Commits for hiram

v365_base to v366_preview (2018-05-07 to 2018-05-14) v366

fef8ba0be8818869f8db954c0e59d7ba63f3dd6e Mon May 7 11:05:27 2018 -0700

• better rsync command to avoid warning message about the /cluster/bin/x86_64 directory not changing with requested refs #21332
  • src/parasol/makefile - lines changed 1, context: html, text, full: html, text

ee42d7f6eee7ca59b3869975c6a555434263244e Mon May 7 11:11:15 2018 -0700

• fixup parasol make since it was added to userApps refs #21332
  • src/utils/qa/weeklybld/buildUtils.csh - lines changed 4, context: html, text, full: html, text

ac44b3995a05d341c86b2dcf8ff2e792acd30d1c Mon May 7 11:19:55 2018 -0700

• archive the contents of hgcentral refs #21332
  • src/utils/qa/weeklybld/buildHgCentralSql.csh - lines changed 5, context: html, text, full: html, text

bfe0a60efa02b404843bb9465cea04d6c056ceb6 Tue May 8 09:15:10 2018 -0700

• honor CC if set and watch out for SSL_DIR existing from user suggestion no redmine
  • src/inc/common.mk - lines changed 4, context: html, text, full: html, text

fb8e3d22bcb753fa83d44194c81fa4169c8ce65b Tue May 8 11:59:07 2018 -0700

• adding v92 definitions refs #21421
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 356, context: html, text, full: html, text

f6c2631c4c4e45fbef055b1e1f5717d7e09c9923 Tue May 8 15:09:26 2018 -0700

• fixing v92 definitions refs #21421
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 1, context: html, text, full: html, text

7777e0f44fdd1a2715f6d452de0ee866d71ec83d Tue May 8 15:14:44 2018 -0700

• fixing v92 definitions refs #21421
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 1, context: html, text, full: html, text

c20c3fd337fc91238582296a9f5231af8a00d278 Tue May 8 15:56:34 2018 -0700

• correcting labels per Kim Pruitt request refs #17313
  • src/hg/makeDb/trackDb/human/hg38/description.html - lines changed 3, context: html, text, full: html, text

5b89e8dcb565567840d82f90a2bebb5768ea1d3a Wed May 9 12:16:29 2018 -0700

• updates to new definitions for Ensembl genes refs #21421
  • src/hg/utils/automation/ensGene/cavPor3.ensGene.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/dm6.ensGene.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/ficAlb1.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/speTri2.ensGene.ra - lines changed 7, context: html, text, full: html, text

e1b5d7fa6fbca8193f7fae37198ff3fd86692541 Wed May 9 12:19:01 2018 -0700

• new definitions for Ensembl genes refs #21421
  • src/hg/utils/automation/ensGene/anoGam3.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/aotNan1.ensGene.ra - lines changed 11, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/cavApe1.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/cebCap1.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/cerAty1.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/chiLan1.ensGene.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/colAng1.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/criGriChoV1.ensGene.ra - lines changed 10, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/criGriChoV2.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/danRer11.ensGene.ra - lines changed 9, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/dipOrd2.ensGene.ra - lines changed 10, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/felCat8.ensGene.ra - lines changed 15, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/fukDam1.ensGene.ra - lines changed 12, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/gorGor4.ensGene.ra - lines changed 18, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/hetGla1.ensGene.ra - lines changed 6, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/hetGla2.ensGene.ra - lines changed 5, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/jacJac1.ensGene.ra - lines changed 9, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/macFas5.ensGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/macNem1.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/manLeu1.ensGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/mesAur1.ensGene.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/micMur3.ensGene.ra - lines changed 12, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/micOch1.ensGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/nanGal1.ensGene.ra - lines changed 17, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/nomLeu3.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/octDeg1.ensGene.ra - lines changed 10, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/ornAna2.ensGene.ra - lines changed 9, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/panPan2.ensGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/panTro5.ensGene.ra - lines changed 9, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/papAnu3.ensGene.ra - lines changed 8, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/papAnu4.ensGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/perManBai1.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/proCoq1.ensGene.ra - lines changed 7, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/rhiBie1.ensGene.ra - lines changed 12, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/rhiRox1.ensGene.ra - lines changed 16, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/saiBol1.ensGene.ra - lines changed 10, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/susScr11.ensGene.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/utils/automation/ensGene/tarSyr2.ensGene.ra - lines changed 10, context: html, text, full: html, text

035d2a8e4dbf82606638fe608a694ab2604fcc59 Wed May 9 13:22:38 2018 -0700

• ensGene v92 update refs #21421
  • src/hg/makeDb/doc/makeEnsembl.txt - lines changed 104, context: html, text, full: html, text

f89810179d12363399f9be991d04fcc7b2216614 Wed May 9 14:35:07 2018 -0700

• add cytoBand track refs #21427
  • src/hg/makeDb/doc/ce4.txt - lines changed 13, context: html, text, full: html, text

07184c7bf381e5720db1e3767620f16586f59823 Wed May 9 14:36:09 2018 -0700

• reset name for Summary table refs #21427
  • src/hg/makeDb/trackDb/worm/ce4/trackDb.5way.ra - lines changed 2, context: html, text, full: html, text

2b6de6ea7a4d646dbca0ed53f0d7825cdd36cc2a Wed May 9 14:37:24 2018 -0700

• there is no table for multiz5waySummary refs #21427
  • src/hg/makeDb/trackDb/xenTro/xenTro1/trackDb.5way.ra - lines changed 1, context: html, text, full: html, text

792c8f921fa75f71bb7708997e2214740ded3d80 Wed May 9 14:42:03 2018 -0700

• adding cytoBandIdeo table refs #21427
  • src/hg/makeDb/doc/xenTro1.txt - lines changed 8, context: html, text, full: html, text

ff455d3a562f793e221ae8fcabddd71830490118 Mon May 14 10:04:13 2018 -0700

• v366 preview1 refs #21332
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text