| Package | Description | 
|---|---|
| ome.api | 
 Contains the central verbs of the Omero System. 
 | 
| ome.logic | 
 The central repository of implementations which will be accessible through this server. 
 | 
| ome.services.sessions | |
| ome.services.sharing | 
 ome.api.IShare support infrastructure. 
 | 
| Modifier and Type | Method and Description | 
|---|---|
CommentAnnotation | 
IShare.addComment(long shareId,
          String comment)
 | 
void | 
IAdmin.addGroupOwners(ExperimenterGroup group,
              Experimenter... owner)
adds the given users to the owner list for this group. 
 | 
void | 
IAdmin.addGroupOwners(ExperimenterGroup group,
              Experimenter... owner)
adds the given users to the owner list for this group. 
 | 
void | 
IAdmin.addGroups(Experimenter user,
         ExperimenterGroup... groups)
adds a user to the given groups. 
 | 
void | 
IAdmin.addGroups(Experimenter user,
         ExperimenterGroup... groups)
adds a user to the given groups. 
 | 
<T extends IObject>  | 
IShare.addObject(long shareId,
         T object)
 | 
<T extends IObject>  | 
IShare.addObjects(long shareId,
          T... objects)
 | 
void | 
Search.addOrderByAsc(String path)
A path from the target entity which will be added to the current stack of
 order statements applied to the query. 
 | 
void | 
Search.addOrderByDesc(String path)
A path from the target entity which will be added to the current stack of
 order statements applied to the query. 
 | 
CommentAnnotation | 
IShare.addReply(long shareId,
        String comment,
        CommentAnnotation replyTo)
Creates  
comment which replies to an existing
 comment. | 
CommentAnnotation | 
IShare.addReply(long shareId,
        String comment,
        CommentAnnotation replyTo)
Creates  
comment which replies to an existing
 comment. | 
Map<Boolean,List<Long>> | 
IRenderingSettings.applySettingsToDataset(long from,
                      long to)
Applies rendering settings to all images in a given  
Dataset. | 
Map<Boolean,List<Long>> | 
IRenderingSettings.applySettingsToDataset(long from,
                      long to)
Applies rendering settings to all images in a given  
Dataset. | 
boolean | 
IRenderingSettings.applySettingsToImage(long from,
                    long to)
Applies rendering settings to a given  
Image. | 
boolean | 
IRenderingSettings.applySettingsToImage(long from,
                    long to)
Applies rendering settings to a given  
Image. | 
Map<Boolean,List<Long>> | 
IRenderingSettings.applySettingsToImages(long from,
                     List<Long> to)
Applies rendering settings to a given  
Image. | 
Map<Boolean,List<Long>> | 
IRenderingSettings.applySettingsToImages(long from,
                     List<Long> to)
Applies rendering settings to a given  
Image. | 
boolean | 
IRenderingSettings.applySettingsToPixels(long from,
                     long to)
Applies rendering settings to a given  
Pixels. | 
boolean | 
IRenderingSettings.applySettingsToPixels(long from,
                     long to)
Applies rendering settings to a given  
Pixels. | 
Map<Boolean,List<Long>> | 
IRenderingSettings.applySettingsToProject(long from,
                      long to)
Applies rendering settings to all images in all  
Datasets 
 of a given Project. | 
Map<Boolean,List<Long>> | 
IRenderingSettings.applySettingsToProject(long from,
                      long to)
Applies rendering settings to all images in all  
Datasets 
 of a given Project. | 
<T extends IObject>  | 
IRenderingSettings.applySettingsToSet(long from,
                  Class<T> type,
                  Set<Long> nodeIds)
Applies rendering settings to one or many containers. 
 | 
<T extends IObject>  | 
IRenderingSettings.applySettingsToSet(long from,
                  Class<T> type,
                  Set<Long> nodeIds)
Applies rendering settings to one or many containers. 
 | 
void | 
IAdmin.changeGroup(IObject iObject,
           String groupName)
call
  
details.setGroup()
 on this instance. | 
void | 
IAdmin.changeGroup(IObject iObject,
           String groupName)
call
  
details.setGroup()
 on this instance. | 
void | 
IAdmin.changeOwner(IObject iObject,
           String omeName)
call
  
details.setOwner()
 on this instance. | 
void | 
IAdmin.changeOwner(IObject iObject,
           String omeName)
call
  
details.setOwner()
 on this instance. | 
void | 
IAdmin.changePasswordWithOldPassword(String oldPassword,
                             String newPassword)
change the password for the current user by passing the old password. 
