Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/d1e96bfdd243f35cecbdbd35c5ccc5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/f07a9fe0a38cef06288dcec6623d57/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/f07a9fe0a38cef06288dcec6623d57/.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-k398h2yp 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.
2026-06-08 22:21:12,855 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:21:13,754 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:21:13,934 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:21:14,971 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:21:15,144 - cnv_pipe.batch.run_model - INFO - Processing cluster 322 with 200 probes
2026-06-08 22:21:15,526 - cnv_pipe.batch.run_model.cluster322 - INFO - Child process started for cluster 322 with 200 probes
2026-06-08 22:22:18,267 - cnv_pipe.batch.run_model.cluster322 - INFO - Child process finished cluster 322. Wrote cluster_322_samples.csv and cluster_322_params.csv
2026-06-08 22:22:18,269 - cnv_pipe.batch.run_model - INFO - Cluster 322 finished in 63.12 seconds. Status: SUCCESS