File Changes for chmalee

v454_base to v455_preview (2023-09-18 to 2023-09-25) v455

• src/hg/cgilib/pcrResult.c
  • lines changed 12, context: html, text, full: html, text
    04a5652eeca73cbc1c426587576cf8d3b29a1f4c Mon Sep 18 15:57:17 2023 -0700
    Fix hgTracks and hgc crash when a users session has pcr results from both before we allowed multiple queries to stack and after, refs #32236
• src/hg/hgPcr/hgPcr.c
  • lines changed 23, context: html, text, full: html, text
    67774b8e85d05089eb6482e1ea865c4298f4ac36 Tue Sep 19 09:41:09 2023 -0700
    When appending pcr results, if we would be writing to a file that is in a saved session, first copy the session pcr results into a new trash file, and then write our new results into that. This keeps the session unchanged, refs #32236
• src/hg/hgTracks/imageV2.c
  • lines changed 9, context: html, text, full: html, text
    ca8d3560aa51bc5d7a508359ebdb6fbedbc48b05 Fri Sep 22 13:19:15 2023 -0700
    Put special check for br tags in item titles behind hg.conf control now that we have new mouseover code. Eventually the else statement can be removed entirely, refs Jonathan email
• src/hg/hgc/hgc.c
  • lines changed 1, context: html, text, full: html, text
    90052d845ed4c1e24963ad7cdc0161b29f50e1d3 Mon Sep 18 15:53:02 2023 -0700
    Fix bug that was printing 'matches to ucsc genes' when the pcr match was not to ucsc genes, just overlapping that position
• src/hg/lib/customFactory.c
  • lines changed 1, context: html, text, full: html, text
    ae31cb7c9cb0b29fe6a23e7f96e3ad2b8d55f9d3 Thu Sep 21 16:46:47 2023 -0700
    Fill in missing bedList field for narrowPeak custom tracks, refs #32262
• src/hg/lib/hgHgvs.c
  • lines changed 47, context: html, text, full: html, text
    bbca1ee6f90a46e7a139434849dbf32bd206b522 Thu Sep 21 12:27:34 2023 -0700
    First cut of adding a historical refseq transcripts track, and getting hgvs searching to work with them, refs #26016
• src/hg/makeDb/doc/hg38/ncbiRefSeq.txt
  • lines changed 61, context: html, text, full: html, text
    bbca1ee6f90a46e7a139434849dbf32bd206b522 Thu Sep 21 12:27:34 2023 -0700
    First cut of adding a historical refseq transcripts track, and getting hgvs searching to work with them, refs #26016
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
  • lines changed 15, context: html, text, full: html, text
    db4660fe604ccb1b21aa3b5dfe3421cf8ac662eb Fri Sep 22 07:40:45 2023 -0700
    Move refSeqHistorical into hg38 trackDb instead of just the top level refSeqComposite, refs build email
• src/hg/makeDb/trackDb/refSeqComposite.ra
  • lines changed 15, context: html, text, full: html, text
    bbca1ee6f90a46e7a139434849dbf32bd206b522 Thu Sep 21 12:27:34 2023 -0700
    First cut of adding a historical refseq transcripts track, and getting hgvs searching to work with them, refs #26016
  • lines changed 15, context: html, text, full: html, text
    db4660fe604ccb1b21aa3b5dfe3421cf8ac662eb Fri Sep 22 07:40:45 2023 -0700
    Move refSeqHistorical into hg38 trackDb instead of just the top level refSeqComposite, refs build email
• src/hg/utils/hgvsToVcf/tests/expected/clinVarChanges.err
  • lines changed 2, context: html, text, full: html, text
    fbcacfcd4a8baadb31fca8b07c8f831580c31c82 Fri Sep 22 14:48:04 2023 -0700
    Fix hgvsToVcf tests now that we can have a track with old sequences, refs Galt email
• src/hg/utils/hgvsToVcf/tests/expected/clinVarChanges.vcf
  • lines changed 1, context: html, text, full: html, text
    fbcacfcd4a8baadb31fca8b07c8f831580c31c82 Fri Sep 22 14:48:04 2023 -0700
    Fix hgvsToVcf tests now that we can have a track with old sequences, refs Galt email