Commits for hiram

v333_preview2 to v333_base (2016-05-16 to 2016-05-23) v333

1bf39d2a8b816fe2352f94eda5d7f226cf5dcec3 Tue May 17 09:49:07 2016 -0700

• adding mm10Patch4 to the haplotypes group refs #16414
  
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10Patch4/description.html - lines changed 64, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10Patch4/gap.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10Patch4/gold.html - lines changed 35, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10Patch4/trackDb.ra - lines changed 38, context: html, text, full: html, text

054a0f24fabbe20929806cf7e9cb3c5646b83e46 Tue May 17 13:02:47 2016 -0700

• adding mm10Patch4 tracks refs #16414
  
  • src/hg/makeDb/trackDb/mouse/mm10/mm10Patch4.ra - lines changed 118, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm10/trackDb.ra - lines changed 1, context: html, text, full: html, text

1c25478654cdc5230c1ac510539c133c0da3e0dc Tue May 17 13:04:53 2016 -0700

• working up mm10Patch4 refs #16414
  
  • src/hg/makeDb/doc/mm10Patch4/mm10Patch4.txt - lines changed 945, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10Patch4/regionScan.pl - lines changed 84, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10Patch4/scanAssemblyReport.pl - lines changed 101, context: html, text, full: html, text

7f964899304489ba1dcc035d8aa430f45965c003 Tue May 17 14:18:18 2016 -0700

• adding some convenient and easy tracks refs #16414
  
  • src/hg/makeDb/doc/mm10Patch4/mm10Patch4.txt - lines changed 102, context: html, text, full: html, text

71d3933155b8205e482f26d4642b4a58cc75beb7 Tue May 17 14:39:32 2016 -0700

• adding mm10 patch4 html page with links to everything refs #16414
  
  • src/hg/makeDb/trackDb/mouse/mm10/mm10Patch4.html - lines changed 651, context: html, text, full: html, text

63ab7e7196df2fb815cf3260dcb42221902bec49 Tue May 17 14:48:25 2016 -0700

• correct definition statement for alt-scaffold refs #16414
  
  • src/hg/makeDb/trackDb/mouse/mm10/mm10Patch4.html - lines changed 2, context: html, text, full: html, text

8ce64912f5012a9363c0157a35aba45c78b8ef11 Tue May 17 15:16:54 2016 -0700

• adding downloads and documentation refs #16414
  
  • src/hg/makeDb/doc/mm10Patch4/mm10Patch4.txt - lines changed 7, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10Patch4/patchDescr.pl - lines changed 120, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10Patch4/readmeLines.pl - lines changed 73, context: html, text, full: html, text

62f87fe5998f2d4cd5bd7d6d1f9675235fe01e9b Tue May 17 16:02:06 2016 -0700

• Added panPan2 - Bonobo refs #16036
  
  • src/hg/makeDb/genbank/etc/align.dbs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/genbank/etc/hgwdev.dbs - lines changed 2, context: html, text, full: html, text

3866b72feb88fee5d5da39b0c8a3f941221959fd Tue May 17 16:13:43 2016 -0700

• running up liftOvers refs #16036
  
  • src/hg/makeDb/doc/panPan2/initialBuild.txt - lines changed 615, context: html, text, full: html, text
  • src/hg/makeDb/doc/panPan2/ucscCompositeAgp.pl - lines changed 62, context: html, text, full: html, text
  • src/hg/makeDb/doc/panPan2/unplaced.pl - lines changed 48, context: html, text, full: html, text

fb8c61ba1bbd65e947716c3488e451e1ffaa484b Wed May 18 09:58:45 2016 -0700

• script to build user apps and push to downloads refs #11163
  
  • src/utils/qa/weeklybld/userApps.sh - lines changed 26, context: html, text, full: html, text

ad15338c0ae37103c6aa449a14050b8ab390ee99 Wed May 18 15:07:13 2016 -0700

• add documentation for 5-way track refs #17180
  
  • src/hg/makeDb/trackDb/galVar/galVar1/cons5way.html - lines changed 430, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/galVar/galVar1/trackDb.5way.ra - lines changed 5, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/galVar/galVar1/trackDb.chainNet.ra - lines changed 26, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/galVar/galVar1/trackDb.ra - lines changed 12, context: html, text, full: html, text

9dc9d719cd1c538a8c94ba5374b57ca4c117d0e3 Wed May 18 15:34:43 2016 -0700

• adding description page for 5-way refs #17180
  
  • src/hg/makeDb/trackDb/guineaPig/cavPor3/cons5way.html - lines changed 430, context: html, text, full: html, text

39547fc9e92ded4e129ddad7bcc88fbbea3a9fa3 Wed May 18 16:34:49 2016 -0700

• running up hg38 patch7 build refs #17134
  
  • src/hg/makeDb/doc/hg38/hg38Patch7.txt - lines changed 707, context: html, text, full: html, text

a8194a279064ef6177ec3243f4b79442b9e2db8f Thu May 19 14:35:53 2016 -0700

• trackDb doc files for hg38Patch7 refs #17134
  
  • src/hg/makeDb/trackDb/human/hg38Patch7/description.html - lines changed 63, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38Patch7/gap.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38Patch7/gold.html - lines changed 37, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38Patch7/trackDb.ra - lines changed 38, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text

f32c38d8a38e48bce9d141e6114193c3ac3be48e Thu May 19 16:19:55 2016 -0700

• almost done refs #17134
  
  • src/hg/makeDb/doc/hg38/hg38Patch7.txt - lines changed 346, context: html, text, full: html, text

c986cbce8aa5d57093ad7c56ca6b169c51634209 Fri May 20 11:23:57 2016 -0700

• patch7 in the pushQ refs #17134
  
  • src/hg/makeDb/doc/hg38/hg38Patch7.txt - lines changed 14, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/patchDescr.pl - lines changed 11, context: html, text, full: html, text

e604a23dfa4f5517340509e27959510a2109c1af Fri May 20 13:40:53 2016 -0700

• running up ncbiRefSeq gene track for GRCh38.p7 refs #13673
  
  • src/hg/makeDb/doc/hg38/ncbiRefSeq.txt - lines changed 31, context: html, text, full: html, text

a162d1da94ad9cf234a17d69b4459c4d8bdf19c2 Mon May 23 10:07:40 2016 -0700

• v333 final build refs #17287
  
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 3, context: html, text, full: html, text

0be5973c33c20adcdf29ff2b52ba6b2d83eed89c Mon May 23 10:08:57 2016 -0700

• New version number v333
  
  • src/hg/inc/versionInfo.h - lines changed 1, context: html, text, full: html, text