)		throws IOException

static

Reads an Annotation file line by line and return an AnnotationList containing the results

Parameters

<T>
file	File containing annotations
clazz	The class of the desired AnnotationList
cs	CoordinateSpace with which to initialize the AnnotationList. Can be null.
factory	Factory for parsing and creating the annotation type
filter	Annotation filters to control the subset of annotations that are stored in the AnnotationList.

Returns: AnnotationList containing all annotations from file that pass the filter

Exceptions

IOException

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static <TextendsAnnotation> CloseableIterator<T> umms.core.annotation.AnnotationFileReader.read	(	File	file,
		Class< T >	clazz,
		TabbedReader.Factory<?extends T >	factory,
		Predicate<?super T >	filter
	)		throws IOException

static

Read an Annotation file line by line in a buffered format and return an iterator over the results. Should be refactored with the "load" function as appropriate ("load" can call this function and then add it to its Annotation list)

Parameters

file
clazz
factory
cs
filter

Returns

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static <TextendsAnnotation> CloseableIterator<T> umms.core.annotation.AnnotationFileReader.read	(	File	file,
		Class< T >	clazz,
		TabbedReader.Factory<?extends T >	factory
	)		throws IOException

static

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The documentation for this class was generated from the following file:

java/umms/core/annotation/AnnotationFileReader.java

Static Public Member Functions

Detailed Description

Member Function Documentation