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/66/d63abcce5a5f6b0b62d46873b99f88/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/d63abcce5a5f6b0b62d46873b99f88/.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-w9_o901w 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 20:53:56,366 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 20:53:57,320 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 20:53:57,515 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 20:53:58,621 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 20:53:58,693 - cnv_pipe.batch.run_model - INFO - Processing cluster 60 with 199 probes
2026-06-05 20:53:59,146 - cnv_pipe.batch.run_model.cluster60 - INFO - Child process started for cluster 60 with 199 probes
2026-06-05 20:55:08,096 - cnv_pipe.batch.run_model.cluster60 - INFO - Child process finished cluster 60. Wrote cluster_60_samples.csv and cluster_60_params.csv
2026-06-05 20:55:08,098 - cnv_pipe.batch.run_model - INFO - Cluster 60 finished in 69.41 seconds. Status: SUCCESS