Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/b98469568f31edde7a0c30ce2faab5/HCC1395_tumor.recalibrated.cns
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/36/67fc294a0b8c0ed53361c7b66cedac/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/36/67fc294a0b8c0ed53361c7b66cedac/.command.run
==> STAGING COMPLETE (3 inputs)

Matplotlib created a temporary config/cache directory at /tmp/matplotlib-opb1yebr because the default path (/.config/matplotlib) is not a writable directory; 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.
Fontconfig error: No writable cache directories
Calling copy number with thresholds: -1.1 => 0, -0.25 => 1, 0.2 => 2, 0.7 => 3
Wrote HCC1395_tumor.recalibrated.somatic.call.cns with 7 regions
Matplotlib created a temporary config/cache directory at /tmp/matplotlib-_pf75_7g because the default path (/.config/matplotlib) is not a writable directory; 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.
Fontconfig error: No writable cache directories