 | 
void | 
IAdmin.changePermissions(IObject iObject,
                 Permissions perms)
call
  
defaults.setPermissions()
 on this instance. | 
void | 
IAdmin.changePermissions(IObject iObject,
                 Permissions perms)
call
  
defaults.setPermissions()
 on this instance. | 
void | 
IAdmin.changeUserPassword(String omeName,
                  String newPassword)
change the password for the a given user. 
 | 
int | 
ISession.closeSession(Session session)
Closes session and releases all resources. 
 | 
Long | 
IMetadata.countAnnotationsUsedNotOwned(Class annotationType,
                            long userID)
Counts the number of annotation of a given type used by the specified
 user but not owned by the user. 
 | 
Long | 
IMetadata.countSpecifiedAnnotations(Class type,
                         Set<String> include,
                         Set<String> exclude,
                         Parameters options)
Counts the number of annotation of a given type. 
 | 
<T extends IObject>  | 
IContainer.createDataObject(T object,
                Parameters options)
Creates the specified data object. 
 | 
IObject[] | 
IContainer.createDataObjects(IObject[] dataObjects,
                 Parameters options)
convenience method to save network calls. 
 | 
long | 
IAdmin.createExperimenter(Experimenter experimenter,
                  ExperimenterGroup defaultGroup,
                  ExperimenterGroup... otherGroups)
create and return a new user in the given groups. 
 | 
long | 
IAdmin.createExperimenter(Experimenter experimenter,
                  ExperimenterGroup defaultGroup,
                  ExperimenterGroup... otherGroups)
create and return a new user in the given groups. 
 | 
long | 
IAdmin.createExperimenterWithPassword(Experimenter experimenter,
                              String password,
                              ExperimenterGroup defaultGroup,
                              ExperimenterGroup... otherGroups)
create and return a new user in the given groups with password. 
 | 
long | 
IAdmin.createExperimenterWithPassword(Experimenter experimenter,
                              String password,
                              ExperimenterGroup defaultGroup,
                              ExperimenterGroup... otherGroups)
create and return a new user in the given groups with password. 
 | 
RenderingDef | 
IRenderingSettings.createNewRenderingDef(Pixels pixels)
Creates a new rendering definition object along with its sub-objects. 
 | 
Session | 
ISession.createSession(Principal principal,
             String credentials)
Creates a new session and returns it to the user. 
 | 
Session | 
ISession.createSessionWithTimeout(Principal principal,
                        long timeToLiveMilliseconds)
 | 
Session | 
ISession.createSessionWithTimeouts(Principal principal,
                         long timeToLiveMilliseconds,
                         long timeToIdleMilliseconds)
 | 
<T extends IObject>  | 
IShare.createShare(String description,
           Timestamp expiration,
           List<T> items,
           List<Experimenter> exps,
           List<String> guests,
           boolean enabled)
 | 
long | 
IAdmin.createSystemUser(Experimenter newSystemUser)
create and return a new system user. 
 | 
void | 
ThumbnailStore.createThumbnailsByLongestSideSet(Integer size,
                                Set<Long> pixelsIds)
Creates thumbnails for a number of pixels sets using a given set of 
 rendering settings (RenderingDef) in the on-disk cache. 
 | 
long | 
IAdmin.createUser(Experimenter newUser,
          String group)
create and return a new user. 
 | 
long | 
IAdmin.createUser(Experimenter newUser,
          String group)
create and return a new user. 
 | 
Experimenter | 
ILdap.createUser(String username)
Creates an  
Experimenter entry in the OMERO DB
 based on the supplied LDAP username. | 
void | 
IShare.deleteComment(Annotation comment)
Deletes  
comment from the
 database. | 
<T extends IEnum>  | 
ITypes.deleteEnumeration(T oEnum)
deletes enumeration value specified by object 
 | 
void | 
IAdmin.deleteExperimenter(Experimenter user)
removes a user by removing the password information for that user as well
 as all  
GroupExperimenterMap instances. | 
void | 
IAdmin.deleteGroup(ExperimenterGroup group)
removes a group by first removing all users in the group, and then
 deleting the actual  
ExperimenterGroup instance. | 
void | 
IDelete.deleteImages(Set<Long> ids,
            boolean force)
Deletes several  
Image instances within a single transaction via
 the IDelete.deleteImage(long, boolean) method. | 
<T extends IObject>  | 
IQuery.find(Class<T> klass,
    long id)
lookup an entity by class and id. 
