Skip to content

Issues: populationgenomics/production-pipelines

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

49 Open 96 Closed
49 Open 96 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Hard-Cap in Job Attribute value sizes
#914 opened Sep 25, 2024 by MattWellie
Add WHAM manual filter
#913 opened Sep 24, 2024 by MattWellie
@MattWellie
Refactor create_dataset
#904 opened Sep 13, 2024 by vivbak
Optional flag to check overlapping cohorts enhancement New feature or request
#902 opened Sep 13, 2024 by vivbak
When is a DataProc not a DataProc?
#869 opened Aug 1, 2024 by MattWellie
@katiedelange @cassimons
@illusional @EddieLF @vivbak @michael-harper
Move to src/ layout? core Changes to the cpg-workflows api enhancement New feature or request shared The change impacts both the LC and RD pipeline.
#813 opened Jul 4, 2024 by MattWellie
Handle Dataproc Jobs better core Changes to the cpg-workflows api shared The change impacts both the LC and RD pipeline.
#793 opened Jun 19, 2024 by MattWellie
Improve Somalier Pedigree checking and Slack notifications invalid This doesn't seem right rare disease Change is exclusively within the scope of the rare disease pipeline
#792 opened Jun 18, 2024 by EddieLF
Target methods should be reviewed core Changes to the cpg-workflows api
#782 opened Jun 5, 2024 by vivbak
@vivbak
add_dataset is redundant in the Cohort Object core Changes to the cpg-workflows api
#781 opened Jun 5, 2024 by vivbak
@vivbak
Exome gCNV callsets should be clustered by family rare disease Change is exclusively within the scope of the rare disease pipeline
#778 opened May 31, 2024 by MattWellie
@MattWellie
No datasets populated with Cohorts run core Changes to the cpg-workflows api
#776 opened May 29, 2024 by vivbak
@vivbak
Invalid Cohort IDs as inputs fails silently core Changes to the cpg-workflows api
#768 opened May 24, 2024 by vivbak
@vivbak
STRipy stage fixes and improvements bug Something isn't working enhancement New feature or request rare disease Change is exclusively within the scope of the rare disease pipeline
#757 opened May 21, 2024 by EddieLF
4 tasks
3
Improve robustness of Seqr Loader MergeVCFs job rare disease Change is exclusively within the scope of the rare disease pipeline
#739 opened May 9, 2024 by EddieLF
3 tasks
1
Exome calling lists include chrM rare disease Change is exclusively within the scope of the rare disease pipeline
#735 opened May 8, 2024 by MattWellie
@cassimons @EddieLF @vivbak
3
New stage for long-read sequencing data: BamToCram rare disease Change is exclusively within the scope of the rare disease pipeline
#732 opened May 7, 2024 by EddieLF
1
Exomiser - Single sample VCFs require temp-delete permission bug Something isn't working rare disease Change is exclusively within the scope of the rare disease pipeline
#714 opened Apr 30, 2024 by MattWellie
@MattWellie
Ancestry Plots relies on input_datasets, which will be deprecated large cohort Change is exclusively within the scope of the large cohort pipeline
#706 opened Apr 24, 2024 by vivbak
@michael-harper
1
Cpg-utils migration hiccup core Changes to the cpg-workflows api rare disease Change is exclusively within the scope of the rare disease pipeline
#695 opened Apr 18, 2024 by MattWellie
@MattWellie
5
Wrangle list-workflows CLI arguments core Changes to the cpg-workflows api
#688 opened Apr 12, 2024 by MattWellie
1
@vivbak
Remove/modify Query_command? core Changes to the cpg-workflows api
#647 opened Mar 14, 2024 by MattWellie
@jmarshall @vivbak @michael-harper
9
How do we notify GATK-SV stakeholders of quality failures core Changes to the cpg-workflows api rare disease Change is exclusively within the scope of the rare disease pipeline
#638 opened Mar 8, 2024 by MattWellie
@MattWellie @cassimons @EddieLF
1
GCP Housekeeping jobs? core Changes to the cpg-workflows api
#617 opened Feb 19, 2024 by MattWellie
2
Inputs.as_X methods are unintuitive core Changes to the cpg-workflows api
#611 opened Feb 6, 2024 by MattWellie
@MattWellie @vivbak @michael-harper
1
ProTip! Exclude everything labeled bug with -label:bug.