Commits for lrnassar

2596c3765d9f8fb8ffe464d7d11ba843374f672a Wed Feb 12 12:49:11 2025 -0800

068989f90bc7c7497520190a753667703df3bacb Wed Feb 12 13:35:59 2025 -0800

Revert "Turning SpliceAI into a composite instead of a superTrack so it can be nested in the splicing impact track, refs #34823" This reverts commit 0600b1ca44df66fa059b55f2357c0df6387d64b5.
- src/hg/makeDb/trackDb/human/spliceAI.ra - lines changed 5, context: html, text, full: html, text

4d124c77cd31a7b55284b46dd711c3354b8b78cf Wed Feb 12 17:02:00 2025 -0800

Fixing the git compare script: removed the '\' which are not needed in the grep statement, changed the check=False in bash command to no longer error out when a find command fails, and most importantly added a check to make sure files are real (for example there were broken symlinks), and if they are real if the running user has permission to access it. No RM.
- src/hg/utils/otto/ottoCompareGitVsHiveFiles.py - lines changed 7, context: html, text, full: html, text

8c99178b26a94e8808d87cc245ce693e0f2069f1 Thu Feb 13 09:10:46 2025 -0800

Fixing the clinGenCspec otto that needed some continues when conditions were not met, no RM.
- src/hg/utils/otto/clinGen/makeClinGenCspec.sh - lines changed 2, context: html, text, full: html, text

336661f13f731c2a26a88f9acb9673f8751dac77 Fri Feb 14 08:56:56 2025 -0800

Fixing up the monthly usage stats cron - adding a new path to the tabFmt script, and adding a cleanup step at the top of the script so that it doesn't reuse old logs if a run fails.
- src/utils/qa/assemblyStatsCron.py - lines changed 13, context: html, text, full: html, text

01291cd79ec246a80e79856a5c1f724d55aa39cd Fri Feb 14 11:33:30 2025 -0800

Moving up the user var declaration, I had left it below its first use when I added the unfinished run cleanup.
- src/utils/qa/assemblyStatsCron.py - lines changed 4, context: html, text, full: html, text

44758476f02860234fe5eb5cbf424908efa22a9a Mon Feb 17 12:25:15 2025 -0800