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21 Open 49 Closed
21 Open 49 Closed
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Issues list

Need to add id and label fields to all CWL's and tools revisit this later non-critical, non-breaking change to consider
#114 opened Aug 25, 2022 by stevekm
Fix Jenkins recipe revisit this later non-critical, non-breaking change to consider
#113 opened Aug 2, 2022 by stevekm
fix Pluto serializer script for pairs revisit this later non-critical, non-breaking change to consider
#112 opened Aug 2, 2022 by stevekm
add CMO PORTAL MUTS to data clinical sample revisit this later non-critical, non-breaking change to consider
#110 opened Aug 2, 2022 by stevekm
add CMO ASSAY COVERAGE to data clinical sample revisit this later non-critical, non-breaking change to consider
#109 opened Aug 2, 2022 by stevekm
add CMO ASSAY label to data clinical sample revisit this later non-critical, non-breaking change to consider
#108 opened Aug 2, 2022 by stevekm
High temp storage usage with samples_fillout_index_batch_workflow.cwl bug Something isn't working high priority revisit this later non-critical, non-breaking change to consider
#106 opened Jul 12, 2022 by stevekm
1
consolidate Python fixtures enhancement New feature or request low priority revisit this later non-critical, non-breaking change to consider
#94 opened Jan 25, 2022 by stevekm
3
need to update samples fillout workflow output enhancement New feature or request high priority revisit this later non-critical, non-breaking change to consider
#84 opened Jan 4, 2022 by stevekm
2 of 3 tasks
4
incorporate dos2unix into samples fillout workflow (resurrection workflow) bug Something isn't working low priority revisit this later non-critical, non-breaking change to consider
#70 opened Sep 8, 2021 by stevekm
1
update workflow.cwl to include more recent pipeline outputs and refactors enhancement New feature or request revisit this later non-critical, non-breaking change to consider
#69 opened Aug 11, 2021 by stevekm
portal/data_clinical_sample.txt file is missing pipeline version bug Something isn't working revisit this later non-critical, non-breaking change to consider
#66 opened Jul 27, 2021 by timosong
3
Make data_mutations_uncalled and meta_mutations_uncalled files for cBioPortal enhancement New feature or request high priority revisit this later non-critical, non-breaking change to consider
#63 opened Jun 22, 2021 by stevekm
2
add OncoKB annotation to maf output enhancement New feature or request high priority revisit this later non-critical, non-breaking change to consider
#60 opened May 28, 2021 by stevekm
pipeline tools documentation for PI's low priority revisit this later non-critical, non-breaking change to consider
#53 opened Mar 31, 2021 by stevekm
1
add sample concordance / discordance comparisons low priority revisit this later non-critical, non-breaking change to consider
#52 opened Mar 31, 2021 by stevekm
Add sample vs. cohort plots to reporting enhancement New feature or request low priority revisit this later non-critical, non-breaking change to consider
#47 opened Mar 16, 2021 by stevekm
use .bed file for IGV report sites low priority revisit this later non-critical, non-breaking change to consider
#45 opened Mar 15, 2021 by stevekm
1
get IGV Reports into the workflow low priority revisit this later non-critical, non-breaking change to consider
#43 opened Mar 11, 2021 by stevekm
get variant overlap metrics into the pipeline enhancement New feature or request revisit this later non-critical, non-breaking change to consider
#41 opened Mar 4, 2021 by stevekm
2
Add concordance workflow & reporting enhancement New feature or request high priority revisit this later non-critical, non-breaking change to consider
#32 opened Jan 14, 2021 by stevekm
1
ProTip! Adding no:label will show everything without a label.