File Changes for chmalee

v404_base to v405_preview (2020-09-14 to 2020-09-21) v405

• src/hg/hgTracks/simpleTracks.c
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    2631a6777054d51ebcaf26b5bccffc52e90fc047 Thu Sep 17 16:06:34 2020 -0700
    Rename decipher code paths to decipherOld for switch to bigBed, refs #25841
• src/hg/hgc/hgc.c
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    2631a6777054d51ebcaf26b5bccffc52e90fc047 Thu Sep 17 16:06:34 2020 -0700
    Rename decipher code paths to decipherOld for switch to bigBed, refs #25841
• src/hg/lib/hui.c
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    826a14eeb65fa9a877c362ded4de9d311f991a61 Thu Sep 17 16:25:15 2020 -0700
    Fix relatedTracks section breaking on trackHubs that was lost when merging development branch, refs #26203
• src/hg/makeDb/doc/hg19.txt
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    87d5b93cb522e7bfa4a66ae41f93e94394d2e1d1 Fri Sep 18 14:34:02 2020 -0700
    Stagin gnomad pext track, refs #25869
• src/hg/makeDb/gnomad/buildPext.py
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    87d5b93cb522e7bfa4a66ae41f93e94394d2e1d1 Fri Sep 18 14:34:02 2020 -0700
    Stagin gnomad pext track, refs #25869
• src/hg/makeDb/trackDb/human/hg19/trackDb.gnomad.ra
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    87d5b93cb522e7bfa4a66ae41f93e94394d2e1d1 Fri Sep 18 14:34:02 2020 -0700
    Stagin gnomad pext track, refs #25869
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    7ce8e94968132c39c86928db146df911bee20197 Fri Sep 18 15:16:58 2020 -0700
    Add colors to gnomad pext wiggles, refs #25869
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    a46e9028d7f1e1cad0d3cf0838e9dc3a1e28b64c Mon Sep 21 07:49:45 2020 -0700
    Making some requested changes to gnomad PEXT track, refs #25869
• src/hg/makeDb/trackDb/human/trackDb.clinGen.ra
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    579d4220eec5e357b78dc0deb459db6d1858af20 Mon Sep 14 12:06:57 2020 -0700
    Add ClinGen Gene Disease validity track to new clingen composite, refs Ana email
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    fff5eb057ce25327a375aa653ebbfb4d77b032f7 Tue Sep 15 15:39:44 2020 -0700
    Warning that old clinGen track is outdated and fixing config visibility for new clingen, refs #24818
• src/hg/makeDb/trackDb/human/trackDb.ra
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    486c312a04bb6eaacc345af466b52304bc2fa516 Tue Sep 15 08:48:23 2020 -0700
    Change LOVD and DECIPHER release tags for testing on hgwbeta, refs #25841
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    fff5eb057ce25327a375aa653ebbfb4d77b032f7 Tue Sep 15 15:39:44 2020 -0700
    Warning that old clinGen track is outdated and fixing config visibility for new clingen, refs #24818
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    7ec003fc7ae8f5bb327037388ac9ce1031286b01 Thu Sep 17 12:32:59 2020 -0700
    Making lovd long variants a bigBed 9 + so mergeSpannedItems works , refs #25841
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    1c4b864cb6c2799aadb8babc49c5dd1246199a05 Thu Sep 17 15:59:40 2020 -0700
    Fix mismatched search rules on decipher track. Track has release tags public but search rule still present on dev/beta, refs #25841
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    2631a6777054d51ebcaf26b5bccffc52e90fc047 Thu Sep 17 16:06:34 2020 -0700
    Rename decipher code paths to decipherOld for switch to bigBed, refs #25841
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    cf2be0080798ae72a1711a7affd0d5d06e10c719 Thu Sep 17 16:23:49 2020 -0700
    Woops forgot to also switch decipher bigBed search stanza release tags too
• src/hg/utils/otto/clinGen/checkClinGen.sh
  • lines changed 1, context: html, text, full: html, text
    579d4220eec5e357b78dc0deb459db6d1858af20 Mon Sep 14 12:06:57 2020 -0700
    Add ClinGen Gene Disease validity track to new clingen composite, refs Ana email
• src/hg/utils/otto/clinGen/makeGeneValidity.sh
  • lines changed 33, context: html, text, full: html, text
    579d4220eec5e357b78dc0deb459db6d1858af20 Mon Sep 14 12:06:57 2020 -0700
    Add ClinGen Gene Disease validity track to new clingen composite, refs Ana email
• src/hg/utils/otto/lovd/checkAndLoad.sh
  • lines changed 6, context: html, text, full: html, text
    7ec003fc7ae8f5bb327037388ac9ce1031286b01 Thu Sep 17 12:32:59 2020 -0700
    Making lovd long variants a bigBed 9 + so mergeSpannedItems works , refs #25841
• src/hg/utils/otto/lovd/lovd.as
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    a08a57856cdee6e077684b0f8519a915e5fbdedd Mon Sep 21 07:53:05 2020 -0700
    Removing duplicated autoSql def for old version of lovd track, refs build email
• src/hg/utils/otto/lovd/lovd.long.as
  • lines changed 17, context: html, text, full: html, text
    7ec003fc7ae8f5bb327037388ac9ce1031286b01 Thu Sep 17 12:32:59 2020 -0700
    Making lovd long variants a bigBed 9 + so mergeSpannedItems works , refs #25841
• src/hg/utils/otto/lovd/lovd.short.as
  • lines changed 12, context: html, text, full: html, text
    7ec003fc7ae8f5bb327037388ac9ce1031286b01 Thu Sep 17 12:32:59 2020 -0700
    Making lovd long variants a bigBed 9 + so mergeSpannedItems works , refs #25841