- v416 Preview 1 - 1 June 2021
- v416 Preview 2 - 7 June 2021
- v416 Final - 14 June 2021
Code changes:
- Added cart editing ability to address changing trackDb hierarchies (#27517). Brian
- Enabled otto update script for mm10,mm39,hg19,hg38 ncbiRefSeq (#24735). Hiram
- Allow variable size data tables on hgc. These tables to be JSON or pipe and semi-colon encoded. Add more support for external data references in bigBeds: allow relevant trackDb settings like skipEmptyFields, allow variable size tables in external files, allow gzip compressed external files (#26837). Chris
- Moved warning box to be in the middle of the screen. (#27460). Max
- hgPhyloPlace: add input box where user can paste in sequence IDs. Angie
- bigBed writer now counts zero blocks as 1bp blocks in the calculation of the summary levels (#27589). Brian
- Font now preserved when a Recommended Track Set is selected (#27682). Kate
- Removed Recommended Track Set button when URL with hideTracks=1 is used (#27682). Kate
- Addressed a sporadic bug where duplicate entries appear in hubStatus (#27581). Brian
- Hi-C track performance in multi-region mode improved by caching the region map instead of re-loading it for each region (#18842). Jonathan
- Hi-C track type now supports .hic files with headers larger than 100kb (e.g. for assemblies with thousands of contigs/scaffolds) by dynamically loading more header data as needed. (#27953). Jonathan
- Additional fixes to support '.' in track names on hubs (#27465). Brian
- Fixed crash when bigBed is not available and the track is in density coverage mode (#27695). Brian
- Ensure the labels and colors of the GTEx boxplots match hgTracks (#26845). Chris
- Cleaned up FreeType support to better deal when the code is not on the build machine. Brian
- Error out early in hub trackDb processing if a multiwig has a composite track parent (#15650). Chris
- Licensing work, kent/src/* is MIT licensed, kent/src/hg* is UCSC-special license. Moved tools around to comply with the license rules (#27614). Max
- mouseStrains and globalReference assembly hubs converted to dynamic blat service (#24354). Hiram
- Updated protected table list for API (#24208). Hiram
- Ongoing work on the image comparator. Brian
Data changes:
- (New) hg19/hg38 REVEL track (#27142). Max
- (New) wuhCor1 mutCons track. Max
- (New) canFam6 dog Tascha browser completed (#27546). Hiram
- (Update) wuhCor1 cd8escape track (#27629). Max
- (Update) wuhCor1 phyloCSF (#25946). Max
- (Update) Ensembl v104 update complete (#27616). Hiram
- Ongoing work on pipeline to keep SARS-CoV-2 tree for hgPhyloPlace up to date. Angie
- Added some overseen entries to knownGene trackDb that tell hgTables which linked tables to use as default. Brian