Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/77a3c816928cf056a2a709ea29f531/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/1db8bcd809f671779d1ddb9c789459/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/1db8bcd809f671779d1ddb9c789459/.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-kwxicj7b 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 03:34:01,780 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 03:34:02,592 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 03:34:02,760 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 03:34:03,686 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 03:34:03,853 - cnv_pipe.batch.run_model - INFO - Processing cluster 1260 with 198 probes
2026-06-05 03:34:04,228 - cnv_pipe.batch.run_model.cluster1260 - INFO - Child process started for cluster 1260 with 198 probes
2026-06-05 03:35:03,099 - cnv_pipe.batch.run_model.cluster1260 - INFO - Child process finished cluster 1260. Wrote cluster_1260_samples.csv and cluster_1260_params.csv
2026-06-05 03:35:03,101 - cnv_pipe.batch.run_model - INFO - Cluster 1260 finished in 59.25 seconds. Status: SUCCESS