 | 
<T extends IObject>  | 
IQuery.findAll(Class<T> klass,
       Filter filter)
lookup all entities that belong to this class and match filter. 
 | 
<T extends IObject>  | 
IQuery.findAllByExample(T example,
                Filter filter)
search based on provided example entity. 
 | 
<T extends IObject>  | 
IQuery.findAllByFullText(Class<T> type,
                 String query,
                 Parameters parameters)
executes a full text search based on Lucene. 
 | 
<T extends IObject>  | 
IQuery.findAllByFullText(Class<T> type,
                 String query,
                 Parameters parameters)
executes a full text search based on Lucene. 
 | 
<T extends IObject>  | 
IQuery.findAllByQuery(String queryName,
              Parameters parameters)
executes the stored query with the given name. 
 | 
<T extends IObject>  | 
IQuery.findAllByString(Class<T> klass,
               String field,
               String stringValue,
               boolean caseSensitive,
               Filter filter)
search a given field matching against a String. 
 | 
<T extends IObject>  | 
IQuery.findAllByString(Class<T> klass,
               String field,
               String stringValue,
               boolean caseSensitive,
               Filter filter)
search a given field matching against a String. 
 | 
<T extends IObject>  | 
IQuery.findByExample(T example)
search based on provided example entity. 
 | 
<T extends IObject>  | 
IQuery.findByQuery(String queryName,
           Parameters parameters)
executes the stored query with the given name. 
 | 
<T extends IObject>  | 
IQuery.findByString(Class<T> klass,
            String field,
            String value)
search a given field matching against a String. 
 | 
<T extends IObject>  | 
IQuery.findByString(Class<T> klass,
            String field,
            String value)
search a given field matching against a String. 
 | 
<T extends IObject>  | 
IContainer.findContainerHierarchies(Class<T> rootNodeType,
                        Set<Long> imagesIds,
                        Parameters options)
Retrieves hierarchy trees in various hierarchies that contain the
 specified Images. 
 | 
<T extends IObject>  | 
IContainer.findContainerHierarchies(Class<T> rootNodeType,
                        Set<Long> imagesIds,
                        Parameters options)
Retrieves hierarchy trees in various hierarchies that contain the
 specified Images. 
 | 
String | 
ILdap.findDN(String username)
Searches unique Distinguished Name -  
String in LDAP for
 Common Name equals username. | 
Experimenter | 
ILdap.findExperimenter(String username)
Searches Experimenter by unique Distinguished Name -
  
String in LDAP for Common Name equals username. | 
ExperimenterGroup | 
ILdap.findGroup(String groupname)
Looks up a specific  
ExperimenterGroup in LDAP
 using the provided group name. | 
String | 
ILdap.findGroupDN(String groupname)
Looks up the DN for a group. 
 | 
<T extends IObject>  | 
IQuery.get(Class<T> klass,
   long id)
lookup an entity by class and id. 
 | 
Map<String,Experimenter> | 
IShare.getActiveConnections(long shareId)
Gets actual active connections to  
share. | 
Map | 
IContainer.getCollectionCount(String type,
                  String property,
                  Set<Long> ids,
                  Parameters options)
Counts the number of members in a collection for a given object. 
 | 
Map | 
IContainer.getCollectionCount(String type,
                  String property,
                  Set<Long> ids,
                  Parameters options)
Counts the number of members in a collection for a given object. 
 | 
Map | 
IContainer.getCollectionCount(String type,
                  String property,
                  Set<Long> ids,
                  Parameters options)
Counts the number of members in a collection for a given object. 
 | 
Map<Long,Long> | 
IShare.getCommentCount(Set<Long> shareIds)
Returns a map from share id to comment count. 
 | 
String | 
IConfig.getConfigValue(String key)
retrieve a configuration value from the backend store. 
 | 
Map<String,String> | 
IConfig.getConfigValues(String keyRegex)
retrieves configuration values from the backend store which match the
 given regex. 
