OMERO Version History

OMERO Beta 4.3.2 — released September 11

The OMERO Beta 4.3.2 point release, focuses on fixes for OMERO.web, export, and documentation. A couple of LDAP fixes were also added, following requests from the community. We also included something many of you have asked for some time, OMERO on virtual machines.

Full details are available on the milestone page.

OMERO Beta 4.3.1 — released July 11

The OMERO Beta 4.3.1 point release, focuses on fixes for Big Images, OMERO.web and others.

Details are available on the milestone page.

OMERO Beta 4.3.0 — released June 11

OMERO-Beta 4.3.0 is a major release, focussing on new functionality for large, tiled images, and significant improvements in our client applications.

The major theme of 4.3.0 is what we refer to as "Big Images", namely images with X,Y images larger that 4k x 4k. With this release, OMERO's server and Java and web clients support tiling and image pyramids. This means we have the functionality you've probably seen in on-line map tools (e.g., http://maps.google.com), ready for use in any image file format supported by OMERO (and obviously Bio-Formats). This is especially important for digital pathology, and other uses of stitched imaging.

While the major focus of 4.3.0 was Big Images, there are a number of other new updates. For users, we've worked hard to synchronise functionality and appearance across the OMERO clients. This includes viewing of ROIs in OMERO.web. We're not done, but we've made a lot of progress. Moreover, data import is now MUCH faster and available from within OMERO.insight.

Full details are available on the milestone page.

OMERO Beta 4.2.2 — released December 10

OMERO Beta 4.2.2 Fixes blocker reported using 4.2.1. Starting with this milestone, all tickets for the insight client are managed on Trac.

Full details are available on the milestone page.

However, see also this roadmap for Bio-Formats related tickets.

OMERO Beta4.2.1 — released November 10

Today, The OME Consortium (http://www.openmicroscopy.org/site/about/development-teams), is proud to release OMERO-Beta4.2.1.

OMERO Beta4.2.1 is a point release, focussing on fixes for delete functionality, and significant improvements in the way OMERO.web production server is deployed.

Full details are available on the milestone page.

OMERO Beta 4.2.0 — released July 10

This release is a major step for OMERO, enabling a number of critical features for a fully functional data management system: User & Group Permissions, and data visibility between users; updates to the OME SPW Model and improvements in HCS data visualization; SSL connection between OMERO clients and server; full scripting system, accessible from command line and within OMERO.insight, including Figure Export and FLIM Analysis; ROIs generated in OMERO.insight stored on server; extended use of OMERO.Tables for analysis results; performance improvements for import, and server-side import histories; major overhaul to Bio-Formats, adding multi-threading; revamped, fully functional OMERO.web web browser interface; upgrade of Backend libraries in OMERO.server

OMERO Beta 4.1.1 — released December 09

This release fixes a series of small bugs in our previous Beta4.1 release

OMERO Beta 4.1 — released October 09

Improved support for metadata, especially for confocal microscopy; OMERO supports all of the file formats enabled by Bio-Formats. Export to OME-TIFF and QuickTime/AVI/MPEG from OMERO. Various improvements to OMERO clients to improve workflow and use.

• new feature-- OMERO.qa. This is a feedback mechanism, to allow us to communicate more effectively with our community. OMERO.qa supports uploading of problematic files, and tracking of responses to any user queries. Moreover, OMERO.qa includes a demo feature: in collaboration with Urban Liebel at Karlsruhe Institute of Technology, we are providing demo accounts for OMERO. Use the Demo link at qa to contact us if you are interested in this.

• "Prerelease features". For users who have had problems with memory-based crashes in OMERO.insight, the new OpenGL-based ImageViewer may be of interest. Also, we are now taking advantage of our modeling of HCS data, and releasing our first clients that support Flex, MIAS, and InCell 1000 file formats. OMERO.dropbox has been substantially extended, and now supports all the file formats supported by OMERO.
  

OMERO Beta 4.0.1 — released April 09

A quick patch release that fixes some bugs and adds some new functionality.

• Fixed Windows installation and updated docs.
• Bug fixes (scriptingEngine, importer).
• Fix .lif import, add Li-Cor 2D (OMERO does gels!).
• API .dv and OME .ome.tiff now supported by OMERO.fs.
• Support negative pixel values in Rendering Engine.
• Archived images are now fully supported in OMERO.
• OMERO.web merged with OmeroPy in distribution.

OMERO Beta 4.0 — released March 09

A major change in the remoting infrastructure, complete migration of existing OMERO clients to the ICE framework, two new OMERO clients, and itegration of OMERO.editor into OMERO.insight.

• OMERO.server: remove JBOSS, and switch all remoting to ICE. Improve session management, supporting creation of many thousands of session. Addition of an import service, for server-side importing. DB upgrades to support the metadata completion facilities. Substantial improvement to interaction between indexing engine and rest of server.
  

• OMERO.importer: Migration to Blitz interface, giving much faster performance. More efficient importing, complete metadata support for Zeiss LSM510, Leica LIF, Zeiss ZVI, Applied Precision DV, and MetaMorph STK. Add command line importer for batch import.

• OMERO.insight: Migration to Blitz interface, giving much faster performance. Updates to metadata display, include complete support for OME Data Model. Much expanded integration of protocol management via OMERO.editor, within OMERO.insight. Support for image delete. Refinement of Projection Interface.

