.command.log - Workdir - GERMLINE_CNV:CalcPanelCoverage (NA12878_c_0001_gDNA_0001_B23H2H2LT4_5)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/6dc89fb9c2c0387b3ccbb82b96b38f/.command.log
Size: 1.3 KB
Task: GERMLINE_CNV:CalcPanelCoverage (NA12878_c_0001_gDNA_0001_B23H2H2LT4_5)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/6dc89fb9c2c0387b3ccbb82b96b38f/.command.sh
  Downloading: s3://natera-platform-sandbox/ref/hs38/GCA_000001405.15_GRCh38_no_alt_analysis_set.fna.gz.gzi
  Downloading: s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251215_LH00166_0222_B23H2H2LT4__c669fb6c--20260304-055747/alignments/recalibrated/NA12878_c_0001_gDNA_0001_B23H2H2LT4_5/NA12878_c_0001_gDNA_0001_B23H2H2LT4_5.recalibrated.bam
  Downloading: s3://natera-platform-sandbox/platform_projects/altera_cnv/altera_v3_panel.bed
  Downloading: s3://natera-platform-sandbox/ref/hs38/GCA_000001405.15_GRCh38_no_alt_analysis_set.fna.gz.fai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/6dc89fb9c2c0387b3ccbb82b96b38f/.command.run
  Downloading: s3://natera-platform-sandbox/ref/hs38/GCA_000001405.15_GRCh38_no_alt_analysis_set.fna.gz
==> STAGING COMPLETE (7 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-_12mciqh because there was an issue with the default path (/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.