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44 Open 128 Closed
44 Open 128 Closed
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Issues list

Combiner Bug bug Something isn't working rare disease Change is exclusively within the scope of the rare disease pipeline
#1126 opened Jan 31, 2025 by MattWellie
@MattWellie
Improve Analysis Registration
#1121 opened Jan 28, 2025 by MattWellie
@EddieLF @vivbak @michael-harper
1
Make Hail dry-run functionality more accessible enhancement New feature or request shared The change impacts both the LC and RD pipeline.
#1117 opened Jan 24, 2025 by MattWellie
1
Validate sequencing groups in cohort enhancement New feature or request shared The change impacts both the LC and RD pipeline.
#1103 opened Jan 14, 2025 by EddieLF
AR-GUID is not shared with QOB jobs rare disease Change is exclusively within the scope of the rare disease pipeline
#1075 opened Dec 17, 2024 by MattWellie
@MattWellie
Incorporate functionality to remove samples from VDS
#1065 opened Dec 13, 2024 by MattWellie
@MattWellie @cassimons @EddieLF
Remove second workflow instance inside Job large cohort Change is exclusively within the scope of the large cohort pipeline
#1017 opened Nov 26, 2024 by MattWellie
@katiedelange @Alexander-Stuckey @michael-harper
MtToEs - Failing to export to ElasticSearch with Connection error blocked issue can't currently progress bug Something isn't working help wanted Extra attention is needed rare disease Change is exclusively within the scope of the rare disease pipeline
#1005 opened Nov 22, 2024 by EddieLF
3 tasks
@EddieLF
Modernise all CramQC output paths and record them in Metamist enhancement New feature or request shared The change impacts both the LC and RD pipeline.
#987 opened Nov 14, 2024 by EddieLF
1
SomalierPedigree stage outputs overwrite old outputs enhancement New feature or request good first issue Good for newcomers shared The change impacts both the LC and RD pipeline.
#974 opened Nov 6, 2024 by EddieLF
Handle multiple analysis outputs in cpg_workflows core Changes to the cpg-workflows api enhancement New feature or request
#940 opened Oct 17, 2024 by EddieLF
3
Refactor create_dataset core Changes to the cpg-workflows api
#904 opened Sep 13, 2024 by vivbak
1
Optional flag to check overlapping cohorts core Changes to the cpg-workflows api enhancement New feature or request
#902 opened Sep 13, 2024 by vivbak
1
Improve Somalier Pedigree checking and Slack notifications bug Something isn't working rare disease Change is exclusively within the scope of the rare disease pipeline
#792 opened Jun 18, 2024 by EddieLF
1
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
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 full_perms_required rare disease Change is exclusively within the scope of the rare disease pipeline
#714 opened Apr 30, 2024 by MattWellie
@MattWellie
1
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
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
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