• OMERO.web: all new browser-based client for OMERO. Enables sharing of images with colleagues (must have account on server)

• OMERO.editor: a management tool for experimental protocols, now fully integrated with OMERO.insight, so that protocols and experimental descriptions can be saved along with images and datasets. Includes a new parameters function, so that protocols in traditional documents can be easily imported into OMERO. Supports, tables and .xls files. Also runs as a standalone application.

• OMERO.fs: a new OMERO client, that monitors a specific directory and enables automatic imports. In its first incarnation, has quite limited functionality, supporting automatic import of LSM510 files only.

OMERO Beta 3.2 — released November 08

The final update in the Beta3.x series. A number of fixes: Faster thumbnailing and better support for large numbers of thumbnails; Improved handling of Leica .lei and Zeiss .zvi files; Extended support for reading OMERO.editor files in OMERO.insight; Measurement tool fixes in OMERO.insight; Fix memory problem in OMERO.insight on Windows; Fixed thumbnailing and session bugs on OMERO.server; Fixed DB upgrades for older PostgreSQL versions.

OMERO Beta 3.0 — released June 08

This release of OMERO is a major update of functionality. In OMERO.server, we have added support for StructuredAnnotations a flexible data management facility that allows essentially any kind of accessory data to be linked to images and experiments stored in OMERO. Alongside this, we provide an indexing engine, that provides a flexible searching facility for essentially any text stored in an installation of OMERO.server. Finally, we are releasing our first examples of clients that use the OMERO.blitz server, a flexible, distributed interface that supports a range of client environments. One very exciting addition is OMERO matlab, a gateway that can be used to access OMERO from Matlab®. We've put up a screencast movie of this system in action.

OMERO Beta3.0 includes a substantial reworking of our clients as well. OMERO.insight has been substantially updated, with an updated interface to provide a more natural workflow and support for many different types of annotations, through the StructuredAnnotations facility. The new search facilities are supported with smart user interfaces, with auto-complete, etc. New file formats have been added to OMERO.importer, including support for OME-XML, and an improved import history facility is now available. Finally, Beta3.0 includes the first release of our experimental electronic notebook tool, OMERO.editor. This represents our recent efforts to capture as much metadata around an experiment as possible.

OMERO Beta 2.3.3 insight — released April 08

A new Beta 2.3.3 OMERO.insight has been released, this adds rotation to ellipse figure, and new format for saving intensity values.

Note: this version saves the ROI's in a format which is incompatible with previous saved ROIs.

OMERO Beta 2.3.1 importer — released Feb 08

A new Beta 2.3.1 OMERO.importer has been released which includes a number of new formats: Zeiss AxioVision ZVI (Zeiss Vision Image), Nikon NIS-Elements .ND2 , Olympus FluoView FV1000, ICS (Image Cytometry Standard), PerkinElmer UltraView, and Jpeg2000.

The OMERO downloads for Beta 2.3 include a number of new options including: a new import history feature, a windows server installation, and a new tagging feature for OMERO.insight.

Note: milestone:3.0-Beta2.3 and prior Mac OS X Installers for OMERO.server do not work on Mac OS X Leopard (10.5). Please follow the UNIX Based Platform manual install instructions. Mac OS X Installers for OMERO.insight and OMERO.importer work just fine under Leopard and can be used.

OMERO Beta 2.3 — released Dec 07

This is a patch release for OMERO.server to fix a memory problem. In OMERO.insight, updating of the tagging facility, viewing of other's rendering settings and support for server-side compression of images before transport to client.

OMERO Beta 2.2 — released Nov 07

In this release we have updated OMERO.server to run a newer version of JBOSS and provided support for copying display settings across a range of images. More new file formats. OMERO.insight has been updated to support copying display settings across many images. Image Viewer has been substantially updated.

OMERO Beta 2.1 — released Aug 07

This is a client only release-- OMERO.insight now supports basic ROI measurements] and a series of new file formats have been added. The OMERO downloads for Beta 2.0 have been simplified. OMERO.insight and OMERO.importer have been combined into a single download file called 'OMERO.clients' and the user documentation is now included inside of the server and client downloads.

OMERO Beta 2.0 — released June 07

Note: this version will still work with the Beta 1 server release. This major update provided our first support for multiple platforms via OMERO.Blitz. OMERO.insight now supports viewing work of multiple users (see milestone ). Beta2 is our first release of the Web2.0-like 'tag' system developed in collaboration with Usable Image. This version addresses issues with using our tools under Java 1.6

OMERO Beta 1.1 — released Mar 07

Patch release to fix time-out issues.

OMERO Beta 1 — released Jan 07

The first public OMERO release, providing simple data management. Limited file format support (DV, STK, TIFF). Simple data visualization and management. Full details are here.

Milestone M3 — released Nov 06

Rendering and compression API and client-side import. Access control and permissions system. Importer based on Bio-Formats. Full details are here.

Milestone M2 — released Jul 06

The stateful rendering service is functional and all rendering code moved from Shoola Java Client to the server. Also, the stateless services (IQuery,IUpdate,IPojos) are frozen and testing and documentation is checked and solidified. Full details are here.

Milestone M1 — released Apr 06

Contains minimal functionality needed to run Shoola Java Client without Perl server to demonstrate acceleration of metadata access. Application deployed on JBoss. No ACLs or permissions.