Commits for markd

v411_preview2 to v411_base (2021-02-22 to 2021-03-01) v411

64d224c975cf63ad9f784e522ee6782cfe144abd Mon Feb 22 12:52:50 2021 -0800

• fixed gff3ToGenePred -refseqHacks to not SEGV on a CDS without a Name parameter
  • src/hg/utils/gff3ToGenePred/gff3ToGenePred.c - lines changed 1, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/expected/ncbiProblemsTest.attrs - lines changed 16, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/expected/ncbiProblemsTest.gp - lines changed 2, context: html, text, full: html, text
  • src/hg/utils/gff3ToGenePred/tests/input/ncbiProblems.gff3 - lines changed 14, context: html, text, full: html, text

d8874392132c3e1fe3cd1850550aed635a5566dd Tue Feb 23 09:40:09 2021 -0800

• have git ignore js/react/*/compiled/ directories
  • .gitignore - lines changed 3, context: html, text, full: html, text

2306b0cbe3778fe985fa284367228b35fd9dae78 Tue Feb 23 11:27:38 2021 -0800

• added featureBits option to only consider primary chromosomes using UCSC naming convention
  • src/hg/featureBits/featureBits.c - lines changed 6, context: html, text, full: html, text

6c276764fa27ce3afe69d59a4607601675e5fc1e Wed Feb 24 17:40:55 2021 -0800

• added CAT genes and supporting isoseq to calJac4; still waiting for documentation
  • src/hg/makeDb/trackDb/marmoset/calJac4/catV2.html - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/marmoset/calJac4/trackDb.catV2.ra - lines changed 14, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/marmoset/calJac4/trackDb.isoseq.ra - lines changed 176, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/marmoset/calJac4/trackDb.ra - lines changed 3, context: html, text, full: html, text

7def57860cd7a395af34b06ff0fe04e32a7f3e97 Thu Feb 25 13:58:01 2021 -0800

• don't attempt to connect to database for blat results from user input, including hubs
  • src/hg/hgc/hgc.c - lines changed 19, context: html, text, full: html, text