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/3a/d7611827828fb52411f48aaeb6dfc5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/ee4d3a39bcd500edd30445bd19a183/custom_Sig_18_tumor_normal.manta.candidate_small_indels.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/22/ee4d3a39bcd500edd30445bd19a183/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/3a/d7611827828fb52411f48aaeb6dfc5/.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.XXXXAqEzZ0/chr21_34799195-34799564.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXAqEzZ0/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.XXXXAqEzZ0/chr21_34799195-34799564.bed.gz.tbi
[2026-06-09T03:05:50.653404Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Initiating pyFlow run
[2026-06-09T03:05:50.654428Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] pyFlowClientWorkflowClass: StrelkaSomaticWorkflow
[2026-06-09T03:05:50.654454Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-06-09T03:05:50.654460Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-06-09T03:05:50.654464Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXAqEzZ0'
[2026-06-09T03:05:50.654468Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/strelka/runWorkflow.py -m local -j 8'
[2026-06-09T03:05:50.654473Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] mode: local
[2026-06-09T03:05:50.654477Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] nCores: 8
[2026-06-09T03:05:50.654480Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] memMb: 3096076
[2026-06-09T03:05:50.654484Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/strelka/workspace/pyflow.data
[2026-06-09T03:05:50.654488Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-06-09T03:05:50.654491Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-06-09T03:05:50.654495Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-06-09T03:05:50.654498Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-06-09T03:05:50.655148Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-06-09T03:05:50.655219Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [StrelkaSomaticWorkflow] Initiating Strelka somatic workflow version: 2.9.10
[2026-06-09T03:05:50.661144Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding sub-workflow task 'CallGenome' to master workflow
[2026-06-09T03:05:50.661910Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-06-09T03:05:50.662173Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching sub-workflow task: 'CallGenome' from master workflow
[2026-06-09T03:05:50.662420Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome] Starting task specification for sub-workflow
[2026-06-09T03:05:50.662664Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+makeTmpDir' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.663550Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.663778Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.663970Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.664334Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.664407Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.664526Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.664795Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.664974Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+makeTmpDir' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.674090Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+makeTmpDir] Task initiated on local node
[2026-06-09T03:05:50.679593Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.679746Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.679821Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+completedAllGenomeSegments' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.679914Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.679988Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_index_vcf' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.680062Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.680132Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_index_vcf' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.680213Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+mergeRunStats' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.680286Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Adding command task 'CallGenome+removeTmpDir' to sub-workflow 'CallGenome'
[2026-06-09T03:05:50.680333Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome] Finished task specification for sub-workflow
[2026-06-09T03:05:50.715033Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+makeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.715308Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.716104Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.717972Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.718353Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0002] Task initiated on local node
[2026-06-09T03:05:50.719759Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.720730Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0000] Task initiated on local node
[2026-06-09T03:05:50.723913Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0001] Task initiated on local node
[2026-06-09T03:05:50.724389Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0003] Task initiated on local node
[2026-06-09T03:05:50.834787Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.834863Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.835140Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.836624Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.838256Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0001] Task initiated on local node
[2026-06-09T03:05:50.839107Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+fixVcfHeader_chromId_020_chr21_0000] Task initiated on local node
[2026-06-09T03:05:50.868867Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.884462Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.884733Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-09T03:05:50.887755Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0000] Task initiated on local node
[2026-06-09T03:05:50.949386Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-09T03:05:54.020055Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-09T03:05:54.020611Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-09T03:05:54.023790Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0002] Task initiated on local node
[2026-06-09T03:05:54.085226Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.859179Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.859640Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.862492Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0003] Task initiated on local node
[2026-06-09T03:08:09.923970Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.924111Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+completedAllGenomeSegments' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.924219Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+mergeRunStats' from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.925724Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+Indel_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.926326Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+SNV_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.926856Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+mergeRunStats] Task initiated on local node
[2026-06-09T03:08:09.929559Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+SNV_concat_vcf] Task initiated on local node
[2026-06-09T03:08:09.931194Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+Indel_concat_vcf] Task initiated on local node
[2026-06-09T03:08:09.960529Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+mergeRunStats' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.960587Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+SNV_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.960612Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+Indel_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.960798Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+SNV_index_vcf' from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.961401Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+Indel_index_vcf' from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.964771Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+SNV_index_vcf] Task initiated on local node
[2026-06-09T03:08:09.966112Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+Indel_index_vcf] Task initiated on local node
[2026-06-09T03:08:09.995446Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+Indel_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.995520Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+SNV_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.995720Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Launching command task: 'CallGenome+removeTmpDir' from sub-workflow 'CallGenome'
[2026-06-09T03:08:09.998020Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskRunner:CallGenome+removeTmpDir] Task initiated on local node
[2026-06-09T03:08:10.027978Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed command task: 'CallGenome+removeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-09T03:08:23.901646Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [TaskManager] Completed sub-workflow task: 'CallGenome' launched from master workflow
[2026-06-09T03:08:38.925833Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Strelka somatic workflow successfully completed.
[2026-06-09T03:08:38.925833Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] 
[2026-06-09T03:08:38.925833Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] 	workflow version: 2.9.10
[2026-06-09T03:08:38.925939Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] 
[2026-06-09T03:08:38.925949Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-06-09T03:08:38.925958Z] [nf-3ad7611827828fb52411f48aaeb6dfc5-37ae1-6mc7l] [693_1] [WorkflowRunner] Elapsed time for full workflow: 168 sec