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Add WDL Workflow: Generate summary reports for malaria samples (#493) CI/CD #213: Commit 7a51af5 pushed by bridgetknight
February 19, 2025 14:16 8m 46s main
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February 19, 2025 14:16 8m 46s
Added minimum for miniwdl version to use (#492) CI/CD #212: Commit d4533d1 pushed by bshifaw
February 18, 2025 16:51 9m 1s main
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February 18, 2025 16:51 9m 1s
Updated pip cache step to version 4 (#491) CI/CD #211: Commit 90995b4 pushed by bshifaw
February 11, 2025 15:55 9m 48s main
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February 11, 2025 15:55 9m 48s
Added DeepTrio Workflow (#490) CI/CD #210: Commit 1a3a3b7 pushed by jonn-smith
February 10, 2025 21:41 9m 10s main
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February 10, 2025 21:41 9m 10s
set a single python version in git_pages (#489) CI/CD #209: Commit 27b638f pushed by bshifaw
February 4, 2025 19:12 8m 56s main
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February 4, 2025 19:12 8m 56s
Added system deps in nightly test (#488) CI/CD #208: Commit 6612b2a pushed by bshifaw
February 3, 2025 19:12 8m 54s main
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February 3, 2025 19:12 8m 54s
Made MarkDuplicates optional to enable Amplicon data processing. (#… CI/CD #207: Commit 4ed8ff1 pushed by jonn-smith
January 27, 2025 22:03 9m 2s main
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January 27, 2025 22:03 9m 2s
Updated python version in git actions from 3.7 to 3.13 (#487) CI/CD #206: Commit 2cf788b pushed by jonn-smith
January 27, 2025 21:42 15m 50s main
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January 27, 2025 21:42 15m 50s
Fixed typo in zarr output file. (#484) CI/CD #205: Commit d07b22c pushed by jonn-smith
December 20, 2024 17:13 9m 12s main
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December 20, 2024 17:13 9m 12s
Made zarr conversion optional in SRJointCallGVCFsWithGenomicsDB.wdl (… CI/CD #204: Commit 0ab9499 pushed by jonn-smith
December 18, 2024 16:16 8m 59s main
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December 18, 2024 16:16 8m 59s
Added snpeff_db_identifier for Functional annotation. (#482) CI/CD #203: Commit b169a39 pushed by jonn-smith
December 13, 2024 14:37 8m 53s main
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December 13, 2024 14:37 8m 53s
Reserved more non-heap memory for the JVM when calling HaplotypeCalle… CI/CD #202: Commit 23ee743 pushed by jonn-smith
December 12, 2024 14:45 8m 29s main
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December 12, 2024 14:45 8m 29s
SRJointCallGVCFsWithGenomicsDB.wdl now prefers dbsnp_vcf to `know… CI/CD #201: Commit 5c20523 pushed by jonn-smith
December 12, 2024 04:56 8m 42s main
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December 12, 2024 04:56 8m 42s
Updated SRUtils.BamToFq and SRBamToFq with cram support and bette… CI/CD #200: Commit b7104df pushed by jonn-smith
December 11, 2024 04:06 8m 33s main
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December 11, 2024 04:06 8m 33s
Fixed unbound variable error in some cases of QC failure. (#478) CI/CD #199: Commit e46a4e2 pushed by jonn-smith
December 6, 2024 20:14 9m 25s main
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December 6, 2024 20:14 9m 25s
Fixed bug when workflow had no inputs/outputs. (#477) CI/CD #198: Commit 138e8c0 pushed by jonn-smith
December 6, 2024 20:01 8m 38s main
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December 6, 2024 20:01 8m 38s
Increased minimum boot disk size to 25Gb for all tasks. (#476) CI/CD #197: Commit 60a7e5e pushed by jonn-smith
November 20, 2024 16:02 8m 57s main
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November 20, 2024 16:02 8m 57s
Added more QC metrics and a pass / fail assessment to SRFlowcell (#… CI/CD #196: Commit c209e97 pushed by jonn-smith
November 8, 2024 14:14 8m 49s main
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November 8, 2024 14:14 8m 49s
Added support for giving background samples to joint calling workflow… CI/CD #195: Commit cf08477 pushed by jonn-smith
November 7, 2024 01:35 8m 46s main
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November 7, 2024 01:35 8m 46s
Updates for Malaria pipelines: human read decontamination and WDLs fo… CI/CD #194: Commit 7c8b7ae pushed by jonn-smith
October 25, 2024 15:56 8m 34s main
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October 25, 2024 15:56 8m 34s
Updated interval extraction for short read joint calling for sharding… CI/CD #193: Commit ffe906e pushed by jonn-smith
September 18, 2024 12:12 8m 28s main
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September 18, 2024 12:12 8m 28s
Fixed JVM memory spec for VariantUtils::AnnotateVcfWithBedRegions (… CI/CD #192: Commit 0fb95b9 pushed by jonn-smith
September 13, 2024 20:25 8m 14s main
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September 13, 2024 20:25 8m 14s
Updated drug resistance marker code to account for het genotypes. (… CI/CD #191: Commit 52868a8 pushed by jonn-smith
August 26, 2024 18:30 8m 28s main
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August 26, 2024 18:30 8m 28s
Updates to ONT workflows to bring them closer to current conventions … CI/CD #190: Commit 821e81b pushed by jonn-smith
August 16, 2024 18:56 8m 36s main
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August 16, 2024 18:56 8m 36s
Hotfix for BackupWorkspace.wdl and minor change to the hrp2/`hrp3… CI/CD #189: Commit aab3d7a pushed by jonn-smith
August 9, 2024 14:29 8m 23s main
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August 9, 2024 14:29 8m 23s