 | 
List<Event> | 
IShare.getEvents(long shareId,
         Experimenter experimenter,
         Timestamp from,
         Timestamp to)
Gets events for  
share per
 experimenter for period of time. | 
<T extends IObject>  | 
IContainer.getImages(Class<T> rootNodeType,
         Set<Long> rootNodeIds,
         Parameters options)
Retrieve a user's (or all users') images within any given container. 
 | 
<T extends IObject>  | 
IContainer.getImages(Class<T> rootNodeType,
         Set<Long> rootNodeIds,
         Parameters options)
Retrieve a user's (or all users') images within any given container. 
 | 
Map<Long,Long> | 
IShare.getMemberCount(Set<Long> shareIds)
Returns a map from share id to the count of total members (including the
 owner). 
 | 
Set<Session> | 
IShare.getMemberSharesFor(Experimenter user,
                  boolean onlyActive)
Gets all shares where given  
Experimenter is a member. | 
Map<String,Experimenter> | 
IShare.getPastConnections(long shareId)
Gets previous connections to  
share. | 
int | 
ISession.getReferenceCount(String sessionUuid)
Retrieves the current reference count for the given uuid. 
 | 
RenderingDef | 
IRenderingSettings.getRenderingSettings(long pixelsId)
Returns the default rendering settings for a given pixels for the 
 current user. 
 | 
Session | 
ISession.getSession(String sessionUuid)
Retrieves the session associated with this uuid, updating the last access
 time as well. 
 | 
Set<Session> | 
IShare.getSharesOwnedBy(Experimenter user,
                boolean onlyActive)
Gets all shares owned by the given  
Experimenter. | 
Map<Long,Long> | 
IMetadata.getTaggedObjectsCount(Set<Long> tagIds,
                     Parameters options)
Returns a map whose key is a tag's id and the value the number of
 Projects, Datasets, and Images linked to that tag. 
 | 
Map<Long,byte[]> | 
ThumbnailStore.getThumbnailByLongestSideSet(Integer size,
                            Set<Long> pixelsIds)
Retrieves a number of thumbnails for pixels sets using given sets of 
 rendering settings (RenderingDef). 
 | 
Map<Long,byte[]> | 
ThumbnailStore.getThumbnailSet(Integer sizeX,
               Integer sizeY,
               Set<Long> pixelsIds)
Retrieves a number of thumbnails for pixels sets using given sets of 
 rendering settings (RenderingDef). 
 | 
void | 
IShare.invalidateConnection(long shareId,
                    Experimenter exp)
Makes the connection invalid for  
share for
 specifiec user. | 
ILink[] | 
IContainer.link(ILink[] dataObjectLinks,
    Parameters options)
Convenience method for creating links. 
 | 
<A extends Annotation>  | 
IMetadata.loadAnnotation(Set<Long> annotationIds)
Loads the specified annotations. 
 | 
<T extends IObject,A extends Annotation>  | 
IMetadata.loadAnnotations(Class<T> nodeType,
               Set<Long> rootNodeIds,
               Set<String> annotationType,
               Set<Long> annotatorIds,
               Parameters options)
Loads all the annotations of given types, 
 that have been attached to the specified  
rootNodes 
 for the specified annotatorIds. | 
<T extends IObject,A extends Annotation>  | 
IMetadata.loadAnnotations(Class<T> nodeType,
               Set<Long> rootNodeIds,
               Set<String> annotationType,
               Set<Long> annotatorIds,
               Parameters options)
Loads all the annotations of given types, 
 that have been attached to the specified  
rootNodes 
 for the specified annotatorIds. | 
<T extends IObject,A extends Annotation>  | 
IMetadata.loadAnnotations(Class<T> nodeType,
               Set<Long> rootNodeIds,
               Set<String> annotationType,
               Set<Long> annotatorIds,
               Parameters options)
Loads all the annotations of given types, 
 that have been attached to the specified  
rootNodes 
 for the specified annotatorIds. | 
Set<IObject> | 
IMetadata.loadAnnotationsUsedNotOwned(Class annotationType,
                           long userID)
Loads the annotations of a given type used by the specified
 user but not owned by the user. 
 | 
Set<LogicalChannel> | 
IMetadata.loadChannelAcquisitionData(Set<Long> ids)
Loads the  
logical channels and the acquisition metadata 
 related to them. | 
<T extends IObject>  | 
IContainer.loadContainerHierarchy(Class<T> rootNodeType,
                      Set<Long> rootNodeIds,
                      Parameters options)
Retrieves hierarchy trees rooted by a given node (unless orphan is
 specified -- See below)
 
 This method also retrieves the Experimenters linked to the objects in the
 tree. 
