SSDM-5370 : openBIS sync datasource doesn't scale - in data source connector use the same logger as in the harvester (depending on the sync configuration it can log to a dedicated log file) + improve merging of resource list parts (e.g. fix xml namespaces problems)

SVN: 38951

SSDM-5370 : openBIS sync datasource doesn't scale - change the harvester to properly handle both regular resource lists as well as resource list indices

SVN: 38947

SSDM-5370 : openBIS sync datasource doesn't scale - improve performance of fetching entities from the datasource

SVN: 38913

SVN: 38889

SSDM-5639: If necessary save temporarily HDF5 file from the TAR archive in order to scan it for its content.

SVN: 38792

SVN: 38766

SVN: 38762

SSDM-5661 : AS V3 API : Support for semantic annotations - create/get methods (JS tests still missing) - bugfixes

SVN: 38757

SVN: 38747

SVN: 38715

SVN: 38713

SSDM-5515: Extending Hdf5AwareHierarchicalContentFactory in order to handle content with multiple data sets (called tree roots). Making TarArchiver and MultiDataSetArchiver h5 folder flags aware.

SVN: 38712

SVN: 38710

SVN: 38641

SSDM-5400: Refactoring Hdf5AwareHierarchicalContentFactory. Remove unnecessary argument in constructor of PathinfoDatabaseFeedingTask. PathinfoDatabaseFeedingTaskTest rewritten by using real files as examples. Also tests for h5Folders and h5arFolders added.

SVN: 38640

SVN: 38637

SVN: 38600

SVN: 38587

SVN: 38586

SVN: 38585

SVN: 38584

SVN: 38583

SVN: 38582

SSDM-5256: updated alfresco jlan to version 6.2; added new dependency; added and modified classes form previous release for xml configuration

SVN: 38449

SVN: 38408

SVN: 38407

SSDM-5101 :V3 API: Allowing ... - Additions to the old machinery to support registration of data sets uploaded to rcp-incoming via json API.

SVN: 38406

SVN: 38391

SVN: 38389

SSDM-5097: PathinfoDatabaseFeedingTask and PathInfo refactored. Calculate new checksum also in PathInfoDatabseChecksumCalculationTask and PathInfoDatabaseRefreshingTask

SVN: 38388

SVN: 38385

SSDM-5097: IHierarchicalContentNode.getChecksum() introduced in order provide checksum when searching for data set files in v3 API.

SVN: 38383

SVN: 38379

SVN: 38378

SSDM-5101 :V3 API: Allowing registering physical.. - new version not breaking dependency checking test

SVN: 38377

SSDM-5101 :V3 API: Allowing registering physical data sets via the JSON facade, servlet uploading files to share

SVN: 38347

SVN: 38275

SVN: 38268

SSDM-5049 : Fix NPE for name translation during experiment identifier extraction in resource list parser for samples

SVN: 38256

SVN: 38255