Commits for hiram

v412_preview to v412_preview2 (2021-03-08 to 2021-03-15) v412

02d41bfaab4bd0baabb4f2d334fa421ca91d7bc0 Mon Mar 8 13:26:51 2021 -0800

• correct use of index page name and correctly use genome-test hubs when on genome-test refs #26658
  • src/hg/makeDb/doc/asmHubs/asmHubs.mk - lines changed 2, context: html, text, full: html, text

d89201813105d9f69eb8605867b393e9924742e2 Tue Mar 9 12:46:14 2021 -0800

• adding a verifyDownload make target refs #26658
  • src/hg/makeDb/doc/asmHubs/asmHubs.mk - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/verifyOnDownload.sh - lines changed 46, context: html, text, full: html, text

6537fe9d187433ba5f90bfe0d936072a8a85a31c Tue Mar 9 13:00:15 2021 -0800

• updated prehistoric monster fish assembly refs #26658
  • src/hg/makeDb/doc/vgpAsmHub/vgp.legacy.orderList.tsv - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/vgpAsmHub/vgp.primary.orderList.tsv - lines changed 1, context: html, text, full: html, text

9006bcfc0395f98e6cc2db983e5f56d188244c82 Tue Mar 9 13:49:23 2021 -0800

• updated script to use on hgdownload for constructing hubs/index.html gateway page refs #26658
  • src/hg/makeDb/doc/asmHubs/asmHubList.pl - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/hubIndex.pl - lines changed 49, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/hubList.sh - lines changed 3, context: html, text, full: html, text

e8d5a755011aa439dc270132ec8ddc243d9c6757 Tue Mar 9 14:23:13 2021 -0800

• round up stray water buffalo refs #26658
  • src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv - lines changed 1, context: html, text, full: html, text

0d25abead58ce0220a18d62dee344be325f280f9 Fri Mar 12 12:22:57 2021 -0800

• updates to Ensembl v103 release and new assemblies for genbank, refseq, and ucsc refs #27194
  • src/hg/makeDb/doc/assemblyEquivalence/update.2021-03-10.txt - lines changed 246, context: html, text, full: html, text

f47753d62c5f4905a2ffa14547117e322d19c699 Fri Mar 12 12:50:55 2021 -0800

• added ucscToEnsembl table and update chromAlias table refs #27194
  • src/hg/makeDb/doc/mm39/initialBuild.txt - lines changed 70, context: html, text, full: html, text

ecb0a9be3e19fe75266c38e50a5c724394f41535 Fri Mar 12 16:01:14 2021 -0800

• now with v103 definitions refs #27194
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 1643, context: html, text, full: html, text

f00300d2825de0091fac8a12b03abfd5f25c3401 Fri Mar 12 16:25:54 2021 -0800

• version 103 release the names became a bit larger for dm6 refs #27194
  • src/hg/lib/ensGtp.sql - lines changed 4, context: html, text, full: html, text

6d336b54b093fad845c852d8f6bdd996372f2c2a Fri Mar 12 16:26:23 2021 -0800

• there is no macFas5 gene set in version 103 refs #27194
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 3, context: html, text, full: html, text