XMLPipeDB / News: Recent posts

GenMAPP Builder 2.0 Beta 66 Released

GenMAPP Builder 2.0 Beta 66 has been released. This release of GenMAPP Builder includes an important fix in the implementation of multi-species Gene Database exports and improvements on how the species name is determined and assigned. The taxon ID for the Saccharomyces cerevisiae species profile was also changed to 559292.

Posted by dondi 2011-11-07

GenMAPP Builder 2.0 Beta 65 Released

GenMAPP Builder 2.0b65 has been released. This release of GenMAPP Builder includes a preliminary implementation of multi-species Gene Database exports, as well as user interface changes to the export wizard. This version also updates the Gene Ontology database library to accommodate the latest elements included in GO OBO XML downloads.

Posted by dondi 2011-10-15

M. tuberculo GenMAPP Gene DB Update: 20110303

The XMLPipeDB project has updated the standard Mycobacterium tuberculosis H37Rv Gene Database. Detailed information on this database is contained in the included ReadMe.

Posted by Richard Brous 2011-03-04

M. smegmatis GenMAPP Gene DB Released

The XMLPipeDB project has released a standard M. smegmatis Gene Database. Detailed information on this database is contained in the included ReadMe.

Posted by Richard Brous 2011-03-04

S. typhimurium LT2 GenMAPP Gene DB Released

The XMLPipeDB project has released a standard S.typhimurium ATCC 700720, SGSC1412, LT2 Gene Database. Detailed information on this database is contained in the included ReadMe.

Posted by Richard Brous 2011-03-04

H. pylori 26695 GenMAPP Gene DB Released

The XMLPipeDB project has released a standard H. pylori 26695 Gene Database. Detailed information on this database is contained in the included ReadMe.

Posted by Richard Brous 2011-03-04

GenMAPP Builder 2.0 Beta 62 Released

GenMAPP Builder 2.0b62 Release Notes

This release of GenMAPP Builder changes the Backpage link out for OrderedLocusNames
for Mycobaterium tuberculosis.

Posted by Richard Brous 2011-03-04

GenMAPP Builder 2.0 Beta 61 Released

GenMAPP Builder 2.0b61 Release Notes

This release of GenMAPP Builder changes the Backpage link out for OrderedLocusNames
for Mycobaterium smegmatis

Posted by Richard Brous 2011-03-04

GenMAPP Builder 2.0b60 now available

This release of GenMAPP Builder adds species profiles for Helicobacter pylori, Mycobaterium smegmatis, and Salmonella typhimurium. The Tally Engine has also been reconfigured to include Ordered Locus Names as one of its default counts.

Posted by Richard Brous 2010-12-01

V. cholerae GenMAPP Gene DB Update: 20101022

The XMLPipeDB project has updated the standard Vibrio cholerae O1 biovar El Tor str. N16961 Gene Database. Detailed information on this database is contained in the included ReadMe.

Posted by dondi 2010-10-26

M. tuberculosis GenMAPP Gene DB Released

The XMLPipeDB project has released a standard Mycobacterium tuberculosis (strain H37Rv) Gene Database. Detailed information on this database is contained in the included ReadMe.

Posted by dondi 2010-10-25

GenMAPP Builder 2.0 Beta 59 Released

GenMAPP Builder 2.0 Beta 59 has been released. This release of GenMAPP Builder adds a descriptive error message when attempting to export to a GenMAPP database when running GenMAPP Builder in 64-bit Java.

Posted by Don Murphy 2010-10-04

GenMAPP Builder 2.0 Beta 58 Released

GenMAPP Builder 2.0 Beta 58 has been released. This release of GenMAPP Builder fixes an issue encountered with 64-bit Java runtime environments, previously identified as a Windows 7 issue. To avoid the error, when exporting to a GenMAPP database, have a 32-bit Java runtime environment installed and start GenMAPP Builder using gmbuilder-32bit.bat.

