Commits for hiram

v411_preview to v411_preview2 (2021-02-15 to 2021-02-22) v411

71aa7746f5a5eeebf1262297a938c298467e74e1 Mon Feb 15 12:14:55 2021 -0800

• adding rn7 and moving all rats to euarchontoglires refs #26682
  • src/hg/makeDb/trackDb/trackDb.chainNet.euarchontoglires.ra - lines changed 270, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/trackDb.chainNet.ra - lines changed 204, context: html, text, full: html, text

86ae147ac68707dcb81a697e5e45f4619465097e Tue Feb 16 08:52:47 2021 -0800

• completed lastz/chain/net to mm10 mm39 hg38 for rn7 release refs #26682
  • src/hg/makeDb/doc/hg38/lastzRuns.txt - lines changed 78, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10.txt - lines changed 65, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm39/lastzRuns.txt - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/doc/rn7/initialBuild.txt - lines changed 298, context: html, text, full: html, text

6ba4f09fcc1fd9831ff2da23ddeef5740837d90c Tue Feb 16 08:58:29 2021 -0800

• add in mm39 default chainNet table check refs #26682
  • src/hg/utils/automation/verifyBrowser.pl - lines changed 20, context: html, text, full: html, text

6ab36842251a96177c547bf37f5cc6157342eaa2 Tue Feb 16 14:51:34 2021 -0800

• eliminate a duplicate remove of tmp.chrom.sizes no redmine
  • src/hg/utils/automation/doSimpleRepeat.pl - lines changed 1, context: html, text, full: html, text

9a3fd6babace479e2ccd5eb2b8a9a00e0d378bea Wed Feb 17 08:53:08 2021 -0800

• do not honor the negate option refs #26505
  • src/hg/hgTracks/wigTrack.c - lines changed 2, context: html, text, full: html, text

d24381c71e614155499dbe25f3f14d259bd6f131 Wed Feb 17 17:08:57 2021 -0800

• fix typo error no redmine
  • src/hg/hubApi/hubApi.c - lines changed 1, context: html, text, full: html, text

9eb265fc64110d5d873242c3a314253fa4032be2 Thu Feb 18 10:57:02 2021 -0800

• updated wgRna track to version 20 2012-10-01 last release from miRNA base for GRCh37/hg19 refs #27017
  • src/hg/makeDb/doc/hg19.txt - lines changed 76, context: html, text, full: html, text

9ead742cca59371ff8d5a6ae074e6ad67430eefc Thu Feb 18 14:12:05 2021 -0800

• initial page contents for generic chainNet composite set of tracks refs #26815
  • src/hg/makeDb/trackDb/mouse/mm39/mm39ChainNet.html - lines changed 174, context: html, text, full: html, text

f7f10e81d9475120749ed69b88ecd9a9f271a468 Thu Feb 18 14:25:21 2021 -0800

• correct Bob Harris reference refs #26815
  • src/hg/makeDb/trackDb/mouse/mm39/mm39ChainNet.html - lines changed 8, context: html, text, full: html, text

ea4b3c3a34af4f378541b580ce64244477e1c776 Thu Feb 18 14:31:32 2021 -0800

• adding rat rn7 to composite refs #26815
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.chainNet.ra - lines changed 19, context: html, text, full: html, text

29cc3ccd1ddbbe52aa483c25d6419e3f778481df Thu Feb 18 14:40:26 2021 -0800

• default on for the net tracks same set as chain tracks default on refs #26815
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.chainNet.ra - lines changed 6, context: html, text, full: html, text

ee17b20a161616975c6a942379aad8559b1d4fe9 Fri Feb 19 14:04:48 2021 -0800

• initial set of 228 assemblies refs #27032
  • src/hg/makeDb/doc/invertebrateAsmHub/hub.txt - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv - lines changed 228, context: html, text, full: html, text
  • src/hg/makeDb/doc/invertebrateAsmHub/makefile - lines changed 26, context: html, text, full: html, text

ee717c8af73f3a9aa13ba50ab77fadd7a83217ac Fri Feb 19 17:46:01 2021 -0800

• 241-way table is included other contents to be updated no redmine
  • src/hg/makeDb/trackDb/human/hg38/cons241way.html - lines changed 2845, context: html, text, full: html, text

2a6d7cd1611660565a79b512267a4dfcff29ea19 Fri Feb 19 18:01:48 2021 -0800

• eliminate duplicate column in table no redmine
  • src/hg/makeDb/trackDb/human/hg38/cons241way.html - lines changed 493, context: html, text, full: html, text

783b567a31714776d150b1c1a3ad8ac32551225d Sat Feb 20 16:53:05 2021 -0800

• catching up a few plants mammals fish refs #23891
  • src/hg/makeDb/doc/asmHubs/master.run.list - lines changed 19, context: html, text, full: html, text

20c1e38d61fc4b4e5c729bf27f484c223c0caa0c Sat Feb 20 16:55:20 2021 -0800

• adding in the invertebrate refs #23891
  • src/hg/makeDb/doc/asmHubs/master.run.list - lines changed 228, context: html, text, full: html, text

725541783be7166993e2f355ec5b27fb5144a495 Sun Feb 21 18:09:56 2021 -0800

• unique common names and correct order refs #27032
  • src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv - lines changed 179, context: html, text, full: html, text