 | 
Map<Long,Set<IObject>> | 
IMetadata.loadLogFiles(Class<? extends IObject> rootNodeType,
            Set<Long> ids)
Find the original file IDs for the import logs corresponding to the given Image or Fileset IDs. 
 | 
<A extends Annotation>  | 
IMetadata.loadSpecifiedAnnotations(Class type,
                        Set<String> include,
                        Set<String> exclude,
                        Parameters options)
Loads all the annotations of a given type. 
 | 
<A extends Annotation>  | 
IMetadata.loadSpecifiedAnnotationsLinkedTo(Class type,
                                Set<String> include,
                                Set<String> exclude,
                                Class rootNodeType,
                                Set<Long> rootNodeIds,
                                Parameters options)
Loads the annotations of a given type linked to the specified objects. 
 | 
<A extends Annotation>  | 
IMetadata.loadSpecifiedAnnotationsLinkedTo(Class type,
                                Set<String> include,
                                Set<String> exclude,
                                Class rootNodeType,
                                Set<Long> rootNodeIds,
                                Parameters options)
Loads the annotations of a given type linked to the specified objects. 
 | 
<A extends Annotation>  | 
IMetadata.loadSpecifiedAnnotationsLinkedTo(Class type,
                                Set<String> include,
                                Set<String> exclude,
                                Class rootNodeType,
                                Set<Long> rootNodeIds,
                                Parameters options)
Loads the annotations of a given type linked to the specified objects. 
 | 
Map<Long,Set<IObject>> | 
IMetadata.loadTagContent(Set<Long> tagIds,
              Parameters options)
Loads the Tag Set if the id is specified otherwise loads all the Tag
 Set. 
 | 
Experimenter | 
IAdmin.lookupExperimenter(String omeName)
look up an  
Experimenter and all related
 groups by name. | 
ExperimenterGroup | 
IAdmin.lookupGroup(String groupName)
look up an  
ExperimenterGroup and all contained
 users by name. | 
void | 
IShare.notifyMembersOfShare(long shareId,
                    String subject,
                    String message,
                    boolean html)
Notify via email selected members of share. 
 | 
void | 
IShare.notifyMembersOfShare(long shareId,
                    String subject,
                    String message,
                    boolean html)
Notify via email selected members of share. 
 | 
void | 
IShare.notifyMembersOfShare(long shareId,
                    String subject,
                    String message,
                    boolean html)
Notify via email selected members of share. 
 | 
List<Object[]> | 
IQuery.projection(String query,
          Parameters parameters)
 | 
<T extends IObject>  | 
IQuery.refresh(T iObject)
refreshes an entire  
IObject graph, recursive loading all data for
 the managed instances in the graph from the database. | 
void | 
IAdmin.removeGroupOwners(ExperimenterGroup group,
                 Experimenter... owner)
removes the given users from the owner list for this group. 
 | 
void | 
IAdmin.removeGroupOwners(ExperimenterGroup group,
                 Experimenter... owner)
removes the given users from the owner list for this group. 
 | 
void | 
IAdmin.removeGroups(Experimenter user,
            ExperimenterGroup... groups)
Removes an experimenter from the given groups. 
 | 
void | 
IAdmin.removeGroups(Experimenter user,
            ExperimenterGroup... groups)
Removes an experimenter from the given groups. 
 | 
<T extends IObject>  | 
IShare.removeObject(long shareId,
            T object)
 | 
<T extends IObject>  | 
IShare.removeObjects(long shareId,
             T... objects)
Remove existing items from the share. 
 | 
void | 
IRenderingSettings.resetDefaults(RenderingDef def,
             Pixels pixels)
Resets the given rendering settings to those that are specified by the 
 rendering engine intelligent pretty good image (PG) logic for
 the pixels set linked to that set of rendering settings. 
 | 
void | 
IRenderingSettings.resetDefaults(RenderingDef def,
             Pixels pixels)
Resets the given rendering settings to those that are specified by the 
 rendering engine intelligent pretty good image (PG) logic for
 the pixels set linked to that set of rendering settings. 
