.command.log - Workdir - GERMLINE_CNV:CalcPanelCoverage (NA07439_c_01_gDNA_01_B23H3TCLT3_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/65dc67653603743bc51da593b1e2fd/.command.log
Size: 1.3 KB
Task: GERMLINE_CNV:CalcPanelCoverage (NA07439_c_01_gDNA_01_B23H3TCLT3_1)
Attempt

Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/65dc67653603743bc51da593b1e2fd/.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/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/db/65dc67653603743bc51da593b1e2fd/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260223_LH00166_0251_B23H3TCLT3__aa3fd045--20260225-013009/alignments/recalibrated/NA07439_c_01_gDNA_01_B23H3TCLT3_1/NA07439_c_01_gDNA_01_B23H3TCLT3_1.recalibrated.bam
  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-mdkynrw2 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.