Commits for markd

v436_preview to v436_preview2 (2022-08-15 to 2022-08-22) v436

59ac146389c04b9e91c3bd7f658a28cb0f5e04d4 Sun Aug 14 10:12:11 2022 -0700

• show full label in label region (from RMH)
  • src/hg/hgTracks/bigRmskTrack.c - lines changed 17, context: html, text, full: html, text

e417eb7ff33edef9c0b33bb67360a9fc39fc9105 Sun Aug 21 08:49:17 2022 -0700

• update bigRmsk track build documentation and provide a standard track description page
  • src/hg/htdocs/bigRmskTrackDesc.html - lines changed 216, context: html, text, full: html, text
  • src/hg/htdocs/goldenPath/help/bigRmsk.html - lines changed 310, context: html, text, full: html, text

a93daa92b77f5717f8ff247cb049a46cd0f66409 Sun Aug 21 17:37:28 2022 -0700

• add transcriptRank column to wgEncodeGencodeAttrs in preperation for getting transcript ranks in upcomming gencode distribution. Import GENCODE V42 prerelease to test out creating column
  • src/hg/hgTracks/gencodeTracks.c - lines changed 23, context: html, text, full: html, text
  • src/hg/inc/encode/wgEncodeGencodeAttrs.h - lines changed 8, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeAttrs.c - lines changed 38, context: html, text, full: html, text
  • src/hg/lib/encode/wgEncodeGencodeAttrs.sql - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/gencode.txt - lines changed 31, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/bin/gencodeMakeAttrs - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeLoad.mk - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/lib/gencode/biotypes.py - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/lib/gencode/gencodeTags.py - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/schema/all.joiner - lines changed 95, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV42.html - lines changed 47, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV42.ra - lines changed 286, context: html, text, full: html, text

c64ea1371e5abf8908877f7c9e4164c2f7b54094 Sun Aug 21 19:37:48 2022 -0700

• include faked transcriptRank in initial TSV
  • src/hg/makeDb/outside/gencode/bin/gencodeGxfToAttrs - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/bin/gencodeMakeAttrs - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/lib/gencode/gencodeGenes.py - lines changed 5, 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/expected/attrsSet1GtfTest.tsv - lines changed 83, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsTagGff3Tests.tsv - lines changed 17, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsTagGtfTests.tsv - lines changed 17, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV19GtfTest.tsv - lines changed 6, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21Gff3Test.tsv - lines changed 118, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21GtfTest.tsv - lines changed 118, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV27ParGff3Test.tsv - lines changed 16, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV27ParGtfTest.tsv - lines changed 16, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/makeAttrsTest.attrs.tab - lines changed 82, context: html, text, full: html, text