Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/9711be98d2e5098018361c12afea05/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/57ae648da6cf710a347754e393e4e2/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/57ae648da6cf710a347754e393e4e2/.command.run
==> STAGING COMPLETE (6 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-ogjjuwmi 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.
2026-06-01 21:53:31,743 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-01 21:53:32,633 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-01 21:53:32,808 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-01 21:53:33,908 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-01 21:53:33,976 - cnv_pipe.batch.run_model - INFO - Processing cluster 9 with 189 probes
2026-06-01 21:53:34,365 - cnv_pipe.batch.run_model.cluster9 - INFO - Child process started for cluster 9 with 189 probes
2026-06-01 21:54:35,058 - cnv_pipe.batch.run_model.cluster9 - INFO - Child process finished cluster 9. Wrote cluster_9_samples.csv and cluster_9_params.csv
2026-06-01 21:54:35,059 - cnv_pipe.batch.run_model - INFO - Cluster 9 finished in 61.08 seconds. Status: SUCCESS