File Changes for braney

v427_preview to v427_preview2 (2022-02-07 to 2022-02-14) v427

• src/hg/hgGene/domains.c
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    9575c7ded6204e195d050b3bc18b77e43359423c Mon Feb 7 14:37:55 2022 -0800
    remove links to PDB images which are no longer present. Change URL to structure to conform to current PDB site.
• src/hg/hgGene/hgGeneData/Human/hg38/links.ra
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    98f8d8fe3c4c43d4030a61ccec76e88c4719213a Thu Feb 10 11:51:25 2022 -0800
    upgrade to V39
• src/hg/hgTracks/wigTrack.c
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    d51631f0fa655b66dfd432cfb3ba95b3b058fa64 Thu Feb 10 12:00:02 2022 -0800
    change sequence logo view back to coming on at codon coloring level instead of base level since I cannot replicate the bug I was seeing.
• src/hg/makeDb/doc/hg38/mane.txt
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    bbad3a22ae7d64cb72f5af7e24963cf3c219fbe4 Sat Feb 12 10:03:39 2022 -0800
    import MANE v1.0
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    c924092bcdeb2b5e1b8e10f260854fa4ca9ac9c2 Sat Feb 12 13:14:03 2022 -0800
    a little clean-up of the doc
• src/hg/makeDb/doc/ucscGenes/hg38.gencodeV39.log
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    20473f03adfc10172e8cc39b23656e077aece62e Mon Feb 7 14:48:45 2022 -0800
    add GENCODE V39 log files to doc
• src/hg/makeDb/trackDb/human/hg38/mane.alpha.html
  • lines changed 3, context: html, text, full: html, text
    bbad3a22ae7d64cb72f5af7e24963cf3c219fbe4 Sat Feb 12 10:03:39 2022 -0800
    import MANE v1.0
• src/hg/makeDb/trackDb/human/hg38/mane.alpha.ra
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    bbad3a22ae7d64cb72f5af7e24963cf3c219fbe4 Sat Feb 12 10:03:39 2022 -0800
    import MANE v1.0
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
  • lines changed 2, context: html, text, full: html, text
    bbad3a22ae7d64cb72f5af7e24963cf3c219fbe4 Sat Feb 12 10:03:39 2022 -0800
    import MANE v1.0
• src/hg/utils/otto/knownGene/buildTo.sh
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    339f301a906608e65e98d494054ef975a5b68f44 Thu Feb 10 12:43:04 2022 -0800
    take Lynx out of knownGene build
• src/hg/utils/otto/knownGene/copyFilesToAssembly.sh
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    bb0ba2f4936af96f32f4cbc01dfab0a8b0b957ea Thu Feb 10 12:41:32 2022 -0800
    more parameterization of knownGene build
• src/utils/subColumn/subColumn.c
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    fe2dff20936a2f7d3cd570360b1d6fe0e1b65cc1 Thu Feb 10 14:15:36 2022 -0800
    add an option to subColumn to skip lines that don't match
• src/utils/subColumn/tests/expected/outputMiss.bed
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    c014326efaedb835a44760dbe4e2ed4c8e992412 Thu Feb 10 14:13:21 2022 -0800
    add some tests to subColumn
• src/utils/subColumn/tests/expected/passMissing.tab
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    c014326efaedb835a44760dbe4e2ed4c8e992412 Thu Feb 10 14:13:21 2022 -0800
    add some tests to subColumn
• src/utils/subColumn/tests/expected/skipMissing.tab
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    c014326efaedb835a44760dbe4e2ed4c8e992412 Thu Feb 10 14:13:21 2022 -0800
    add some tests to subColumn
• src/utils/subColumn/tests/input/colored.bed
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    c014326efaedb835a44760dbe4e2ed4c8e992412 Thu Feb 10 14:13:21 2022 -0800
    add some tests to subColumn
• src/utils/subColumn/tests/input/ensembl.tab
  • lines changed 194, context: html, text, full: html, text
    c014326efaedb835a44760dbe4e2ed4c8e992412 Thu Feb 10 14:13:21 2022 -0800
    add some tests to subColumn
• src/utils/subColumn/tests/makefile
  • lines changed 24, context: html, text, full: html, text
    c014326efaedb835a44760dbe4e2ed4c8e992412 Thu Feb 10 14:13:21 2022 -0800
    add some tests to subColumn