Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/201e02d515ce74918c8bbb8d6a7fc4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/201e02d515ce74918c8bbb8d6a7fc4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/bff97a725822f58539da83397845a4/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/201e02d515ce74918c8bbb8d6a7fc4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/9a6ed2836134e62ccf980ea67595a4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/9a6ed2836134e62ccf980ea67595a4/.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-2am9t004 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 05:13:20,883 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:13:21,676 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:13:21,845 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:13:37,084 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:13:37,279 - cnv_pipe.batch.run_model - INFO - Processing cluster 617 with 194 probes
2026-06-03 05:13:37,647 - cnv_pipe.batch.run_model.cluster617 - INFO - Child process started for cluster 617 with 194 probes
2026-06-03 05:16:40,632 - cnv_pipe.batch.run_model.cluster617 - INFO - Child process finished cluster 617. Wrote cluster_617_samples.csv and cluster_617_params.csv
2026-06-03 05:16:40,634 - cnv_pipe.batch.run_model - INFO - Cluster 617 finished in 183.36 seconds. Status: SUCCESS