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Fix code path in EvidenceQc when run_ploidy is false #854

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Merged
merged 3 commits into from
Sep 2, 2025
Merged

Fix code path in EvidenceQc when run_ploidy is false #854

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46e4b99
Fix code path in EvidenceQc when run_ploidy is false
mwalker174 Aug 13, 2025
be7ea94
Update yaml
mwalker174 Aug 13, 2025
37835a2
Revert yaml
mwalker174 Aug 14, 2025
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1 change: 1 addition & 0 deletions .github/.dockstore.yml
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Expand Up @@ -15,6 +15,7 @@ workflows:
filters:
branches:
- main
- mw_run_ploidy
tags:
- /.*/

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5 changes: 4 additions & 1 deletion wdl/EvidenceQC.wdl
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Expand Up @@ -63,6 +63,9 @@ workflow EvidenceQC {

RuntimeAttr? runtime_attr_mediancov # Memory ignored, use median_cov_mem_gb_per_sample
Float? median_cov_mem_gb_per_sample

# Do not use
File? NONE_FILE_
}

call mbm.MakeBincovMatrix as MakeBincovMatrix {
Expand Down Expand Up @@ -243,7 +246,7 @@ workflow EvidenceQC {
File? scramble_variant_counts = RawVcfQC_Scramble.variant_counts

File? ploidy_matrix = Ploidy.ploidy_matrix
File? ploidy_plots = select_first([CreateVariantCountPlots.ploidy_plots, Ploidy.ploidy_plots])
File? ploidy_plots = if run_ploidy then select_first([CreateVariantCountPlots.ploidy_plots, Ploidy.ploidy_plots]) else NONE_FILE_

File WGD_dist = WGD.WGD_dist
File WGD_matrix = WGD.WGD_matrix
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