Commits for jcasper

v488_preview2 to v488_base (2025-09-15 to 2025-09-22) v488

476fb549a27985605163e8c58fdfd61ab8ad0abf Wed Sep 17 13:07:10 2025 -0700

• VM38 knownGene trackDb
  • src/hg/makeDb/trackDb/mouse/mm39/knownGene.alpha.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/knownGeneVM38.html - lines changed 124, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.ra - lines changed 2, context: html, text, full: html, text

eae5b1c7579021039d592b5d7f4ce27a166caa89 Wed Sep 17 13:08:05 2025 -0700

• Makedoc for VM38 knownGene, refs #36165
  • src/hg/makeDb/doc/ucscGenes/mm39.gencodeVM38.sh - lines changed 52, context: html, text, full: html, text

0b82b501aff92020f3e79021baaa80bd22e2cc5f Wed Sep 17 13:34:01 2025 -0700

• Adding knownGene VM37 to knownGene archive, refs #36165
  • src/hg/makeDb/trackDb/mouse/mm39/knownGeneArchive.ra - lines changed 24, context: html, text, full: html, text

c2007dd0e1b2b6df27907f5d4678fa9458d0cbc9 Thu Sep 18 22:47:37 2025 -0700

• Fix to find normalization options for hic files that don't annotate the first chromosome, refs #36313
  • src/hg/lib/straw/cStraw.cpp - lines changed 12, context: html, text, full: html, text

9b9f268d80b9614505e485d08652a617ddef84e0 Sun Sep 21 01:11:16 2025 -0700

• Installing updated hg.conf files from UCSC servers
  • confs/hgwdev.hg.conf - lines changed 3, context: html, text, full: html, text

336f121807d25e8762b218c6e00b03d3ab0aaef1 Mon Sep 22 09:34:47 2025 -0700

• Certain free() calls should be freeMem() to match the allocation routine, refs #36389
  • src/hg/lib/fakeCurl.c - lines changed 4, context: html, text, full: html, text
  • src/hg/lib/straw/cStraw.cpp - lines changed 3, context: html, text, full: html, text
  • src/hg/lib/straw/hReplaceGbdb.h - lines changed 3, context: html, text, full: html, text

03478e629ac21b1dc68b92ae7d993d1a7314cac2 Mon Sep 22 11:15:22 2025 -0700

• hgTables needed help finding trackDb for hic custom tracks, refs #36389
  • src/hg/hgTables/hic.c - lines changed 3, context: html, text, full: html, text
  • src/hg/hgTables/mainPage.c - lines changed 10, context: html, text, full: html, text