Here are the archived news on the previous caArray Releases
2009 What's New in caArray
Highlights of caArray 2.3.1 released on 2/2/2010
The release notes can be found at https://cabig-kc.nci.nih.gov/Molecular/uploaded_files/5/5f/Caarray_release_notes_2_3_1_1.txt.
- This release represents a feature release of the caArray 2 software. Highlights of caArray 2.3.1 are:
- Export to GEO: Affymetrix single-channel CHP experiments
- 17972: Allow deletion of already imported but not parsed data files
- A production version of caArray 2.3.0 is available on the NCI CBIIT production server: array.nci.nih.gov.
Highlights of caArray 2.3.0 released on 11/16/2009
The release notes can be found at http://gforge.nci.nih.gov/frs/shownotes.php?release_id=3428.
- This release introduces the new caArray service API v1.0 that has several advantages over the legacy API:
- It sets the framework for backwards compatibility. You will have greater flexibility in planning your application releases instead of being tied to the caArray release schedule.
- It provides a richer set of API methods that let you retrieve data in a more intuitive way. You no longer have to write complicated queries or a series of queries in order to perform common data retrieval tasks.
- It provides better performance for several common use cases.
- A production version of caArray 2.3.0 is available on the NCI CBIIT production server: array.nci.nih.gov.
Highlights of caArray 2.2.1 released on 5/21/2009
- The key features for this minor release of caArray are the ability to change experiment and collaborator group ownership and a requirement to submit GenePix data using MAGE-TAB files in order to disambiguate the sample - data file relationships.
For a listing of items addressed in this release and known issues, please see the Release Notes: http://gforge.nci.nih.gov/frs/shownotes.php?release_id=3377.
For groups interested in installing caArray 2.2.1 locally, the full installation package as well as an upgrade installer and associated documentation available at our distribution site: http://gforge.nci.nih.gov/frs/?group_id=305.
Highlights of caArray 2.2.0 released on 1/21/2009
- Approximately 80 features/issues were addressed in this release (see the release note). Highlights of this release are:
- Sample search:
- The user can now search for biomaterials (Samples and Sources) in the system.
- The keyword search can be applied to one of a list of standard or predefined categories, or to arbitrary categories previously imported into the system via Characteristic[] columns in a MAGE-TAB SDRF document.
- Export experiment annotations in MAGE-TAB format:
- The user can generate and download a MAGE-TAB file set describing the annotations of an experiment.
- The generated MAGE-TAB includes the relationship between biomaterials, hybridizations and data files, and also characteristics of the biomaterials.
- The generated MAGE-TAB does not contain information about experimental factors, protocols, publications or people.
- Bulk-update of experiment annotations using MAGE-TAB import:
- When a MAGE-TAB file set is being imported, the System recognizes references to existing biomaterials and hybridizations by name.
- Biomaterial linkages can be modified in an additive way via MAGE-TAB import. Existing linkages and biomaterials cannot be deleted via MAGE-TAB import.
- Biomaterial characteristics can be modified or new characteristics added via MAGE-TAB import.
- Support for GEO and ScanArray data:
- Data files can be designated as GEO SOFT or GEO GSM and then imported (without parsing) and associated with samples.
- ScanArray CSV data files can be imported (without parsing) and associated with samples.
- Enhanced usability of permissions management workflow:
- While setting sample-selective access for an experiment, the user can do a keyword search for Samples against a set of categories, select the Samples of interest, and grant access to the selected Samples as a whole.
2008 What's New in caArray
Highlights of caArray 2.1.1 released on 10/24/2008
- caArray 2.1.1 was released as part of the Life Science Distribution (LSD) 1.1 release. It is available at NCICB (caArray 2.1.1 release note) and for local installation. Please download at https://gforge.nci.nih.gov/frs/?group_id=305. The following installer and installation guides are available:
- For a new caArray2 installation, please use caarray_distribution_2_1_1.zip
- To upgrade from any previous version of caArray 2.x, please use caarray_upgrade_2_1_1.zip
- Instructions for both are in the caArray 2.1.1 Installation Guide, caarray_2_1_1_installation_guide.pdf
- A self-paced demo on installing caArray has recently been made available. Please take a look at this site.
Highlights of caArray 2.1.0 released on 8/13/2008
- Key features in caArray 2.1.0 are:
- Improved efficiency of programmatic Grid API
- Grid Transfer makes for fast download of file contents.
- Grid retrieval of parsed array data is more efficient now.
- Flexible association of data files to biomaterials
- System can auto-generate individual biomaterial chains; OR
- System can auto-generate a single biomaterial chain; OR
- User can associate data files to a specific biomaterial/hybridization.
- New Sample-centric view
- A well-known URL to navigate directly to a Sample details page.
- Unique Sample External ID that is defined by the user.
- More than 40 items addressed from the Gforge trackers.
- Rembrandt gene expression data is now hosted on caArray.
- More TCGA data are now available.
- The User Guide for 2.1.0 will contain detailed documentation about creating MAGE-TABfiles for bulk import into caArray.