Commits for hiram

v377_base to v378_preview (2019-02-04 to 2019-02-11) v378

92746c40aacb7137b5b8bee81b4f413e83d2ed9f Mon Feb 4 14:26:22 2019 -0800

• catch up html page now with NCBI assembly outlinks refs #19937
  • src/hg/makeDb/trackDb/bacteria/staAur2/cons369way.html - lines changed 2316, context: html, text, full: html, text

36323c910dd2b3e2f1bcbafc5a939f45fd0616ad Mon Feb 4 22:59:16 2019 -0800

• ncbiGene track is no bigGenePred and has NCBI protein name URL outlink refs #19937
  • src/hg/makeDb/trackDb/bacteria/staAur2/ncbiGene.html - lines changed 25, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/bacteria/staAur2/trackDb.ra - lines changed 32, context: html, text, full: html, text

ebab466d2e7b25ce28a31f3fad3071762f2f162c Mon Feb 4 23:07:33 2019 -0800

• ncbiGene track is no bigGenePred and requires tagTypes.tab entries refs #19937
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 7, context: html, text, full: html, text

a217e96d74faf9343306eba1de0f38e2ed040100 Mon Feb 4 23:12:36 2019 -0800

• ncbiGene is now a bigGenePred with NCBI URL outlinks for protein name and added description page for ncbiGene and fixed score filter max value for aaCounts refs #19937
  • src/hg/makeDb/trackDb/bacteria/staAur2/aaCounts.ra - lines changed 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/bacteria/staAur2/ncbiGene.html - lines changed 25, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/bacteria/staAur2/trackDb.ra - lines changed 11, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/tagTypes.tab - lines changed 3, context: html, text, full: html, text

b0cb85de5f3669ad674939c60c90191dcd86cd0a Tue Feb 5 08:33:26 2019 -0800

• add link to downloads directory on htdocs-hgdownload refs #19937
  • src/hg/makeDb/trackDb/bacteria/staAur2/cons369way.html - lines changed 5, context: html, text, full: html, text

002a02e0a481cb3f1f06c7f848adfdc7940844cf Tue Feb 5 11:24:36 2019 -0800

• return dbDb contents /list/ucscGenomes function refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 84, context: html, text, full: html, text

497f88a03fd3e257b9acff6b315f45c7b67a6786 Tue Feb 5 14:09:39 2019 -0800

• now returning track list for any UCSC database genome refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 19, context: html, text, full: html, text

3f92bea76f09e3b46d8f1ebc44db19d9e508b67e Tue Feb 5 14:41:23 2019 -0800

• correctly returning track list for any UCSC database genome refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 17, context: html, text, full: html, text

e3dccad035436b2b7a76b8e3112b0b06de37fe93 Tue Feb 5 15:03:31 2019 -0800

• not sure why it returns a short track list for a database refs @8869
  • src/hg/hubApi/hubApi.c - lines changed 10, context: html, text, full: html, text

8aba55de743fd795f8c26d730567ff8a359254e8 Tue Feb 5 15:58:07 2019 -0800

• beginning to show everything about a track in ucsc database refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 70, context: html, text, full: html, text

9614cd02adbffc856bc229ae7c88a2440cc616f1 Wed Feb 6 10:26:35 2019 -0800

• returning chrom list from ucsc chromInfo table refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 77, context: html, text, full: html, text

e06aca36b8d5f820603188308c7bec8749427fe0 Wed Feb 6 14:32:14 2019 -0800

• chrom list from specific track on ucsc database output and jsonErr output refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 63, context: html, text, full: html, text

d00cd1b5dd768c8edf09b8a2f2ccb48786c8d1ff Fri Feb 8 14:01:15 2019 -0800

• beginning to use "desc" SQL query on table to get column header names refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 126, context: html, text, full: html, text

03680a45cb9806e93bc784905fbdb4f6e9ac063e Fri Feb 8 14:26:15 2019 -0800

• output column names for dbDb table refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 63, context: html, text, full: html, text

95966f9426d2b06029f2d48a46a9a28f0cd866ba Fri Feb 8 15:20:51 2019 -0800

• updated to do specific test on publicHubs and ucscGenomes refs #18869
  • src/hg/hubApi/tests/expected.json.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
  • src/hg/hubApi/tests/jsonConsumer.pl - lines changed 153, context: html, text, full: html, text

80c13ab201d59baa021d5c1a2222872ecbdf196f Fri Feb 8 16:17:16 2019 -0800

• now using functions in src/lib/jsonWrite.c refs #18869 #22859
  • src/hg/hubApi/hubApi.c - lines changed 136, context: html, text, full: html, text

32de817ec809cc4edf2598e03c0a1c3f202d984c Sat Feb 9 14:07:30 2019 -0800

• new library locations for libssl and libcrypto on Mac OSX Mojave no redmine
  • src/inc/common.mk - lines changed 11, context: html, text, full: html, text

4cb493ab92afe6c13f5592880c4f5fbfa371d84c Sun Feb 10 18:48:32 2019 -0800

• make the chromosome list a sub-list from the top level refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 88, context: html, text, full: html, text

09b542fe035a233ec45d2092e4a0ab38e99c3e32 Mon Feb 11 09:50:37 2019 -0800

• adding dataTime and dataTimeStamp to the outputs refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 53, context: html, text, full: html, text

e1844122763a7690ee729e1d7ddc080723247239 Mon Feb 11 09:56:56 2019 -0800

• v378 preview1, refs #22835
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text