Made changes for SnapATAC2 v2.6.0

[ekiernan]

Description

• Updated the SnapATAC2 docker to include SnapATAC v2.6.0

• Updated Multiome, ATAC, and PairedTag to be compatible with changes in SnapATAC2 v2.6.0

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.

• [ ] 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[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[ekiernan]

retest this please

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

Validation Results:

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

[ekiernan]

Link to scientific tests here:https://gotc-jenkins.dsp-techops.broadinstitute.org/job/warp-workflow-tests/76718/consoleFull

The differences in the h5ad files are relatively minor and expected

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

🔍Changelog Validation Results:

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

[github-actions[bot]]

🔍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[bot]]

Remember to squash merge!

[github-actions[bot]]

🔍Changelog Validation Results:

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

[github-actions[bot]]

🔍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[bot]]

Remember to squash merge!

[github-actions[bot]]

🔍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[bot]]

🔍Version Validation Results:

Comparing versions and changelogs for pipelines that differ from the versions on 'origin/staging':
SlideSeq.wdl and SlideSeq.changelog.md do not have matching versions
Some WDLs or changelog files need updating. See output for details.
validation_failed

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

🔍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[bot]]

🔍Changelog Validation Results:

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

[ekiernan]

Fragment file differences in paired-tag data are the result of sorting - when we sort the files, the md5sums match. For example, the BI015 sample: 54b66cf8c81392595a15c9480612a33d sorted.test.tsv 54b66cf8c81392595a15c9480612a33d sorted.truth.tsv

[github-actions[bot]]

Remember to squash merge!

[github-actions[bot]]

🔍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[bot]]

🔍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[bot]]

Remember to squash merge!

[github-actions[bot]]

🔍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[bot]]

🔍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.

[ekiernan]

retest this please