Commits for hiram

v405_preview2 to v405_base (2020-09-28 to 2020-10-05) v405

1cc4eaf6e99b61624242185308c9d072ccac19f2 Mon Sep 28 12:53:23 2020 -0700

• update to new destDir refs #23891
  • src/hg/makeDb/doc/vgpAsmHub/altMakefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/vgpAsmHub/legacyMakefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/vgpAsmHub/trioMakefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/vgpAsmHub/userDataMakefile - lines changed 1, context: html, text, full: html, text

8e4ce4cd8252d3c8bb320b1ded1fd7c421f626b4 Mon Sep 28 13:30:26 2020 -0700

• update to new make system refs #23891
  • src/hg/makeDb/doc/mammalsAsmHub/makefile - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv - lines changed 106, context: html, text, full: html, text

a3c7c2078036b9b4de1727fe11bb9baac001369e Mon Sep 28 13:32:18 2020 -0700

• now with chromAlias and chromSizes in genomes.txt refs #23891
  • src/hg/makeDb/doc/asmHubs/asmHubs.mk - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/mkGenomes.pl - lines changed 12, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/mkHubIndex.pl - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/asmHubs/mkSymLinks.pl - lines changed 4, context: html, text, full: html, text

a43e257f2404b7af25e1df558a491566b5c53158 Wed Sep 30 08:29:37 2020 -0700

• allow database browsers to also display the chromAlias.txt file as download link when exists refs #24396
  • src/hg/hgTracks/hgTracks.c - lines changed 10, context: html, text, full: html, text

b2b24fc1972e32973020518288369e2582a7ffcf Wed Sep 30 12:39:12 2020 -0700

• fixup errors in building a hub without UCSC names refs #24386
  • src/hg/utils/automation/asmHubChromAlias.pl - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/doAssemblyHub.pl - lines changed 26, context: html, text, full: html, text

d6e64b4a30d137b081f91ec864a2d7ff83f0aed8 Thu Oct 1 15:11:03 2020 -0700

• a first look at a 7-way refs #24074
  • src/hg/makeDb/trackDb/marmoset/calJac4/trackDb.7way.ra - lines changed 106, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/marmoset/calJac4/trackDb.ra - lines changed 2, context: html, text, full: html, text