Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/ec4ba56b48872807002862b7a51281/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/regression_padded_intervals/scatter/chr21_5117003-5117331.bed.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/HCC1395_BL/HCC1395_BL.recalibrated.bam
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_BL/HCC1395_BL.recalibrated.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d3/e3ed9d55ac1f3dfe6a268d860125cc/HCC1395_tumor_vs_HCC1395_BL.manta.candidate_small_indels.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d3/e3ed9d55ac1f3dfe6a268d860125cc/HCC1395_tumor_vs_HCC1395_BL.manta.candidate_small_indels.vcf.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/regression_padded_intervals/scatter/chr21_5117003-5117331.bed.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/ec4ba56b48872807002862b7a51281/.command.run
==> STAGING COMPLETE (12 inputs)

[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXFSY8LC/chr21_5117003-5117331.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXFSY8LC/chr21_5117003-5117331.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.XXXXFSY8LC/chr21_5117003-5117331.bed.gz.tbi
[2026-06-08T20:44:39.840800Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Initiating pyFlow run
[2026-06-08T20:44:39.842358Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] pyFlowClientWorkflowClass: StrelkaSomaticWorkflow
[2026-06-08T20:44:39.842384Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-06-08T20:44:39.842390Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-06-08T20:44:39.842395Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXFSY8LC'
[2026-06-08T20:44:39.842399Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/strelka/runWorkflow.py -m local -j 8'
[2026-06-08T20:44:39.842404Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] mode: local
[2026-06-08T20:44:39.842408Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] nCores: 8
[2026-06-08T20:44:39.842411Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] memMb: 3096076
[2026-06-08T20:44:39.842415Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/strelka/workspace/pyflow.data
[2026-06-08T20:44:39.842419Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-06-08T20:44:39.842423Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-06-08T20:44:39.842426Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-06-08T20:44:39.842430Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-06-08T20:44:39.843328Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-06-08T20:44:39.843391Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [StrelkaSomaticWorkflow] Initiating Strelka somatic workflow version: 2.9.10
[2026-06-08T20:44:39.849511Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding sub-workflow task 'CallGenome' to master workflow
[2026-06-08T20:44:39.850224Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching sub-workflow task: 'CallGenome' from master workflow
[2026-06-08T20:44:39.850826Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-06-08T20:44:39.851373Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome] Starting task specification for sub-workflow
[2026-06-08T20:44:39.851927Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+makeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.853218Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.853689Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.853783Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.854055Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.854205Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+makeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:44:39.854607Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.855288Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.855582Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.859457Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+makeTmpDir] Task initiated on local node
[2026-06-08T20:44:39.869448Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.869616Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.869687Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+completedAllGenomeSegments' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.869784Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.869857Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.869927Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.869993Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.870071Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+mergeRunStats' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.870144Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Adding command task 'CallGenome+removeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:44:39.870188Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome] Finished task specification for sub-workflow
[2026-06-08T20:44:39.890116Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+makeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:39.890471Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:44:39.891036Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:44:39.891882Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:44:39.892888Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:44:39.897689Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:44:39.898838Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:44:39.901896Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:44:39.903117Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:44:40.008775Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:40.009142Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:44:40.012175Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:44:40.073558Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:41.740475Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:41.740864Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:44:41.744189Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+fixVcfHeader_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:44:41.805513Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:41.805862Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:44:41.808596Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:44:41.870135Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:42.284800Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:42.285190Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:44:42.288021Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:44:42.349669Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.719621Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.720063Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.724195Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:44:54.785071Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.785267Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+completedAllGenomeSegments' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.785429Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+Indel_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.787376Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+mergeRunStats' from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.788196Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+SNV_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.788754Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+Indel_concat_vcf] Task initiated on local node
[2026-06-08T20:44:54.791877Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+mergeRunStats] Task initiated on local node
[2026-06-08T20:44:54.793089Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+SNV_concat_vcf] Task initiated on local node
[2026-06-08T20:44:54.822352Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+Indel_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.822470Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+SNV_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.822500Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+mergeRunStats' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.822684Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+Indel_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.823247Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+SNV_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.826009Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+Indel_index_vcf] Task initiated on local node
[2026-06-08T20:44:54.827015Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+SNV_index_vcf] Task initiated on local node
[2026-06-08T20:44:54.856083Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+Indel_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.856151Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+SNV_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.856331Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Launching command task: 'CallGenome+removeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:44:54.858786Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskRunner:CallGenome+removeTmpDir] Task initiated on local node
[2026-06-08T20:44:54.888233Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed command task: 'CallGenome+removeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:44:58.760049Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [TaskManager] Completed sub-workflow task: 'CallGenome' launched from master workflow
[2026-06-08T20:45:12.962040Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Strelka somatic workflow successfully completed.
[2026-06-08T20:45:12.962040Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] 
[2026-06-08T20:45:12.962040Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] 	workflow version: 2.9.10
[2026-06-08T20:45:12.962111Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] 
[2026-06-08T20:45:12.962119Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-06-08T20:45:12.962127Z] [nf-5fec4ba56b48872807002862b7a51281-758f8-qm4kt] [682_1] [WorkflowRunner] Elapsed time for full workflow: 33 sec