Commits for hiram

v351_preview2 to v351_base (2017-06-19 to 2017-06-26) v351

97fa8be8e7ad24266549b6970051d09de2c5f7b7 Tue Jun 20 12:49:50 2017 -0700

• adding crispr10K track refs #18969
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 33, context: html, text, full: html, text

fc833c04dbfd859531c4ac3d9ff7e01e84fbb158 Tue Jun 20 13:09:04 2017 -0700

• adding papAnu3 to the build refs #19660makefile
  • src/hg/makeDb/trackDb/baboon/papAnu3/description.html - lines changed 64, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/baboon/papAnu3/gap.html - lines changed 31, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/baboon/papAnu3/gold.html - lines changed 34, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/baboon/papAnu3/trackDb.ra - lines changed 8, context: html, text, full: html, text

9103b5db09531c76b160d6920c1c820ebb0ec3a3 Tue Jun 20 14:10:20 2017 -0700

• adding gold search rule refs #19660
  • src/hg/makeDb/trackDb/baboon/papAnu3/trackDb.ra - lines changed 5, context: html, text, full: html, text

e07d36ff81bdd0db210d1a40b1ea70599568a986 Tue Jun 20 14:10:47 2017 -0700

• adding papAnu3 to the build refs #19660
  • src/hg/makeDb/trackDb/makefile - lines changed 1, context: html, text, full: html, text

a88df1bc16f870f81548755d0c964a06ba9da84a Tue Jun 20 15:16:06 2017 -0700

• beginning build for papAnu3 refs #19660
  • src/hg/makeDb/doc/papAnu3/initialBuild.txt - lines changed 817, context: html, text, full: html, text

02de0399c944e45474e900c30d13a18c0cbaf129 Wed Jun 21 10:01:27 2017 -0700

• adding papAnu3 baboon refs #19660
  • src/hg/makeDb/genbank/etc/genbank.conf - lines changed 19, context: html, text, full: html, text

2914267509c11c2eab2cbf4698337b139bfba185 Wed Jun 21 10:41:26 2017 -0700

• update papAnu2 to papAnu3 and ornAna1 to ornAna2 for v89 refs #19526
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 6, context: html, text, full: html, text

314353a462cda9040fffcf7a2b75adfc99539c4f Wed Jun 21 22:40:07 2017 -0700

• adding papAnu3 to the update alignments refs #19660
  • 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

502c0e30679e95cc9137837a7394711c3adc3fed Thu Jun 22 09:57:48 2017 -0700

• adding a help script to construct chromAlias table refs #19660
  • src/hg/utils/automation/chromAlias.pl - lines changed 144, context: html, text, full: html, text

3c9289aafb0cb3c18d3aeb35416f9c12040d6c49 Thu Jun 22 14:31:09 2017 -0700

• fixup the broken ensemblSource.tab construction refs #19526
  • src/hg/utils/automation/doEnsGeneUpdate.pl - lines changed 1, context: html, text, full: html, text

4ab3e6850013b520c76257a6607ad638945ce9a1 Thu Jun 22 14:32:44 2017 -0700

• add ornAna1,ornAna2, papAnu2,papAnu3 to the v89 build refs #19526
  • src/hg/utils/automation/EnsGeneAutomate.pm - lines changed 6, context: html, text, full: html, text

fc4dcd913db9a41f8980b96cd04640bf05175faa Thu Jun 22 14:47:24 2017 -0700

• ensGene v89 build completed refs #19526
  • src/hg/makeDb/doc/makeEnsembl.txt - lines changed 79, context: html, text, full: html, text

ad20328fafb4624a0c919223a670cec1bc8ba759 Thu Jun 22 14:47:57 2017 -0700

• ensGene v89 build completed refs #19526
  • src/hg/makeDb/doc/ornAna1.txt - lines changed 23, context: html, text, full: html, text

2279f1e5ab6e4804202db626f8c26e6eedbf18ac Thu Jun 22 14:49:17 2017 -0700

• completed build with hg38 and mm10 lastz/chainNet refs #10145
  • src/hg/makeDb/doc/orcOrc1/initialBuild.txt - lines changed 53, context: html, text, full: html, text

ef94a845faa09cb4bb6c84700516cb6867160832 Thu Jun 22 14:50:12 2017 -0700

• ensGene v89 build completed refs #19526
  • src/hg/makeDb/doc/danRer10/initialBuild.txt - lines changed 39, context: html, text, full: html, text
  • src/hg/makeDb/doc/ornAna2/initialBuild.txt - lines changed 23, context: html, text, full: html, text

cea4e7a82347bee9e18c11c2137106315852f630 Thu Jun 22 16:01:38 2017 -0700

• taking a look at the crispr track from Ensembl refs #19513
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 8, context: html, text, full: html, text

be6a5d9722c63fcb736c959843fe50e2b4735241 Thu Jun 22 22:20:55 2017 -0700

• lastz chainNet to orcOrc1 and papAnu3 refs #10145 #19660
  • src/hg/makeDb/doc/mm10.txt - lines changed 110, context: html, text, full: html, text

2407a24bda328c9759342a48cf25c544365347c4 Fri Jun 23 10:54:06 2017 -0700

• adding papAnu3 rules refs #19660
  • src/hg/makeDb/schema/all.joiner - lines changed 9, context: html, text, full: html, text

c67d3507317826da8a2f94751ad4f017a83ee0da Fri Jun 23 15:07:06 2017 -0700

• taking a look at the crispr track from Ensembl and the locally generated kmer track for all crispr sites refs #19513
  • src/hg/makeDb/trackDb/trackDb.ra - lines changed 22, context: html, text, full: html, text

8544a30328a92e972e3821fee757ae7266ee0c4e Fri Jun 23 23:24:51 2017 -0700

• done with papHam3 just in time for it to be obsolete and with papAnu2 liftOvers refs #19660
  • src/hg/makeDb/doc/papAnu2.txt - lines changed 14, context: html, text, full: html, text
  • src/hg/makeDb/doc/papAnu3/initialBuild.txt - lines changed 177, context: html, text, full: html, text

9476dc411e687bb2b3af03aeab503aa524e6e456 Sat Jun 24 01:05:41 2017 -0700

• html for crispr composite track refs #19513
  • src/hg/makeDb/trackDb/crispors.html - lines changed 26, context: html, text, full: html, text

bb452818d7cb36511be4569335e6e927c08e3ca0 Mon Jun 26 10:03:26 2017 -0700

• v351 final build
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 3, context: html, text, full: html, text

45d468a020251066818949cde30a17de3023b927 Mon Jun 26 10:04:49 2017 -0700

• New version number v351
  • src/hg/inc/versionInfo.h - lines changed 1, context: html, text, full: html, text