PMA.core 3.0.1

PMA.core 2.0.0 is revision 1803 of the PMA.core codebase. It follows PMA.core 1.2.2 (revision 915). It is a major revision, with many new features.

Cloud storage support

• Support for the S3 protocol, most known from Amazon AWS. The protocol is supported by many other vendors, including IBM, Western Digital (HGST), and Arvados, amongst others.
• Support for Microsoft Azure storage
• Databases can now be stored directly in Amazon's RDS, or Microsoft Azure SQLServer resources. If so desired, customers no longer need to depend on on-server installation of Microsoft SQLServer.

File format support [ see also page on file formats ]

• Improved TIFF file handling
• Added support for single component JPEG2000 streams and fluorescent SVS slides
• Added support for Aperio AFI slides
• Added support for Hamamatsu NDPIS slides
• Prevent reading channel color in brightfield images
• Improved Perkin Elmer QPTIFF slide handling
• Added support for DICOM and TIFF export in render region
• Added Olympus Webview format
• Implement z-stacks for Leica SCN slides
• Improved MRXS handling and rendering (memory usage with respect to tile coordinates)
• Improved BIF handling
• Re-wrote CZI parsing logic (so not not be dependent on vendor binaries and be able to support the file format in a cloud context)
• Added support for Unic Tech TMAP file format
• Improved support for Huron TIFF slides
• Added support for JPEGXR-encoded MRXS slides
• Added support for Perkin Elmer QPTiff brightfield slides
• Added support for Microsoft Deepzoom DZI file format (also used by OpenSeaDragon)
• Added support for multi-file OME TIFF slides
• Added support for JPEG-XR (as a separate file format).
• ImageInfo dictionaries are now enriched with vendor-specific meta-data
• Improved support for Olympus VSI slides (z-stacking, fluo)
• Added support for KFBio file format
• Added support for Omnyx RTS file format
• Added support for Philips iSyntax file format
• Improved support for DICOM (YCbCr photometric interpretation and JPEG 2000 streams)
• Improved support for NDPI (barcode clipping)

Meta-data handling [ see also blog article ]

• Increased form label and name length
• Increased FormFieldValue length
• Manage external connections and data sources (SQLServer / Oracle)
• Form list value IDs are not zero-based (when set via the API)
• Implemented PMANN (Pathomation Annotation) provisions for grouped annotation sets

External annotation support

• PMA.core 2.0 supports MLD annotation files from Visiopharm, and ANNOTATION annotation files from Indica Labs (HALO).
• PMA.core 2.0 supports embedded (native) annotations from a number of select hardware vendors, including Aperio (SVS) and 3DHistech (MRXS).
• Export annotations to HALO Indicate Labs .ANNOTATION files
• Export annotations to Visiopharm .MLD files
• Export annotations to Aperio XML files
• Convert native and 3rd party annotations to other formats

Other features

• Fixed bug with regards to Elmah error handling
• Software no longer depends on in-memory tile caching, which was buggy
• Fixed bug in ACL overview
• Fix in installation checks
• Obtain a user's IP address when a session is accessed
• Add “Any” option to password restriction config
• Fixed references to use /admin instead of /api where needed, which leads to a more secure application
• Add check for expired sessions in admin/SessionInfo
• Conditionally reject users with duplicate email addresses; also check for email uniqueness during user update
• Improved email report
• Only search online root-directories; catch Amazon S3 exceptions and continue searching
• Improved handling of non-existing root-directories
• Error string fixed
• Proper handling of empty cache
• User interface improvements for image management pages
• Improved cache control
• License history is now available for troubleshooting and tracking
• Fingerprinting can now be used to request annotations and forms (meta-data)
• Added support for TLS 1.2
• Updated barcode reading (OCR) library
• LDAP improvements
• Added built-in search capabilities to image management pages
• Site-to-site slide transfer is now possible (works independently from PMA.transfer )
• Implemented channel clipping and (fluo) histogram functionality
• Root-directories can now have a quota limit

Developer support

• Improved swagger documentation
• Added PMA.UI slide visualization framework documentation
• Add SessionInfo call to AdminService API
• Enhancements with regards to tracing database security
• Control root directory access through AdminService API
• Suspend user accounts via API
• ExportAnnotations() API call allows for automated annotation export and conversion
• Improved API capabilities for form (meta-data) automation
• Upload automation is possible as an alternative to PMA.transfer
• Several API methods were re-implemented to now support multiple SlideRef arguments for improved performance

See also

PMA.core release history