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/f0/814040b0ac4df3bc535594d95fdafa/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f0/814040b0ac4df3bc535594d95fdafa/.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-c8b94ynm 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 03:33:26,283 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 03:33:27,073 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 03:33:27,246 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 03:33:28,379 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 03:33:28,444 - cnv_pipe.batch.run_model - INFO - Processing cluster 997 with 191 probes
2026-06-05 03:33:28,814 - cnv_pipe.batch.run_model.cluster997 - INFO - Child process started for cluster 997 with 191 probes
2026-06-05 03:34:24,217 - cnv_pipe.batch.run_model.cluster997 - INFO - Child process finished cluster 997. Wrote cluster_997_samples.csv and cluster_997_params.csv
2026-06-05 03:34:24,219 - cnv_pipe.batch.run_model - INFO - Cluster 997 finished in 55.77 seconds. Status: SUCCESS