Commits for jnavarr5

v490_preview to v490_preview2 (2025-10-20 to 2025-10-27) v490

3ff911e2af586e1e45944813cef5138de1421777 Thu Oct 23 14:00:10 2025 -0700

• Updating the URL to the Orphanet data since Ensembl retired the US West server, no Redmine.
  • src/hg/utils/otto/orphanet/parseOrphadata.py - lines changed 1, context: html, text, full: html, text

11594d79515c4bcdec42959a0881d840a26ab908 Thu Oct 23 14:08:20 2025 -0700

• Need 'useast' in the URL, no Redmine
  • src/hg/utils/otto/orphanet/parseOrphadata.py - lines changed 1, context: html, text, full: html, text

0b2258ca5ed205f72a19f77bc3a0bd009a87c117 Thu Oct 23 14:31:54 2025 -0700

• Fixing a bug where the an empty string would break the otto cronjob, no Redmine.
  • src/hg/utils/otto/orphanet/parseOrphadata.py - lines changed 2, context: html, text, full: html, text

83cc98681bb258a9eed116893ca85439c0df18f3 Thu Oct 23 16:04:21 2025 -0700

• Moving the DDG2P track into its own container, G2P, refs #36469
  • src/hg/makeDb/trackDb/human/g2p.html - lines changed 84, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/g2p.ra - lines changed 19, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 3, context: html, text, full: html, text

5428fe6145c9d7971704b42e2945fa34978f59c2 Fri Oct 24 10:49:47 2025 -0700

• Accidentally removed the Decipher tracks from hgwdev, refs #36529
  • src/hg/makeDb/trackDb/human/decipher.ra - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/trackDb.ra - lines changed 1, context: html, text, full: html, text

41fc9a82e180cd08b149a8b92d7fcc9fb630fec9 Fri Oct 24 13:06:45 2025 -0700

• Adding LiftOver doc, refs #36547
  • src/hg/makeDb/doc/mm10.txt - lines changed 81, context: html, text, full: html, text

a57e95fd50c67dfcb633c5732844d411655b07a0 Fri Oct 24 15:46:37 2025 -0700

• Fixing a singular-plural disconnect that Bob wrote in about, refs #36576
  • src/hg/makeDb/trackDb/human/hg38/mane.html - lines changed 4, context: html, text, full: html, text

70a0c624de26b19e8f53b2ad429afe617063b4d4 Mon Oct 27 14:40:15 2025 -0700

• Updating the URL to download the GWAS data since the previous URL is now retired, no Redmine.
  • src/hg/utils/otto/gwas/checkGwas.sh - lines changed 1, context: html, text, full: html, text

ee617db835fea5844d9fbf28559f3bb515ef75ae Mon Oct 27 15:24:18 2025 -0700

• Unzipping the contents of the gwas catalog before continuing with the script, no Redmine
  • src/hg/utils/otto/gwas/checkGwas.sh - lines changed 2, context: html, text, full: html, text