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/e5/1dbeb535133e7101a77b279cb4ad96/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e5/1dbeb535133e7101a77b279cb4ad96/.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-5reueoi5 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 05:14:58,277 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:14:59,143 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:14:59,333 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:15:16,591 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:15:16,806 - cnv_pipe.batch.run_model - INFO - Processing cluster 1280 with 176 probes
2026-06-03 05:15:17,213 - cnv_pipe.batch.run_model.cluster1280 - INFO - Child process started for cluster 1280 with 176 probes
2026-06-03 05:18:12,904 - cnv_pipe.batch.run_model.cluster1280 - INFO - Child process finished cluster 1280. Wrote cluster_1280_samples.csv and cluster_1280_params.csv
2026-06-03 05:18:12,905 - cnv_pipe.batch.run_model - INFO - Cluster 1280 finished in 176.10 seconds. Status: SUCCESS