Posted by Don Murphy 2010-09-29

GenMAPP Builder 2.0 Beta 57 Released

GenMAPP Builder 2.0 Beta 57 has been released. This release of GenMAPP Builder fixes a regular expression syntax error encountered with the previous Windows 7 fix attempt.

Posted by Don Murphy 2010-09-23

GenMAPP Builder 2.0 Beta 56 Released

GenMAPP Builder 2.0 Beta 56 has been released. This release of GenMAPP Builder attempts another potential fix to allow Access database connection in Windows 7.

Posted by Don Murphy 2010-09-22

GenMAPP Builder 2.0 Beta 55 Released

GenMAPP Builder 2.0 Beta 55 has been released. This release of GenMAPP Builder attempts another potential fix to allow Access database connection in Windows 7.

Posted by Don Murphy 2010-09-22

GenMAPP Builder 2.0 Beta 54 Released

GenMAPP Builder 2.0 Beta 54 has been released. This release of GenMAPP Builder attempts another potential fix to allow Access database connection in Windows 7.

Posted by Don Murphy 2010-09-21

GenMAPP Builder 2.0 Beta 53 Released

GenMAPP Builder 2.0 Beta 53 has been released. This release of GenMAPP Builder implements some Tally Engine customizations for M. tuberculosis, including removal of ORF tallies and filtering of database tallies to IDs beginning with Rv only. The XML tally function does not currently support selective text filtering, so is currently not included yet. Thus, the XML tally function still reports all "ordered locus" IDs for M. tuberculosis, and not just those beginning with Rv.

Posted by dondi 2010-09-20

GenMAPP Builder 2.0 Beta 52 Released

GenMAPP Builder 2.0b51 has been released. This release of GenMAPP Builder adds support for Windows 7.

Posted by Don Murphy 2010-09-16

GenMAPP Builder 2.0 Beta 51 Released

GenMAPP Builder 2.0b51 has been released. This release implements customizations for M. tuberculosis and changes the default UniProt species profile behavior to use just "ordered locus" records for gene IDs.

Posted by dondi 2010-09-13

GenMAPP Builder 2.0 Beta 50 Released

GenMAPP Builder 2.0 Beta 50 has been released. This version of GenMAPP Builder includes further user interface and behavioral refinements. In particular, most lengthy operations now have a properly-threaded progress bar. Because it uses XMLPipeDB Utilities 2.3, it now requires Java 1.6 or later.

Posted by dondi 2010-08-03

XMLPipeDB Utilities 2.3 Released

XMLPipeDB Utilities 2.3 has been released. This release of XMLPipeDB Utilities further streamlines and improves various user interface elements and behaviors in the library, such as:

- A consistent, properly threaded progress bar for imports and other lengthy operations

- More detailed instructions for advanced database configuration

- Continuing externalization of strings

As a result of these improvements, XMLPipeDB Utilities now also requires Java 1.6 or higher.... read more

Posted by dondi 2010-08-03

GenMAPP Builder 2.0 Beta 49 Released

GenMAPP Builder 2.0b49 has been released. This release of GenMAPP Builder continues work on the new custom database configuration user interface system, externalizes virtually all user interface resource strings, and makes several corrections to them.

Posted by dondi 2010-07-09

GenMAPP Builder 2.0 Beta 44 Released

GenMAPP Builder 2.0 Beta 44 has been released. This release addresses the possible presence of a version identifier such as "!gaf-version: 2.0" at the beginning of a GOA file.

Posted by dondi 2010-04-27

GenMAPP Builder 2.0 Beta 43 Released

GenMAPP Builder 2.0b43 has been released. This release includes the initial version of a major change in how GenMAPP Builder is used: instead of reading the GOA file at export time, it can now be imported into the relational database just like the UniProt and GO XML files. This change makes exports more streamlined and, based on preliminary testing, speeds up the export process.

Posted by dondi 2010-04-24