dsde-jenkins
commented
1 month ago Can one of the admins verify this patch?
Open mmorgantaylor opened 1 month ago
dsde-jenkins
commented
1 month ago Can one of the admins verify this patch?
github-actions[bot]
commented
1 month ago Remember to squash merge!
github-actions[bot]
commented
1 month ago Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
WholeGenomeGermlineSingleSample.changelog.md has not been changed and needs to be updated
UltimaGenomicsWholeGenomeGermline.changelog.md has not been changed and needs to be updated
ExomeGermlineSingleSample.changelog.md has not been changed and needs to be updated
VariantCalling.changelog.md has not been changed and needs to be updated
UltimaGenomicsWholeGenomeCramOnly.changelog.md has not been changed and needs to be updated
BroadInternalUltimaGenomics.changelog.md has not been changed and needs to be updated
BroadInternalRNAWithUMIs.changelog.md has not been changed and needs to be updated
BroadInternalImputation.changelog.md has not been changed and needs to be updated
BroadInternalArrays.changelog.md has not been changed and needs to be updated
ExternalWholeGenomeReprocessing.changelog.md has not been changed and needs to be updated
ExternalExomeReprocessing.changelog.md has not been changed and needs to be updated
WholeGenomeReprocessing.changelog.md has not been changed and needs to be updated
ExomeReprocessing.changelog.md has not been changed and needs to be updated
CheckFingerprint.changelog.md has not been changed and needs to be updated
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeagle.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeaglePreChunk.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/CreateImputationRefPanelBeagle.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/LiftoverVcfs.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
Imputation.changelog.md has not been changed and needs to be updated
Arrays.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failedComparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
WholeGenomeGermlineSingleSample.wdl has not been changed and needs updating
UltimaGenomicsWholeGenomeGermline.wdl has not been changed and needs updating
ExomeGermlineSingleSample.wdl has not been changed and needs updating
VariantCalling.wdl has not been changed and needs updating
UltimaGenomicsWholeGenomeCramOnly.wdl has not been changed and needs updating
BroadInternalUltimaGenomics.wdl has not been changed and needs updating
BroadInternalRNAWithUMIs.wdl has not been changed and needs updating
BroadInternalImputation.wdl has not been changed and needs updating
BroadInternalArrays.wdl has not been changed and needs updating
ExternalWholeGenomeReprocessing.wdl has not been changed and needs updating
ExternalExomeReprocessing.wdl has not been changed and needs updating
WholeGenomeReprocessing.wdl has not been changed and needs updating
ExomeReprocessing.wdl has not been changed and needs updating
CheckFingerprint.wdl has not been changed and needs updating
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeagle.changelog.md: No such file or directory
ImputationBeagle.wdl and ImputationBeagle.changelog.md do not have matching versions
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeaglePreChunk.changelog.md: No such file or directory
ImputationBeaglePreChunk.wdl and ImputationBeaglePreChunk.changelog.md do not have matching versions
CreateImputationRefPanelBeagle.wdl has not had its version updated
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/CreateImputationRefPanelBeagle.changelog.md: No such file or directory
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/LiftoverVcfs.changelog.md: No such file or directory
LiftoverVcfs.wdl and LiftoverVcfs.changelog.md do not have matching versions
Imputation.wdl has not had its version updated
Arrays.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failedRemember to squash merge!
github-actions[bot]
commented
1 month ago Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
SlideSeq.changelog.md has not been changed and needs to be updated
snm3C.changelog.md has not been changed and needs to be updated
PairedTag.changelog.md has not been changed and needs to be updated
Optimus.changelog.md has not been changed and needs to be updated
Multiome.changelog.md has not been changed and needs to be updated
atac.changelog.md has not been changed and needs to be updated
WholeGenomeGermlineSingleSample.changelog.md has not been changed and needs to be updated
UltimaGenomicsWholeGenomeGermline.changelog.md has not been changed and needs to be updated
ExomeGermlineSingleSample.changelog.md has not been changed and needs to be updated
VariantCalling.changelog.md has not been changed and needs to be updated
ReblockGVCF.changelog.md has not been changed and needs to be updated
UltimaGenomicsWholeGenomeCramOnly.changelog.md has not been changed and needs to be updated
BroadInternalUltimaGenomics.changelog.md has not been changed and needs to be updated
BroadInternalRNAWithUMIs.changelog.md has not been changed and needs to be updated
BroadInternalImputation.changelog.md has not been changed and needs to be updated
BroadInternalArrays.changelog.md has not been changed and needs to be updated
ExternalWholeGenomeReprocessing.changelog.md has not been changed and needs to be updated
ExternalExomeReprocessing.changelog.md has not been changed and needs to be updated
WholeGenomeReprocessing.changelog.md has not been changed and needs to be updated
ExomeReprocessing.changelog.md has not been changed and needs to be updated
CheckFingerprint.changelog.md has not been changed and needs to be updated
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeagle.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeaglePreChunk.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/CreateImputationRefPanelBeagle.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/LiftoverVcfs.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
Imputation.changelog.md has not been changed and needs to be updated
Arrays.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failedComparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
SlideSeq.wdl has not been changed and needs updating
snm3C.wdl has not been changed and needs updating
PairedTag.wdl has not been changed and needs updating
Optimus.wdl has not been changed and needs updating
Multiome.wdl has not been changed and needs updating
atac.wdl has not been changed and needs updating
WholeGenomeGermlineSingleSample.wdl has not been changed and needs updating
UltimaGenomicsWholeGenomeGermline.wdl has not been changed and needs updating
ExomeGermlineSingleSample.wdl has not been changed and needs updating
VariantCalling.wdl has not been changed and needs updating
ReblockGVCF.wdl has not been changed and needs updating
UltimaGenomicsWholeGenomeCramOnly.wdl has not been changed and needs updating
BroadInternalUltimaGenomics.wdl has not been changed and needs updating
BroadInternalRNAWithUMIs.wdl has not been changed and needs updating
BroadInternalImputation.wdl has not been changed and needs updating
BroadInternalArrays.wdl has not been changed and needs updating
ExternalWholeGenomeReprocessing.wdl has not been changed and needs updating
ExternalExomeReprocessing.wdl has not been changed and needs updating
WholeGenomeReprocessing.wdl has not been changed and needs updating
ExomeReprocessing.wdl has not been changed and needs updating
CheckFingerprint.wdl has not been changed and needs updating
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeagle.changelog.md: No such file or directory
ImputationBeagle.wdl and ImputationBeagle.changelog.md do not have matching versions
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeaglePreChunk.changelog.md: No such file or directory
ImputationBeaglePreChunk.wdl and ImputationBeaglePreChunk.changelog.md do not have matching versions
CreateImputationRefPanelBeagle.wdl has not had its version updated
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/CreateImputationRefPanelBeagle.changelog.md: No such file or directory
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/LiftoverVcfs.changelog.md: No such file or directory
LiftoverVcfs.wdl and LiftoverVcfs.changelog.md do not have matching versions
Imputation.wdl has not had its version updated
Arrays.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failedRemember to squash merge!
