Package fr.igred.omero.repository

Class GenericRepositoryObjectWrapper<T extends DataObject>

java.lang.Object

fr.igred.omero.GenericObjectWrapper<T>

fr.igred.omero.AnnotatableWrapper<T>

fr.igred.omero.repository.GenericRepositoryObjectWrapper<T>

Type Parameters:

T - Subclass of DataObject

Direct Known Subclasses:

DatasetWrapper, FolderWrapper, ImageWrapper, PlateAcquisitionWrapper, PlateWrapper, ProjectWrapper, ScreenWrapper, WellWrapper

public abstract class GenericRepositoryObjectWrapper<T extends DataObject>
extends AnnotatableWrapper<T>

Generic class containing a DataObject (or a subclass) object.

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	GenericRepositoryObjectWrapper.ReplacePolicy	Policy to specify how to handle objects when they are replaced.

Field Summary

Fields inherited from class fr.igred.omero.GenericObjectWrapper

data

Constructor Summary

Constructors

Modifier	Constructor	Description
protected	GenericRepositoryObjectWrapper(T o)	Constructor of the class GenericRepositoryObjectWrapper.

Method Summary

Modifier and Type	Method	Description
void	copyAnnotationLinks(Client client, GenericRepositoryObjectWrapper<?> object)	Copies annotation links from some other object to this one.
abstract String	getDescription()	Gets the object description
abstract String	getName()	Gets the object name.
protected static List<Long>	importImage(GatewayWrapper client, DataObject target, String path)	Imports one image file to the target in OMERO.
protected static boolean	importImages(GatewayWrapper client, DataObject target, int threads, String... paths)	Imports all images candidates in the paths to the target in OMERO.

Methods inherited from class fr.igred.omero.AnnotatableWrapper

addAndReplaceFile, addAndReplaceFile, addAndReplaceTable, addAndReplaceTable, addFile, addFileAnnotation, addKeyValuePair, addMapAnnotation, addPairKeyValue, addTable, addTag, addTag, addTag, addTags, addTags, annotationLinkType, copyAnnotationLinks, getAnnotations, getFileAnnotations, getKeyValuePairs, getMapAnnotations, getMyRating, getTable, getTables, getTags, getValue, isLinked, link, link, linkIfNotLinked, rate, removeLink, unlink

Methods inherited from class fr.igred.omero.GenericObjectWrapper

asDataObject, canAnnotate, canChgrp, canChown, canDelete, canEdit, canLink, delete, distinct, flatten, getCreated, getGroupId, getId, getOwner, saveAndUpdate, toString, wrap, wrap

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

GenericRepositoryObjectWrapper

protected GenericRepositoryObjectWrapper(T o)

Constructor of the class GenericRepositoryObjectWrapper.

Parameters:

o - The DataObject to wrap in the GenericRepositoryObjectWrapper.

Method Detail

importImages

protected static boolean importImages(GatewayWrapper client,
                                      DataObject target,
                                      int threads,
                                      String... paths)
                               throws ServiceException,
                                      OMEROServerError,
                                      IOException

Imports all images candidates in the paths to the target in OMERO.

Parameters:

client - The client handling the connection.

target - The import target.

threads - The number of threads (same value used for filesets and uploads).

paths - Paths to the image files on the computer.

Returns:

If the import did not exit because of an error.

Throws:

ServiceException - Cannot connect to OMERO.

OMEROServerError - Server error.

IOException - Cannot read file.

importImage

protected static List<Long> importImage(GatewayWrapper client,
                                        DataObject target,
                                        String path)
                                 throws ServiceException,
                                        OMEROServerError

Imports one image file to the target in OMERO.

Parameters:

client - The client handling the connection.

target - The import target.

path - Path to the image file on the computer.

Returns:

The list of IDs of the newly imported images.

Throws:

ServiceException - Cannot connect to OMERO.

OMEROServerError - Server error.

getName

public abstract String getName()

Gets the object name.

Returns:

See above.

getDescription

public abstract String getDescription()

Gets the object description

Returns:

See above.

copyAnnotationLinks

public void copyAnnotationLinks(Client client,
                                GenericRepositoryObjectWrapper<?> object)
                         throws AccessException,
                                ServiceException,
                                ExecutionException

Copies annotation links from some other object to this one.

Kept for API compatibility purposes.

Parameters:

client - The client handling the connection.

object - Other repository object to copy annotations from.

Throws:

ServiceException - Cannot connect to OMERO.

AccessException - Cannot access data.

ExecutionException - A Facility can't be retrieved or instantiated.