 | 
<T extends IObject>  | 
IRenderingSettings.resetDefaultsByOwnerInSet(Class<T> type,
                         Set<Long> nodeIds)
Resets the rendering settings of a given group of containers based on
 the owner's (essentially a copy). 
 | 
void | 
IRenderingSettings.resetDefaultsForPixels(long pixelsId)
Resets a Pixels' default rendering settings back to those that are 
 specified by the rendering engine intelligent pretty good image 
 (PG) logic. 
 | 
Set<Long> | 
IRenderingSettings.resetDefaultsInDataset(long dataSetId)
Resets a dataset's rendering settings back to those that are specified
 by the rendering engine intelligent pretty good image (PG) logic. 
 | 
void | 
IRenderingSettings.resetDefaultsInImage(long imageId)
Resets an image's default rendering settings back to those that are 
 specified by the rendering engine intelligent pretty good image 
 (PG) logic. 
 | 
<T extends IObject>  | 
IRenderingSettings.resetDefaultsInSet(Class<T> type,
                  Set<Long> nodeIds)
Resets a rendering settings back to one or many containers that are 
 specified by the rendering engine intelligent pretty good image
 (PG) logic. 
 | 
RenderingDef | 
IRenderingSettings.resetDefaultsNoSave(RenderingDef def,
                   Pixels pixels)
Resets the given rendering settings to those that are specified by the 
 rendering engine intelligent pretty good image (PG) logic for
 the pixels set linked to that set of rendering settings. 
 | 
RenderingDef | 
IRenderingSettings.resetDefaultsNoSave(RenderingDef def,
                   Pixels pixels)
Resets the given rendering settings to those that are specified by the 
 rendering engine intelligent pretty good image (PG) logic for
 the pixels set linked to that set of rendering settings. 
 | 
<T extends IObject>  | 
IRenderingSettings.resetMinMaxInSet(Class<T> type,
                Set<Long> nodeIds)
Resets a the channel windows for one or many containers back to their
 global minimum and global maximum for the channel. 
 | 
Collection | 
IContainer.retrieveCollection(IObject dataObject,
                  String collectionName,
                  Parameters options)
Retrieves a collection with all members initialized ("loaded"). 
 | 
Collection | 
IContainer.retrieveCollection(IObject dataObject,
                  String collectionName,
                  Parameters options)
Retrieves a collection with all members initialized ("loaded"). 
 | 
List<Experimenter> | 
ILdap.searchByAttribute(String dn,
                 String attribute,
                 String value)
Searches all  
Experimenter in LDAP for specified
 attribute | 
List<Experimenter> | 
ILdap.searchByAttribute(String dn,
                 String attribute,
                 String value)
Searches all  
Experimenter in LDAP for specified
 attribute | 
List<Experimenter> | 
ILdap.searchByAttribute(String dn,
                 String attribute,
                 String value)
Searches all  
Experimenter in LDAP for specified
 attribute | 
List<Experimenter> | 
ILdap.searchByAttributes(String dn,
                  String[] attributes,
                  String[] values)
Searches all  
Experimenter in LDAP for specified
 attributes. | 
List<Experimenter> | 
ILdap.searchByAttributes(String dn,
                  String[] attributes,
                  String[] values)
Searches all  
Experimenter in LDAP for specified
 attributes. | 
List<Experimenter> | 
ILdap.searchByAttributes(String dn,
                  String[] attributes,
                  String[] values)
Searches all  
Experimenter in LDAP for specified
 attributes. | 
Experimenter | 
ILdap.searchByDN(String userdn)
Searches one  
Experimenter in LDAP for specified
 Distinguished Name - String | 
List<String> | 
ILdap.searchDnInGroups(String attr,
                String value)
Searches Distinguished Name -  
String in groups | 
List<String> | 
ILdap.searchDnInGroups(String attr,
                String value)
Searches Distinguished Name -  
String in groups | 
void | 
IConfig.setConfigValue(String key,
              String value)
set a configuration value in the backend store. 
 | 
boolean | 
IConfig.setConfigValueIfEquals(String key,
                      String value,
                      String test)
Calls  
IConfig.setConfigValue(String, String) if and only if the
 configuration property is currently equal to the test argument. | 
void | 
IAdmin.setDefaultGroup(Experimenter user,
               ExperimenterGroup group)
sets the default group for a given user. 
 | 
void | 
IAdmin.setDefaultGroup(Experimenter user,
               ExperimenterGroup group)
sets the default group for a given user. 
 | 
void | 
ILdap.setDN(Long experimenterID,
     String dn)
Deprecated. 
