Np add whitelist metadata to multiome by nikellepetrillo · Pull Request #1781 · broadinstitute/warp

nikellepetrillo · 2026-02-24T14:39:19Z

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 team by tagging @broadinstitute/warp-admins in a comment on this PR.

Did you add inputs, outputs, or tasks to a workflow?
Did you modify, delete or move: file paths, file names, input names, output names, or task names?
If you made a changelog update, did you update the pipeline version number?

github-actions · 2026-02-24T14:39:31Z

Remember to squash merge!

github-actions · 2026-02-24T14:39:44Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
PairedTag.wdl has not been changed and needs updating
SlideTags.wdl has not been changed and needs updating
Optimus.wdl has not been changed and needs updating
Multiome.wdl has not had its version updated
SlideSeq.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T14:39:45Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
PairedTag.changelog.md has not been changed and needs to be updated
SlideTags.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
SlideSeq.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T16:00:25Z

Remember to squash merge!

github-actions · 2026-02-24T16:00:37Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
PairedTag.changelog.md has not been changed and needs to be updated
SlideTags.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
SlideSeq.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T16:00:37Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
PairedTag.wdl has not been changed and needs updating
SlideTags.wdl has not been changed and needs updating
Optimus.wdl has not had its version updated
Multiome.wdl has not had its version updated
SlideSeq.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T18:04:07Z

Remember to squash merge!

github-actions · 2026-02-24T18:04:18Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
PairedTag.changelog.md has not been changed and needs to be updated
SlideTags.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
SlideSeq.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T18:04:20Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
PairedTag.wdl has not been changed and needs updating
SlideTags.wdl has not been changed and needs updating
Optimus.wdl has not had its version updated
Multiome.wdl has not had its version updated
SlideSeq.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T18:48:40Z

Remember to squash merge!

github-actions · 2026-02-24T18:48:51Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
PairedTag.wdl has not been changed and needs updating
SlideTags.wdl has not been changed and needs updating
Optimus.wdl has not had its version updated
Multiome.wdl has not had its version updated
SlideSeq.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T18:48:52Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
PairedTag.changelog.md has not been changed and needs to be updated
SlideTags.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
SlideSeq.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T18:50:18Z

Remember to squash merge!

github-actions · 2026-02-24T18:50:29Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
PairedTag.changelog.md has not been changed and needs to be updated
SlideTags.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
SlideSeq.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T18:50:30Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
PairedTag.wdl has not been changed and needs updating
SlideTags.wdl has not been changed and needs updating
Optimus.wdl has not had its version updated
Multiome.wdl has not had its version updated
SlideSeq.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T19:03:38Z

Remember to squash merge!

github-actions · 2026-02-24T22:59:30Z

Remember to squash merge!

github-actions · 2026-02-24T22:59:41Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
MultiSampleSmartSeq2SingleNucleus.changelog.md has not been changed and needs to be updated
Some changelog files need updating. See output for details.
validation_failed

github-actions · 2026-02-24T22:59:41Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
MultiSampleSmartSeq2SingleNucleus.wdl has not been changed and needs updating
Some WDLs or changelog files need updating. See output for details.
validation_failed

…tiome' into np_add_whitelist_metadata_to_multiome

github-actions · 2026-02-24T23:02:13Z

Remember to squash merge!

github-actions · 2026-02-24T23:02:24Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

github-actions · 2026-02-24T23:02:25Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

…tiome' into np_add_whitelist_metadata_to_multiome

github-actions · 2026-02-24T23:04:46Z

Remember to squash merge!

github-actions · 2026-02-24T23:04:55Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

github-actions · 2026-02-24T23:04:57Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

github-actions · 2026-02-25T15:58:25Z

Remember to squash merge!

github-actions · 2026-02-25T15:58:35Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

github-actions · 2026-02-25T15:58:42Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

nikellepetrillo · 2026-02-26T14:59:27Z

Optimus is failing due to nondeterminism i empty drop and slidetags is failing due to nondeterminism in the spatial output h5 files

github-actions · 2026-02-26T15:20:24Z

Remember to squash merge!

github-actions · 2026-02-26T15:20:35Z

🔍Changelog Validation Results:

Comparing changelogs for pipelines that differ from the versions on 'origin/develop':
All changelog files are valid for this release.

github-actions · 2026-02-26T15:20:38Z

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
All WDLs and changelog files appear to be valid for this release.

nikellepetrillo added 9 commits January 27, 2026 11:44

dummy commit

988c8bf

Merge remote-tracking branch 'origin/develop' into develop

c44ab80

Merge remote-tracking branch 'origin/develop' into develop

a4515e0

Merge remote-tracking branch 'origin/develop' into develop

8f16317

Merge remote-tracking branch 'origin/develop' into develop

1e87df3

add whitelist metadata to h5ad and as txt files

2398610

python indentation

d2b40f5

need strings not files

083d5a3

need strings not files

9468722

add whitelist file to optimus h5ad metadata

966b4f1

syntax

a21ea36

syntax

983803b

syntax

b98cd7a

syntax

6d7ac14

changelogs

04ca44c

Updated pipeline_versions.txt with all pipeline version information

8a1dcaa

nikellepetrillo added 2 commits February 24, 2026 18:01

changelogs

0416229

Merge remote-tracking branch 'origin/np_add_whitelist_metadata_to_mul…

20e7ef0

…tiome' into np_add_whitelist_metadata_to_multiome

Updated pipeline_versions.txt with all pipeline version information

86a1cf5

nikellepetrillo added 3 commits February 24, 2026 18:04

changelogs

0e83ee3

Merge remote-tracking branch 'origin/np_add_whitelist_metadata_to_mul…

72decc9

…tiome' into np_add_whitelist_metadata_to_multiome

changelogs

408d6f5

doc changes

acaf365

rsc3 approved these changes Feb 25, 2026

View reviewed changes

khajoue2 approved these changes Feb 26, 2026

View reviewed changes

Merge branch 'develop' into np_add_whitelist_metadata_to_multiome

1aeb3ca

nikellepetrillo merged commit 0436504 into develop Feb 26, 2026
15 of 17 checks passed

nikellepetrillo deleted the np_add_whitelist_metadata_to_multiome branch February 26, 2026 15:28

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nikellepetrillo commented Feb 24, 2026

Description

Checklist

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🔍Version Validation Results:

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🔍Changelog Validation Results:

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🔍Version Validation Results:

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🔍Changelog Validation Results:

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🔍Version Validation Results:

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🔍Changelog Validation Results:

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🔍Changelog Validation Results:

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🔍Version Validation Results:

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🔍Changelog Validation Results:

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🔍Version Validation Results:

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🔍Changelog Validation Results:

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🔍Version Validation Results:

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github-actions bot commented Feb 24, 2026

🔍Changelog Validation Results:

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🔍Version Validation Results:

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github-actions bot commented Feb 25, 2026

🔍Version Validation Results:

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github-actions bot commented Feb 25, 2026

🔍Changelog Validation Results:

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nikellepetrillo commented Feb 26, 2026