Contents of this Page
Highlights of caArray 2.5.0 released in July, 2012
- User enhancements
- Improved large data support
- Large datasets can now be imported together – it is no longer necessary to split large imports into smaller subsets.
- Large datasets can be uploaded easily via multiple file selection, drag and drop. (not supported in Internet Explorer)
- Audit logging of sample and data additions and deletions
- Ability to restrict access to samples based on sample characteristics
- Support for automatic refresh of experiments from caIntegrator by providing information about sample and data changes.
- Ability to configure single sign-on between caArray and caIntegrator.
- Improved large data support
- Technical enhancements
- Improved file storage: Uploaded files are now stored on the file system instead of in the database.
- A plugin architecture allowing the user community to develop and deploy parsers for new data types easily.
- Major technology upgrades: Jboss 5.1, Java 6, caGrid v1.5, Struts 2.3.1.5, and NCI build-and-deploy infrastructure (NCI Nexus repository, AntHill Pro 3, BDALite).
For more information refer to the Release Notes.
Highlights of caArray 2.4.1 released on 10/3/2011
- The 2.4.1 release (caArray 2.4.1 Release Note) addresses the following issues:
- Visibility into the queue of import and validation jobs, and where your job is in relation to other jobs in the system. Ability to cancel a queued job.
- Search for experiments by publication author or PubMed ID.
- Organisms are now restricted to terms from the NCBI Taxonomy.
- Bug fix to allow proper import of Agilent array design files where the chromosome name is not in a strictly numeric or X/Y format.
- The installer no longer depends on an internet connection.
- Fix to bug where experiments with multiple array designs may cause copy number data to get imported as "Imported (Not Parsed)".
Highlights of caArray 2.4.0.2 released on 2/17/2011
- The 2.4.0.2 release (caArray 2.4.0.2 Release Note) addresses the following issues with the 2.4.0 release:
- Fixes an error which causes copy number data to not parse.
- Addresses issues recently found with 2.4.0 installers.
Highlights of caArray 2.4.0.1 released on 1/6/2011
- The 2.4.0.1 release addresses the following issues with the 2.4.0 release:
- Fixes occasional out-of-memory errors with the parsers.
- Addresses null pointer exception in the upgrade installer.
- Adds probe name validation to the data file parsers.
- Adds a security patch to Struts 2.1.x.
- Correctly validates Genepix GAL array designs with non-integer block header information.
Highlights of caArray 2.4.0 released on 9/21/2010
- This release represents a feature release of the caArray 2 software. Highlights of caArray 2.4.0 are:
- Agilent raw TXT for aCGH, expression and miRNA assays
- Agilent GEML/XML array designs
- Nimblegen pair Report TXT (raw and normalized)
- Nimblegen NDF array designs
- Illumina Sample Probe Profile TXT
- Illumina genotyping processed data matrix TXT
- Illumina BGX/TXT array designs
- Affymetrix CEL and CHP in AGCC/Calvin formats in addition to the GCOS formats
- Affymetrix CNCHP copy number data (CN4 and CN5)
- Copy Number data in a prescribed MAGE-TAB Data Matrix format.
- If you have copy number data that is not in the caArray-prescribed Copy Number MAGE-TAB Data Matrix format, we provide a conversion utility. The conversion utility is found inside the cn2magetab.jar file, and is invoked from the command line. Please see the README_copy_number_conversion.txt for more details on its operation.
