Commits for hiram

v436_base to v437_preview (2022-08-29 to 2022-09-05) v437

412e56d251198b35ebac351c15003f732a1ef764 Mon Aug 29 15:05:08 2022 -0700

• turning on the phyloP track refs #29898
  • src/hg/makeDb/trackDb/human/hg38/trackDb.470way.ra - lines changed 25, context: html, text, full: html, text

066250f183599972b357caf9d3261aad59451ad9 Mon Aug 29 16:19:11 2022 -0700

• with phyloP histogram refs #29898
  • src/hg/makeDb/doc/hg38/multiz470way.txt - lines changed 179, context: html, text, full: html, text

df75987a142e43b68e4a9a3e830de704ec4119b6 Tue Aug 30 14:07:52 2022 -0700

• a trimmed down phylo tree to represent the 470-way multiz refs #29898
  • src/hg/htdocs/images/phylo/hg38_470way.png - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

e1ae7b4c4b7db85a6043b82abb2444023c506607 Tue Aug 30 14:13:24 2022 -0700

• adding treeImage to the 470-way track refs #29898
  • src/hg/makeDb/trackDb/human/hg38/trackDb.470way.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 1, context: html, text, full: html, text

6000ab290932e65b33e633d9a00f7145d8eb262e Wed Aug 31 10:40:19 2022 -0700

• 47way now has phastCons and conserved elements and eliminate the useless subGroup2 settings refs #29898
  • src/hg/makeDb/trackDb/human/hg38/trackDb.100way.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.470way.ra - lines changed 51, context: html, text, full: html, text

e72161af79bddd20fff3ed598df6c832d8794d50 Wed Aug 31 15:47:31 2022 -0700

• adding GCF_024166365.1_mEleMax1_primary_haplotype Asiatic elephant per user request refs #29905
  • src/hg/makeDb/doc/vgpAsmHub/vgp.primary.orderList.tsv - lines changed 1, context: html, text, full: html, text

6ded634176b25a7e41e27cb6ec23d6ffb5820a10 Wed Aug 31 16:37:34 2022 -0700

• now with sequence logo display refs #29898
  • src/hg/makeDb/trackDb/human/hg38/trackDb.470way.ra - lines changed 48, context: html, text, full: html, text

85e9fd5545cbcfb750efccbce5c94a5876f0bb86 Fri Sep 2 13:02:17 2022 -0700

• adding tabToTabDir and matrixToBarChartBed to the userApps no redmine
  • src/makefile - lines changed 1, context: html, text, full: html, text
  • src/tabFile/makefile - lines changed 9, context: html, text, full: html, text
  • src/utils/makefile - lines changed 1, context: html, text, full: html, text

a501eafc4a27f33341d7051af9e158723bd136d0 Fri Sep 2 13:59:48 2022 -0700

• add src/tabFile to support building tabToTabDir no redmine
  • src/userApps/fetchKentSource.sh - lines changed 1, context: html, text, full: html, text

e429e3f28edce0fdbc671c894018a10ede244501 Fri Sep 2 14:13:16 2022 -0700

• adding gencodeVersionForGenes for userApps no redmine
  • src/hg/utils/makefile - lines changed 1, context: html, text, full: html, text

555f16b93255299cdc4fbecc0cf716a3c174a7b3 Fri Sep 2 15:56:15 2022 -0700

• add back in the phastCons discussion refs #29898
  • src/hg/makeDb/trackDb/human/hg38/cons470way.html - lines changed 31, context: html, text, full: html, text