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/bd/9b1b68f3141d99bd27eb302749d200/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/9b1b68f3141d99bd27eb302749d200/.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-zi0n5fs8 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 20:55:42,375 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 20:55:43,285 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 20:55:43,455 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 20:55:44,470 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 20:55:44,634 - cnv_pipe.batch.run_model - INFO - Processing cluster 698 with 195 probes
2026-06-05 20:55:45,025 - cnv_pipe.batch.run_model.cluster698 - INFO - Child process started for cluster 698 with 195 probes
2026-06-05 20:56:43,460 - cnv_pipe.batch.run_model.cluster698 - INFO - Child process finished cluster 698. Wrote cluster_698_samples.csv and cluster_698_params.csv
2026-06-05 20:56:43,461 - cnv_pipe.batch.run_model - INFO - Cluster 698 finished in 58.83 seconds. Status: SUCCESS