Commits for hiram

v404_preview2 to v404_base (2020-09-07 to 2020-09-14) v404

dc3e5f422dd65b728f62aed76c9d30e95dee3575 Tue Sep 8 08:47:17 2020 -0700

• hash up the chromAlias lookups to avoid numerous MySQL calls refs #24396
  • src/hg/lib/hdb.c - lines changed 24, context: html, text, full: html, text

0a95f6c966100b11c33f3d51710ee702accd57a9 Tue Sep 8 15:41:57 2020 -0700

• adding tracks from Kerstin's lab refs #25279
  • src/hg/makeDb/trackDb/dog/canFam4/altAllele.ra - lines changed 9, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/filledGaps.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/miRNA.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/structVar.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/trackDb.ra - lines changed 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/uuGene.ra - lines changed 8, context: html, text, full: html, text

e10d4d9fdcabb4b010e978b894c70473597e6884 Wed Sep 9 15:57:57 2020 -0700

• need to have perChromTables = no for mm39 refs #22271
  • src/hg/makeDb/genbank/etc/genbank.conf - lines changed 1, context: html, text, full: html, text

1d776cf087b4b10409819b8119d39ad7fe8a894e Thu Sep 10 12:13:52 2020 -0700

• adding rules for calJac4 refs #24074
  • src/hg/makeDb/schema/all.joiner - lines changed 9, context: html, text, full: html, text

48e9d70521d7c9a5ee6bb8057b222d4afcd0658f Thu Sep 10 18:19:37 2020 -0700

• browser complete QA Ready refs #22271
  • src/hg/makeDb/doc/mm39/initialBuild.txt - lines changed 208, context: html, text, full: html, text

7cbb768e46b332eb317ef91c5ae37fdea5ba451d Fri Sep 11 09:47:54 2020 -0700

• done with canFam5 and calJac4 lastz chainNet refs #25917 #24074
  • src/hg/makeDb/doc/mm39/lastzRuns.txt - lines changed 84, context: html, text, full: html, text

f7a1de048f1e4a82213dfbce22ceddd33b095c0e Fri Sep 11 13:31:09 2020 -0700

• adding definitions for calJac4 chainNet refs #24074
  • src/hg/makeDb/trackDb/human/chainNetPrimate.ra - lines changed 19, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/trackDb.euarchontoglireChainNet.ra - lines changed 19, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/trackDb.chainNet.primates.ra - lines changed 158, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/trackDb.chainNet.ra - lines changed 100, context: html, text, full: html, text

26ed95537ba33299dffef03bfcb8d409b8c3a660 Fri Sep 11 13:58:45 2020 -0700

• correct phylo ordering for chain net tracks refs #19883
  • src/hg/makeDb/trackDb/seal/neoSch1/trackDb.chainNet.ra - lines changed 60, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/seal/neoSch1/trackDb.ra - lines changed 2, context: html, text, full: html, text

f1e17cc4832f40da88da8888ca25da0aa1d10872 Fri Sep 11 14:18:03 2020 -0700

• new gold table requires new search term for fragment names refs #19883
  • src/hg/makeDb/trackDb/seal/neoSch1/trackDb.ra - lines changed 1, context: html, text, full: html, text

2bd3c930e4d93e242ee896ab83a585f6b83b8069 Fri Sep 11 14:28:03 2020 -0700

• update gold table search rule for new fakeAgp refs #19883
  • src/hg/makeDb/doc/neoSch1/initialBuild.txt - lines changed 16, context: html, text, full: html, text

66a1e6caeafc9cda89d0ecd3db52f1ca222958f9 Mon Sep 14 07:47:46 2020 -0700

• compatible release tags refs #19883
  • src/hg/makeDb/trackDb/trackDb.chainNet.laurasiatheria.ra - lines changed 10, context: html, text, full: html, text