Commits for hiram

v347_base to v348_preview (2017-04-03 to 2017-04-10) v348

3715cfbc6229c5ebb79a22bb73eb39add7b1e14a Wed Apr 5 09:49:10 2017 -0700

• adding xenLae2 to the update alignments refs #17435
  • 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 1, context: html, text, full: html, text

5290369a3f23b31f2467cbfe12d86cd89a1d5d3c Wed Apr 5 10:13:58 2017 -0700

• finished lastz chainNet to frog xenLae2 refs #17435
  • src/hg/makeDb/doc/mm10.txt - lines changed 2, context: html, text, full: html, text

751f1bcf592d02e48b941f06320fe73d640b3c4c Wed Apr 5 10:15:08 2017 -0700

• done with genbank run and lastz mm10 hg38 and default position set refs #17435
  • src/hg/makeDb/doc/xenLae2/initialBuild.txt - lines changed 30, context: html, text, full: html, text

868f591311323e51f48d11546c0947b933f65f87 Thu Apr 6 13:50:12 2017 -0700

• adding xenTro9 and xenLae2 refs #19151 #17435
  • src/hg/makeDb/trackDb/trackDb.chainNet.sarcopterygii.ra - lines changed 116, context: html, text, full: html, text

791e00b122641b5cee357a2af218f5fbcee16daa Thu Apr 6 13:56:29 2017 -0700

• adding chainNet overrides refs #19151
  • src/hg/makeDb/trackDb/xenTro/xenTro9/trackDb.chainNet.ra - lines changed 41, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/xenTro/xenTro9/trackDb.ra - lines changed 2, context: html, text, full: html, text

9df328e8dedaffdc13e0bef82d9a717d0a9689ee Thu Apr 6 20:29:50 2017 -0700

• lastz chainNet xenTro9 monDom5 refs #19151
  • src/hg/makeDb/doc/monDom5.txt - lines changed 61, context: html, text, full: html, text

d7d769af42570ced6c8f540e7b94bd412e301e12 Thu Apr 6 20:30:18 2017 -0700

• lastz chainNet xenTro9 canFam3 refs #19151
  • src/hg/makeDb/doc/canFam3.txt - lines changed 70, context: html, text, full: html, text

4d7fe3f615a497c113a3aa18bdfc328a70957235 Thu Apr 6 20:31:21 2017 -0700

• lastz chainNet mm10 chrPic2 refs #13166
  • src/hg/makeDb/doc/chrPic2.txt - lines changed 24, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm10.txt - lines changed 71, context: html, text, full: html, text

5ee79e13be1adbd62760be8cc2a3db56b164931e Thu Apr 6 20:32:09 2017 -0700

• lastz chainNet xenTro9 anoCar2 refs #19151
  • src/hg/makeDb/doc/anoCar2.txt - lines changed 26, context: html, text, full: html, text

ed0af0847625a744ec3082b9a94694850acf9c53 Thu Apr 6 20:33:19 2017 -0700

• lastz chainNet xenTro9 to xenLae2 galGal5 fr3 anoCar2 canFam3 refs #19151
  • src/hg/makeDb/doc/xenTro9/lastzRuns.txt - lines changed 266, context: html, text, full: html, text

0209fe937bf22f43e6e099a9e1a6856714729067 Thu Apr 6 20:34:53 2017 -0700

• lastz chainNet xenTro9 fr3 refs #19151
  • src/hg/makeDb/doc/fr3.txt - lines changed 26, context: html, text, full: html, text

c7c10224861dc80c730e5cd32126473538f420da Fri Apr 7 08:56:55 2017 -0700

• changing cse.ucsc.edu to soe.ucsc.edu references refs #19134
  • src/hg/utils/automation/asmHubGatewayPage.pl - lines changed 17, context: html, text, full: html, text
  • src/hg/utils/automation/asmHubRmsk.pl - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/automation/doBlastzChainNet.pl - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/automation/doDbSnpMaskSequence.pl - lines changed 5, context: html, text, full: html, text
  • src/hg/utils/automation/makeDownloads.pl - lines changed 23, context: html, text, full: html, text
  • src/hg/utils/automation/makeGenomeDb.pl - lines changed 5, context: html, text, full: html, text

497eba07a57f115518b245a76788731bd3306ac4 Fri Apr 7 22:16:42 2017 -0700

• adding chrPic2, monDom5 and canFam3 overrides refs #19151
  • src/hg/makeDb/trackDb/xenTro/xenTro9/trackDb.chainNet.ra - lines changed 19, context: html, text, full: html, text

6f16255759d08dedc1505dbebf7f0490b70082ac Fri Apr 7 22:27:12 2017 -0700

• adding chrPic2 refs #19151
  • src/hg/makeDb/trackDb/trackDb.chainNet.sarcopterygii.ra - lines changed 59, context: html, text, full: html, text

c4f5bf4fa1bebee3e3cffc09af86701281ebdc31 Mon Apr 10 10:10:31 2017 -0700

• v348 preview1 refs #19120
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 2, context: html, text, full: html, text