Downloading: s3://natera-platform-sandbox/pipeline-resources/mimsi/1500_dropped_panel_with_boosted_msi_regions.tsv
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/dna_daq/stored-normals/reference-NA12878-downsampled-500k.bam
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/74/e2e44297001cb0d4cfb3a0e225c81f/.command.sh
Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/altera_intervals/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/dna_daq/stored-normals/reference-NA12878-downsampled-500k.bam.bai
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/74/e2e44297001cb0d4cfb3a0e225c81f/.command.run
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5e/d477fe8b5b7c55927132efa2aa1068/Sig_18_Blood.recalibrated.bam.bai
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5e/d477fe8b5b7c55927132efa2aa1068/Sig_18_Blood.recalibrated.bam
==> STAGING COMPLETE (8 inputs)
msi -b 2 -d 1500_dropped_panel_with_boosted_msi_regions.tsv -e xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed -t Sig_18_Blood.recalibrated.bam -n reference-NA12878-downsampled-500k.bam -o negative_somatic_control_2_xgen Start at: Thu Jun 4 19:43:01 2026
loading bed regions ...
loading homopolymer and microsatellite sites ...
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*** Summary information ***
Number of total sites: 178
Number of sites with enough coverage: 0
Number of MSI sites: 0
MSI score(%): 0
Total time consumed: 1 secs