 
As of release 5.1, relevant model objects have the "ldap"
             property added to their state. 
 | 
void | 
ILdap.setDN(Long experimenterID,
     String dn)
Deprecated. 
 
As of release 5.1, relevant model objects have the "ldap"
             property added to their state. 
 | 
void | 
IAdmin.setGroupOwner(ExperimenterGroup group,
             Experimenter owner)
adds the user to the owner list for this group. 
 | 
void | 
IAdmin.setGroupOwner(ExperimenterGroup group,
             Experimenter owner)
adds the user to the owner list for this group. 
 | 
void | 
IRenderingSettings.setOriginalSettingsForPixels(long pixelsId)
Resets an Pixels' default rendering settings back to channel global
 minimum and maximum. 
 | 
Set<Long> | 
IRenderingSettings.setOriginalSettingsInDataset(long datasetId)
Resets a dataset's rendering settings back to channel global
 minimum and maximum. 
 | 
void | 
IRenderingSettings.setOriginalSettingsInImage(long imageId)
Resets an image's default rendering settings back to channel global
 minimum and maximum. 
 | 
<T extends IObject>  | 
IRenderingSettings.setOriginalSettingsInSet(Class<T> type,
                        Set<Long> nodeIds)
Resets a rendering settings back to channel global minimum and maximum
 for the specified containers. 
 | 
String | 
JobHandle.setStatusAndMessage(String status,
                   String message)
Like  
JobHandle.setStatus(String) but also sets the message. | 
long | 
JobHandle.submit(Job job)
Submits a  
Job and returns its database id. | 
void | 
IContainer.unlink(ILink[] dataOjectLinks,
      Parameters options)
Removes links between OmeroDataObjects e.g Project-Dataset, Dataset-Image
 Note that the objects themselves aren't deleted, only the Link objects. 
 | 
void | 
IAdmin.unsetGroupOwner(ExperimenterGroup group,
               Experimenter owner)
removes the user from the owner list for this group. 
 | 
void | 
IAdmin.unsetGroupOwner(ExperimenterGroup group,
               Experimenter owner)
removes the user from the owner list for this group. 
 | 
<T extends IObject>  | 
IContainer.updateDataObject(T dataObject,
                Parameters options)
Updates a data object. 
 | 
IObject[] | 
IContainer.updateDataObjects(IObject[] dataObjects,
                 Parameters options)
convenience method to save network calls. 
 | 
<T extends IEnum>  | 
ITypes.updateEnumeration(T oEnum)
updates enumeration value specified by object 
 | 
<T extends IEnum>  | 
ITypes.updateEnumerations(List<T> listEnum)
updates enumeration value specified by object 
 | 
void | 
IAdmin.updateExperimenter(Experimenter experimenter)
Updates an experimenter if admin or owner of group. 
 | 
void | 
IAdmin.updateExperimenterWithPassword(Experimenter experimenter,
                              String password)
Updates an experimenter if admin or owner of group. 
 | 
void | 
IAdmin.updateGroup(ExperimenterGroup group)
Updates an experimenter group if admin or owner of group. 
 | 
void | 
IAdmin.updateSelf(Experimenter experimenter)
Allows a user to update his/her own information. 
