Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/88572080cac8faab76fdfbecb1c1e0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/e59ad52f022a28e2de3dbfa49b421c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/e59ad52f022a28e2de3dbfa49b421c/.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-q9aamq9f 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.
2026-06-05 20:53:54,741 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 20:53:55,579 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 20:53:55,739 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 20:53:56,692 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 20:53:56,849 - cnv_pipe.batch.run_model - INFO - Processing cluster 12 with 199 probes
2026-06-05 20:53:57,225 - cnv_pipe.batch.run_model.cluster12 - INFO - Child process started for cluster 12 with 199 probes
2026-06-05 20:54:56,727 - cnv_pipe.batch.run_model.cluster12 - INFO - Child process finished cluster 12. Wrote cluster_12_samples.csv and cluster_12_params.csv
2026-06-05 20:54:56,728 - cnv_pipe.batch.run_model - INFO - Cluster 12 finished in 59.88 seconds. Status: SUCCESS