v287
- v287 Preview 1 - 15 July 2013
- v287 Preview 2 - 22 July 2013
- v287 Final - 29 July 2013
Code changes:
- Improved performance of hgTracks search and hgFiles search (#11155). Tim
- Added support for 'factorSource' file format. Kate
- Added support for displaying external html pages directly in details pages (iframeUrl and iframeOptions in trackDb settings). Max
- Enable SIGPIPE on linefile gzip subprocesses to allow closing the reading of compressed files before EOF is reached. Mark
- Updated links to APPRIS on Gencode Genes details pages, which now requires a species name (#11074). Mark
- hgVai now shows one-time disclaimer dialog box instead of big disclaimer message that can obscure the "Get results" button (#6152). Angie
- Fixed annoStreamDb bug reported by user (#11401). Angie
- Fixed lack of filter coverage for complex_transcript_variant (#6152). Angie
- Removed hard-coded http string from hgLogin and hgSession (#8922). Chin
- Removed reference to 32-bit CGI build (#9403). Chin
- Tweaked wording on hgLogin messages (#9526). Chin
- Accommodated changes to hgwbeta by: changing the meaning of make beta in CGI directories to build into hgwdev-beta, updating both hgwbeta and hgwdev-beta when making beta in trackDb/htdocs.
- Modified the build procedure to work on hgwdev. Brian
- Changed hgGene to not set the chromosome position in the cart (#11202). Brian
- Added our hg.conf files to git (#8383). Brian
- Be more explicit about what is required and isn't required in assembly hubs (#11281). Brian
- Renamed alphaAsm to linearSat, a better name for the centromere work. Jim
- Ongoing work on ENCODE3. Jim, Galt
- Ongoing work to allow visualization of nested Repeat Masker tracks (#9741). Hiram
- Fixed multi-threaded race condition in errAbort by adding a mutex. Galt
- Added a new proggram to test out-of-memory using rlimit to set memory limits. Galt
- Added a new utility mysqlSecurityCheck to verify that CGI mysql users can not access the mysql database itself. Galt
- Tweaked jksql function to allowing connect when db is NULL. This fixed tdbQuery which used to connect to mysql db which is now blocked for security. Galt
Data changes:
- Ongoing work on the 100-way analysis (#10272). Hiram
- New assembly browser for sheep, oviAri3 (#9409). Hiram
- Ensembl Genes update v72 (#11114). Hiram
- Added filter descriptions to hgVaiHelpText.html (#6152). Angie
- Rebuild the foldUtr tables for mm10. Brian
- Added Pfam in UCSC genes to hg18. Brian