 | 
| Modifier and Type | Method and Description | 
|---|---|
Long | 
MetadataImpl.countAnnotationsUsedNotOwned(Class annotationType,
                            long userID)
Implemented as specified by the  
IMetadata I/F | 
Long | 
MetadataImpl.countSpecifiedAnnotations(Class type,
                         Set<String> include,
                         Set<String> exclude,
                         Parameters options)
Implemented as specified by the  
IMetadata I/F | 
RenderingDef | 
RenderingSettingsImpl.createNewRenderingDef(Pixels pixels)
Implemented as specified by the  
IRenderingSettings I/F | 
ExperimenterGroup | 
AdminImpl.getDefaultGroup(long experimenterId)  | 
Map | 
MetadataImpl.getTaggedObjectsCount(Set<Long> tagIds,
                     Parameters options)
Implemented as specified by the  
IMetadata I/F | 
<A extends Annotation>  | 
MetadataImpl.loadAnnotation(Set<Long> annotationIds)
Implemented as specified by the  
IMetadata I/F | 
Set<IObject> | 
MetadataImpl.loadAnnotationsUsedNotOwned(Class annotationType,
                           long userID)
Implemented as specified by the  
IMetadata I/F | 
Set | 
MetadataImpl.loadChannelAcquisitionData(Set<Long> ids)
Implemented as specified by the  
IMetadata I/F | 
Map<Long,Set<IObject>> | 
MetadataImpl.loadLogFiles(Class<? extends IObject> rootNodeType,
            Set<Long> ids)  | 
<A extends Annotation>  | 
MetadataImpl.loadSpecifiedAnnotations(Class type,
                        Set<String> include,
                        Set<String> exclude,
                        Parameters options)
Implemented as specified by the  
IMetadata I/F | 
<A extends Annotation>  | 
MetadataImpl.loadSpecifiedAnnotationsLinkedTo(Class type,
                                Set<String> include,
                                Set<String> exclude,
                                Class rootNodeType,
                                Set<Long> rootNodeIds,
                                Parameters options)
Implemented as specified by the  
IMetadata I/F | 
<A extends Annotation>  | 
MetadataImpl.loadSpecifiedAnnotationsLinkedTo(Class type,
                                Set<String> include,
                                Set<String> exclude,
                                Class rootNodeType,
                                Set<Long> rootNodeIds,
                                Parameters options)
Implemented as specified by the  
IMetadata I/F | 
<A extends Annotation>  | 
MetadataImpl.loadSpecifiedAnnotationsLinkedTo(Class type,
                                Set<String> include,
                                Set<String> exclude,
                                Class rootNodeType,
                                Set<Long> rootNodeIds,
                                Parameters options)
Implemented as specified by the  
IMetadata I/F | 
Map<Long,Set<IObject>> | 
MetadataImpl.loadTagContent(Set<Long> tagIds,
              Parameters options)
Implemented as specified by the  
IMetadata I/F | 
void | 
AdminImpl.updateExperimenter(Experimenter experimenter)  | 
void | 
AdminImpl.updateExperimenterWithPassword(Experimenter experimenter,
                              String password)  | 
void | 
AdminImpl.updateGroup(ExperimenterGroup group)  | 
void | 
AdminImpl.updateSelf(Experimenter e)  | 
| Modifier and Type | Method and Description | 
|---|---|
int | 
SessionBean.closeSession(Session session)  | 
Session | 
SessionBean.createSession(Principal principal,
             String credentials)  | 
Session | 
SessionBean.createSessionWithTimeout(Principal principal,
                        long milliseconds)  | 
Session | 
SessionBean.createSessionWithTimeouts(Principal principal,
                         long timeToLiveMilliseconds,
                         long timeToIdleMilliseconds)  | 
int | 
SessionBean.getReferenceCount(String sessionUuid)  | 
Session | 
SessionBean.getSession(String sessionUuid)  | 
Session | 
SessionBean.updateSession(Session session)  | 
| Modifier and Type | Method and Description | 
|---|---|
CommentAnnotation | 
ShareBean.addComment(long shareId,
          String commentText)  | 
<T extends IObject>  | 
ShareBean.addObject(long shareId,
         T object)  | 
<T extends IObject>  | 
ShareBean.addObjects(long shareId,
          T... objects)  | 
CommentAnnotation | 
ShareBean.addReply(long shareId,
        String comment,
        CommentAnnotation replyTo)  | 
CommentAnnotation | 
ShareBean.addReply(long shareId,
        String comment,
        CommentAnnotation replyTo)  | 
<T extends IObject>  | 
ShareBean.createShare(String description,
           Timestamp expiration,
           List<T> items,
           List<Experimenter> exps,
           List<String> guests,
           boolean enabled)  | 
void | 
ShareBean.deleteComment(Annotation comment)  | 
Set<Session> | 
ShareBean.getMemberSharesFor(Experimenter user,
                  boolean active)  | 
Set<Session> | 
ShareBean.getSharesOwnedBy(Experimenter user,
                boolean active)  | 
<T extends IObject>  | 
ShareBean.removeObject(long shareId,
            T object)  | 
<T extends IObject>  | 
ShareBean.removeObjects(long shareId,
             T... objects)  | 
                
                
Version: 5.1.4-ice35-b55
Copyright © 2015 The University of Dundee & Open Microscopy Environment. All Rights Reserved.