Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/fac372430477ba1f6c897ba5fc7630/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/66afdc89e1c772df68476c6f143f05/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/66afdc89e1c772df68476c6f143f05/.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-sl86p2e0 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.
2026-06-03 05:39:59,297 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:40:00,425 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:40:00,625 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:40:51,980 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:40:52,270 - cnv_pipe.batch.run_model - INFO - Processing cluster 12 with 199 probes
2026-06-03 05:40:52,798 - cnv_pipe.batch.run_model.cluster12 - INFO - Child process started for cluster 12 with 199 probes
2026-06-03 05:46:40,882 - cnv_pipe.batch.run_model.cluster12 - INFO - Child process finished cluster 12. Wrote cluster_12_samples.csv and cluster_12_params.csv
2026-06-03 05:46:40,885 - cnv_pipe.batch.run_model - INFO - Cluster 12 finished in 348.61 seconds. Status: SUCCESS