v381

Code changes:

• JSON API code work, having a silent release with v381 (#18869). Hiram
• Fixing loss of track collections in saved sessions when hg.conf has new sessionDataDir (#22440). Angie
• When zooming, borders between nucleotides are the center of the nucleotide instead the center between nucleotides (#23349). Max
• Enhancements to factorSource type track (used for TF Clusters track), in support of larger datasets, e.g. ENCODE3 (#23277). Kate
• Bug fix: expanded subGroup maximum to 1000 (was 255), and added warning (#23366). Kate
• Suppress patch-specific links in hgc for altSeqLiftOverPsl when db doesn't have patches (#18854). Angie
• The jsTree version used by Browser CGIs has been updated from 3.3.4 to 3.3.7 (#23296). Jonathan
• For All GENCODE tracks, don't generate linkes to HGNC or GeneCards if gene name is one of the fake generated names. Mark
• CIRM Added exception for meta.txt that is explicitly listed in maniSummary.txt Galt
• CIRM Fixed missing h5 end tags in cirm gateway code. Galt
• CIRM htmlCheck - Added html5 new type search for input tag which appears on CIRM summary/static pages when submitted and validated by the CIRM pipeline. Galt
• CIRM Fixed it to support standard dependencies in the head tag, then portal top menu, then cdwSubmit menu, then page footer automatically so that the code does not have to be written and maintained (#22283). Galt
• CIRM Added googleAnalytics calls with code in cirmStuff.js so that it automatically appears in all 3 needed areas: SSI for static pages, CGIs like cdwWebBrowse, and special handling in cdwGetFile with summary/*.html static pages. Galt
• Final polish to lollipop support for GDC Cancer track. Brian
• bigBed text filters count the empty string as matching everything. Brian
• Added a -tabs option to bedToPsl. Brian
• More changes to utilities to handle very long gene ids. Brian
• Added postscript filled circle primitive. Brian
• Added example python client for accessing API (#18869). Christopher
• Added first cut on web interface for hub check, still work in progress (#18870) Christopher
• Added buff up hubCheck/validator: warn about missing hub description pages and assembly hub description pages, fix cryptic error message when parent tracks have no children (#18870) Christopher

Data changes:

• Work on downloads hg38/bigZips/latest/: stripping versions from filenames for pipeline stability (#23198). Angie
• Import of GENCODE V30, V30lift37 and VM21 (All GENCODE tracks). Mark