v329

Code changes:

• Added "Apply" button to popup dialog box for configuring tracks on Tracks page (#16788). Kate
• Updated link out to Lynx by request of data provider (#16649). Jonathan
• Fixes and updates for OMIM data pipeline (#14465, #13349, #8377, #10501, #16796). Jonathan
• Added tawk to source tree (simple awk wrapper we have used for a while) (#16865). Jonathan
• Fixed error handling for bigDataUrl/network tracks to be consistent and work across all regions/windows (#16818). Galt
• Fixed bug detected with clinGen track caused by missing chrom name in a structure (#16860). Galt
• Fixed bug in query index order for ensGeneTrack for exon/Gene-Mostly (#16860). Galt
• Cleaned up multi-region code (#16860). Galt
• Fixed a small bug with GBIB updates (#16838). Max
• Fixed LOVD automatic update scripts. Max
• Added assembly hub fields organism, description and scientificName to index of hubCrawl. Angie
• Fixed string-escaping bug that broke the "BRCA" autocomplete for hg38 in hgSuggest. Angie
• Removed some human-specific tweaks so cytoBand search will support horse & other organisms. Angie
• Fixed bug in hgGateway searchbox autocomplete.js (#16892). Angie
• Modified gff3ToGenePred to set cdsStart/End status to `none' for non-coding transcripts. Mark
• Added -defaultCdsStatusToUnknown option to gff3ToGenePred to default CDS status to unknown rather than complete when there are no start/stop codon annotations. Mark
• Ongoing work on CIRM data, pipelines, and display. Chris, Steve, Clay
• Ongoing work on supporting CRAM data type (#14717). Brian
• Fixed problem where hub defaultPos is sometimes ignored when using using hubUrl= and genome= (#16850). Brian
• Change GenBank process to allow metadata to be held in a common table (#16809). Brian
• Assume that the BAM index file is named fileName.bai (#16819). Brian

Data changes:

• Completed work on GTEx V6 data and display, hg19 and hg38 (#15645). Kate
• Created track for GWIPS-viz Riboseq, hg38 (#16765). Steve
• Started work on dbSNP v146 tracks, hg19 hg38 (#16777). Angie
• Completed assembly browser for Rhesus - Macaca mulatta, rheMac8 (#16744). Hiram
• Ongoing work on NCBI RefSeq Gene track (#13673). Hiram, Brian, Max, Mark
• Completed fishClones track for hg38 (#15522). Chris
• Reverted color scheme for hg38 Layered H3K27Ac ENCODE track to hg19 colors (#16844). Chris