github-actions[bot]
commented
4 weeks ago Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
Multiome.changelog.md has not been changed and needs to be updated
PairedTag.changelog.md has not been changed and needs to be updated
snm3C.changelog.md has not been changed and needs to be updated
Optimus.changelog.md has not been changed and needs to be updated
SlideSeq.changelog.md has not been changed and needs to be updated
atac.changelog.md has not been changed and needs to be updated
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
UltimaGenomicsWholeGenomeCramOnly.changelog.md has not been changed and needs to be updated
VariantCalling.changelog.md has not been changed and needs to be updated
ReblockGVCF.changelog.md has not been changed and needs to be updated
WholeGenomeGermlineSingleSample.changelog.md has not been changed and needs to be updated
ExomeGermlineSingleSample.changelog.md has not been changed and needs to be updated
UltimaGenomicsWholeGenomeGermline.changelog.md has not been changed and needs to be updated
ExternalWholeGenomeReprocessing.changelog.md has not been changed and needs to be updated
ExternalExomeReprocessing.changelog.md has not been changed and needs to be updated
WholeGenomeReprocessing.changelog.md has not been changed and needs to be updated
ExomeReprocessing.changelog.md has not been changed and needs to be updated
BroadInternalRNAWithUMIs.changelog.md has not been changed and needs to be updated
BroadInternalUltimaGenomics.changelog.md has not been changed and needs to be updated
BroadInternalImputation.changelog.md has not been changed and needs to be updated
BroadInternalArrays.changelog.md has not been changed and needs to be updated
CheckFingerprint.changelog.md has not been changed and needs to be updated
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/CreateImputationRefPanelBeagle.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/LiftoverVcfs.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeagle.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
fatal: ambiguous argument '/home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeaglePreChunk.changelog.md': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
Imputation.changelog.md has not been changed and needs to be updated
Arrays.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failedComparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
Multiome.wdl has not been changed and needs updating
PairedTag.wdl has not been changed and needs updating
snm3C.wdl has not been changed and needs updating
Optimus.wdl has not been changed and needs updating
SlideSeq.wdl has not been changed and needs updating
atac.wdl has not been changed and needs updating
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
UltimaGenomicsWholeGenomeCramOnly.wdl has not been changed and needs updating
VariantCalling.wdl has not been changed and needs updating
ReblockGVCF.wdl has not been changed and needs updating
WholeGenomeGermlineSingleSample.wdl has not been changed and needs updating
ExomeGermlineSingleSample.wdl has not been changed and needs updating
UltimaGenomicsWholeGenomeGermline.wdl has not been changed and needs updating
ExternalWholeGenomeReprocessing.wdl has not been changed and needs updating
ExternalExomeReprocessing.wdl has not been changed and needs updating
WholeGenomeReprocessing.wdl has not been changed and needs updating
ExomeReprocessing.wdl has not been changed and needs updating
BroadInternalRNAWithUMIs.wdl has not been changed and needs updating
BroadInternalUltimaGenomics.wdl has not been changed and needs updating
BroadInternalImputation.wdl has not been changed and needs updating
BroadInternalArrays.wdl has not been changed and needs updating
CheckFingerprint.wdl has not been changed and needs updating
CreateImputationRefPanelBeagle.wdl has not had its version updated
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/CreateImputationRefPanelBeagle.changelog.md: No such file or directory
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/LiftoverVcfs.changelog.md: No such file or directory
LiftoverVcfs.wdl and LiftoverVcfs.changelog.md do not have matching versions
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeagle.changelog.md: No such file or directory
ImputationBeagle.wdl and ImputationBeagle.changelog.md do not have matching versions
grep: /home/runner/work/warp/warp/pipelines/broad/arrays/imputation_beagle/ImputationBeaglePreChunk.changelog.md: No such file or directory
ImputationBeaglePreChunk.wdl and ImputationBeaglePreChunk.changelog.md do not have matching versions
Imputation.wdl has not had its version updated
Arrays.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failed
Description
Give your PR a concise yet descriptive title. Please explain the changes you made here. Explain the motivation for making this change. What existing problem does the pull request solve? Mention any issues fixed, addressed, or otherwise related to this pull request, including issue numbers or hard links for issues in other repos. You can delete these instructions once you have written your PR description.
Checklist
If you can answer "yes" to the following items, please add a checkmark next to the appropriate checklist item(s) and notify our WARP documentation team by tagging either @ekiernan or @kayleemathews in a comment on this PR.