Commits for hiram

v396_base to v397_preview (2020-03-30 to 2020-04-06) v397

73cafbd4cad4da09db8158671513f36b753ae686 Mon Mar 30 10:50:51 2020 -0700

• completed all the vertebrate genbank assembly idKeys, now comparing all with all refs #24547
  • src/hg/makeDb/doc/assemblyEquivalence/README.txt - lines changed 138, context: html, text, full: html, text

b8994b5516cc6ca3f0a8b17423d881b793e7ea0e Mon Mar 30 13:23:35 2020 -0700

• correct funding statement refs #25185
  • src/hg/makeDb/trackDb/virus/wuhCor1/description.html - lines changed 6, context: html, text, full: html, text

99e6696a2ad0cb3e050ec09dc388514e50385394 Tue Mar 31 10:49:45 2020 -0700

• initial files from makeGenomeDb.pl refs #25279
  • src/hg/makeDb/trackDb/dog/canFam4/description.html - lines changed 64, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/gap.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/gold.html - lines changed 33, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/dog/canFam4/trackDb.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text

68e60a3ccfe0c3aaa48f2fa85f86ca700d681e81 Tue Mar 31 12:08:22 2020 -0700

• correct hub.txt not testHub.txt refs #23891
  • src/hg/makeDb/doc/asmHubs/asmHubs.mk - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/mkAsmStats.pl - lines changed 8, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/mkHubIndex.pl - lines changed 42, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/sendToHgdownload.sh - lines changed 35, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/trackData.pl - lines changed 6, context: html, text, full: html, text

8c4131a525393ded344af8fc3e2eb2cde04c1b6d Wed Apr 1 12:35:20 2020 -0700

• adding NCBI RefSeq composite refs #20215
  • src/hg/makeDb/trackDb/baboon/papAnu4/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/bats/rouAeg1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/birds/ficAlb1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/chinchilla/chiLan1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/criGri/criGriChoV1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/elephant/loxAfr3/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/ferret/musFur1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/frog/nanPar1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/kangarooRat/dipOrd2/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/macaca/macNem1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mammal/fukDam1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/micOch/micOch1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouseLemur/micMur3/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/oldWorldMonkeys/colAng1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/otters/enhLutKen1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/pika/ochPri3/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/poeRet/poeRet1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/primate/aotNan1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/primate/cebCap1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/primate/cerAty1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/primate/manLeu1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/primate/proCoq1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/rabbit/oryCun2/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/rhinopithecus/rhiBie1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/saiBol/saiBol1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/treeShrew/tupChi1/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/turtle/chrPic2/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/whale/orcOrc1/trackDb.ra - lines changed 1, context: html, text, full: html, text

e4a96d89b3b4a18946c6deca9ee65123fbbb70fb Wed Apr 1 12:49:36 2020 -0700

• correct space before the include refSeqComposite and no more overrides on refGene refs #20215
  • src/hg/makeDb/trackDb/baboon/papAnu4/trackDb.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/criGri/criGriChoV1/trackDb.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/rabbit/oryCun2/trackDb.ra - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/saiBol/saiBol1/trackDb.ra - lines changed 1, context: html, text, full: html, text

03c8e7e0c3f2c7a5a14508230418ef7047b2ca40 Thu Apr 2 09:05:08 2020 -0700

• German shepard stock photo from Cheryl Cox https://unsplash.com/@ccox888 refs #25279
  • src/hg/htdocs/images/canFam4.jpg - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

ce5faabf12dba91dd80f5946edb494d5dcdd963b Thu Apr 2 09:24:19 2020 -0700

• correct photo of a German shepard refs #25279
  • src/hg/makeDb/trackDb/dog/canFam4/description.html - lines changed 3, context: html, text, full: html, text

ce1becca3b06e9fcefabd6e654a24939c95fa0ad Thu Apr 2 09:30:41 2020 -0700

• beginning build of German shepard assembly refs #25279
  • src/hg/makeDb/doc/canFam4/initialBuild.txt - lines changed 1104, context: html, text, full: html, text

34d85e3444934a5b77b31c6316cb5a996da0ed76 Thu Apr 2 09:45:58 2020 -0700

• adding search rule for gold/assembly track refs #52279
  • src/hg/makeDb/trackDb/dog/canFam4/trackDb.ra - lines changed 6, context: html, text, full: html, text

531a1da73a9c257444ee0ce9884d271f5f7bcd5d Thu Apr 2 14:21:28 2020 -0700

• now correctly making bigZips/genes downloads refs #24524;
  • src/hg/utils/automation/makeDownloads.pl - lines changed 92, context: html, text, full: html, text