Commits for markd

v401_preview2 to v401_base (2020-07-06 to 2020-07-13) v401

f414f1cc77160930c8874076c32379141e92f0c2 Mon Jul 6 11:15:08 2020 -0700

• fix build in computing gencode transcript class for some pseudogenes
  • src/hg/makeDb/outside/gencode/lib/gencode/biotypes.py - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsPseudoGff3Tests.attrs - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsPseudoGff3Tests.tags - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsPseudoGff3Tests.tsl - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsPseudoGff3Tests.tsv - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/input/pseudo.gff3 - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/makefile - lines changed 9, context: html, text, full: html, text

110f9f8aa88ddabda2d95303f68c8f0a54274129 Mon Jul 6 12:37:58 2020 -0700

• updated some test results for pseudo change
  • src/hg/makeDb/outside/gencode/tests/expected/attrsSet1GtfTest.attrs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsSet1GtfTest.tsv - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsTagGff3Tests.attrs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsTagGff3Tests.tsv - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsTagGtfTests.attrs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsTagGtfTests.tsv - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21Gff3Test.attrs - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21Gff3Test.tsv - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21GtfTest.attrs - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21GtfTest.tsv - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV27ParGff3Test.attrs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV27ParGff3Test.tsv - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV27ParGtfTest.attrs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV27ParGtfTest.tsv - lines changed 1, context: html, text, full: html, text

dc61362883ce0359695d92ecf6b84364a7a12457 Sun Jul 12 17:43:31 2020 -0700

• update bonobo credits
  • src/hg/htdocs/goldenPath/credits.html - lines changed 30, context: html, text, full: html, text