Commits for markd

v469_preview2 to v469_base (2024-07-29 to 2024-08-05) v469

0f6f8c5cdfc1c5385c814102a4fa59afb08d2849 Wed Jul 31 23:45:27 2024 -0700

• import of GENCODE v47, v47lift37, and vM36 pre-releases
  • src/hg/makeDb/doc/hg19.gencode.txt - lines changed 47, context: html, text, full: html, text
  • src/hg/makeDb/doc/hg38/gencode.txt - lines changed 47, context: html, text, full: html, text
  • src/hg/makeDb/doc/mm39/gencode.txt - lines changed 24, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/bin/gencodeGenerateTrackDbs - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/gencodeLoad.mk - lines changed 28, context: html, text, full: html, text
  • src/hg/makeDb/schema/all.joiner - lines changed 278, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV47lift37.html - lines changed 32, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeGencodeV47lift37.ra - lines changed 210, 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/wgEncodeGencodeV47.html - lines changed 47, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg38/wgEncodeGencodeV47.ra - lines changed 247, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/trackDb.gencode.ra - lines changed 1, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/wgEncodeGencodeVM36.html - lines changed 30, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm39/wgEncodeGencodeVM36.ra - lines changed 247, context: html, text, full: html, text

86a413987f2d1db20eb3b5db57c45b8da38178fc Fri Aug 2 22:24:04 2024 -0700

• Split tags into gene and transcript tags. This is only internal right now, not loaded in the database this way
  • src/hg/makeDb/outside/gencode/bin/gencodeGxfToAttrs - lines changed 20, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/lib/gencode/gencodeGenes.py - lines changed 10, 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/attrsRankTest.tsv - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsSet1GtfTest.tsv - lines changed 34, 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 1, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21Gff3Test.tsv - lines changed 26, context: html, text, full: html, text
  • src/hg/makeDb/outside/gencode/tests/expected/attrsV21GtfTest.tsv - lines changed 26, 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