Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/67c4fae7bc73cbfc8d56fc84b2bf51/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/edcc998f347eca1dd70ec8970f217a/custom_Sig_18_tumor_normal.manta.candidate_small_indels.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/edcc998f347eca1dd70ec8970f217a/custom_Sig_18_tumor_normal.manta.candidate_small_indels.vcf.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_tissue/Sig_18_tissue.recalibrated.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/regression_padded_intervals/scatter/chr21_34799195-34799564.bed.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_tissue/Sig_18_tissue.recalibrated.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/67c4fae7bc73cbfc8d56fc84b2bf51/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_Blood/Sig_18_Blood.recalibrated.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/regression_padded_intervals/scatter/chr21_34799195-34799564.bed.gz
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_Blood/Sig_18_Blood.recalibrated.bam
==> STAGING COMPLETE (12 inputs)

[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXtkvc5J/chr21_34799195-34799564.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXtkvc5J/chr21_34799195-34799564.bed.gz.tbi

Successfully created workflow run script.
To execute the workflow, run the following script and set appropriate options:

/var/tmp/strelka/runWorkflow.py
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXtkvc5J/chr21_34799195-34799564.bed.gz.tbi
[2026-06-08T20:35:11.985456Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Initiating pyFlow run
[2026-06-08T20:35:11.986513Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] pyFlowClientWorkflowClass: StrelkaSomaticWorkflow
[2026-06-08T20:35:11.986521Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-06-08T20:35:11.986525Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-06-08T20:35:11.986529Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXtkvc5J'
[2026-06-08T20:35:11.986533Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/strelka/runWorkflow.py -m local -j 8'
[2026-06-08T20:35:11.986538Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] mode: local
[2026-06-08T20:35:11.986541Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] nCores: 8
[2026-06-08T20:35:11.986544Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] memMb: 3096076
[2026-06-08T20:35:11.986548Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/strelka/workspace/pyflow.data
[2026-06-08T20:35:11.986552Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-06-08T20:35:11.986555Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-06-08T20:35:11.986558Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-06-08T20:35:11.986562Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-06-08T20:35:11.987202Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-06-08T20:35:11.987291Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [StrelkaSomaticWorkflow] Initiating Strelka somatic workflow version: 2.9.10
[2026-06-08T20:35:11.993000Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding sub-workflow task 'CallGenome' to master workflow
[2026-06-08T20:35:11.993763Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching sub-workflow task: 'CallGenome' from master workflow
[2026-06-08T20:35:11.994397Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-06-08T20:35:11.994691Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome] Starting task specification for sub-workflow
[2026-06-08T20:35:11.994861Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+makeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:35:11.996304Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+makeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:35:11.996838Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:11.997118Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:11.997329Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:11.997652Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:35:11.999696Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.000004Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.000093Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.000203Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+makeTmpDir] Task initiated on local node
[2026-06-08T20:35:12.011611Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.011761Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.011866Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+completedAllGenomeSegments' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.011990Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.012092Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.012192Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.012289Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.012395Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+mergeRunStats' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.012489Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Adding command task 'CallGenome+removeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.012555Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome] Finished task specification for sub-workflow
[2026-06-08T20:35:12.032488Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+makeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.032814Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.033540Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.034312Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.035753Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.037974Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:35:12.040154Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.043447Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:35:12.044374Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:35:12.152884Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.152986Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.153324Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.153998Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.158396Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+fixVcfHeader_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.159754Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:35:12.219530Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.219614Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.219908Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.223161Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.284377Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:15.204265Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:15.204622Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:35:15.207566Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:35:15.268867Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.549479Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.550500Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.553719Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:37:29.614908Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.615058Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+completedAllGenomeSegments' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.615179Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+Indel_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.615825Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+mergeRunStats' from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.616393Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+SNV_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.619644Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+Indel_concat_vcf] Task initiated on local node
[2026-06-08T20:37:29.620872Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+mergeRunStats] Task initiated on local node
[2026-06-08T20:37:29.645671Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+SNV_concat_vcf] Task initiated on local node
[2026-06-08T20:37:29.648702Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+Indel_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.648769Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+mergeRunStats' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.648791Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+SNV_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.648968Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+Indel_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.649290Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+SNV_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.651516Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+SNV_index_vcf] Task initiated on local node
[2026-06-08T20:37:29.652671Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+Indel_index_vcf] Task initiated on local node
[2026-06-08T20:37:29.681145Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+Indel_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.681208Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+SNV_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.681376Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Launching command task: 'CallGenome+removeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:37:29.683655Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskRunner:CallGenome+removeTmpDir] Task initiated on local node
[2026-06-08T20:37:29.713502Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed command task: 'CallGenome+removeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:37:30.228921Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [TaskManager] Completed sub-workflow task: 'CallGenome' launched from master workflow
[2026-06-08T20:37:45.206891Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Strelka somatic workflow successfully completed.
[2026-06-08T20:37:45.206891Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] 
[2026-06-08T20:37:45.206891Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] 	workflow version: 2.9.10
[2026-06-08T20:37:45.206947Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] 
[2026-06-08T20:37:45.206954Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-06-08T20:37:45.206961Z] [nf-2c67c4fae7bc73cbfc8d56fc84b2bf51-6bbd7-d9g4f] [672_1] [WorkflowRunner] Elapsed time for full workflow: 153 sec