v332
- v332 Preview 1 - 18 April 2016
- v332 Preview 2 - 25 April 2016
- v332 Final - 2 May 2016
Code changes:
- New hgGateway (#15277) Angie
- Adding keyboard shortcuts to the dropdown menu and the help menu (#17212) Max
- Showing Ensembl id on hgGene page instead of UCSC id in gencode knownGene (#10968) Braney
- Various changes to BAM coverage mode (#952) Braney
- hgTables is now bottleneck-protected against robots - hgBotDelay() in htmlOpen() and new function hgBotDelayNoWarn() in textOpen().(#17163). Galt
- Fixed clipping problem with pgSnp for multi-region. (#16898) Galt
- Fixed hgc clicks for multi-region by restoring some missing parameters.(#16898) Galt
- Fixed hgTracks for custom track multi-region custom regions so it only hides custom tracks which have no data on all chroms (No RM, bam track only had chr21 data was displaying wrong) Galt
- Code support for 2 new provisional trackDb settings implemented for GTEx signal hub: hoverMetadata, darkerLabels (#15647) Kate
- Misc small changes to support Gencode v24 knownGene (#10968) Braney
- Bug fix for Genbank tracks that were grabbing records with id's that were prefixes of the requested id (#17188) Braney
- Fix bug in tableList caching that was preventing sqlTableExists from working with table names of the form db. (#16809) Braney
- Improved git-reports to allows users to see or hide the details about the commit ID and date -- handy if working with a list of git commit IDs. Galt
- LIB - improved error message for fileModTime Jim
- LIB - relaxed checking of some metadata in VCF files Jim
- UTILITY - made a program that summarizes contents of sessionDb or userDb systemwide. Jim
- CIRM: cdwCheckDataset - program to look at an entire dataset at a high level and provide some key statistics including the submissions that correspond to the dataset. (#17187) Chris
- CIRM: cdwCheckValidation - program to look at a CIRM data set submission and provide some key statistics including the failed files of a corresponding (#17100) Chris
- CIRM: added hyperlink around format column that will display html, pdf, and jpg files directly in user's web browser. Jim
- CIRM: improved usage message in cdwSubmit Jim
Data changes:
- Added knownAttrs table to capture what's in the wgEncodeGencodeAttrs table (#10968) Braney
- Gencode v24 knownGene in pushQ (#10968) Braney
- Changed Genbank metadata database to hgFixed from gbMeta (#16809) Braney
- Changes to Genbank trackDb entries to keep mrna searches working when metadata is kept in a central database (#16809) Braney
- Added galVar1 - Malayan flying lemur - in the pushQ refs (#17180) Hiram
- Added liftOvers for rn3 to rn6 and felCat3 to felcat8 for user request refs (#168793) Hiram
- Clone end track added to rn6 and in pushQ refs (#16100) Hiram
- Minor trackDb/documentation changes for ORegAnno tracks, GWAS tracks, and gorGor4 assembly (#15957, #14465, #16220, respectively). Jonathan
- Documentation for build of UCSC Genes on mm10, along with supporting updates to protein data and a 4-way multiple alignment (#15315) Jonathan
- Final doc polishing for GTEX Gene Expression track (#15645) Kate