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/39/bb4e0808537cd18d874d1bac3efce1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/bb4e0808537cd18d874d1bac3efce1/.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-x4qcrp7u 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 05:12:42,434 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:12:43,222 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:12:43,394 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:12:58,042 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:12:58,235 - cnv_pipe.batch.run_model - INFO - Processing cluster 433 with 181 probes
2026-06-03 05:12:58,604 - cnv_pipe.batch.run_model.cluster433 - INFO - Child process started for cluster 433 with 181 probes
2026-06-03 05:15:59,188 - cnv_pipe.batch.run_model.cluster433 - INFO - Child process finished cluster 433. Wrote cluster_433_samples.csv and cluster_433_params.csv
2026-06-03 05:15:59,190 - cnv_pipe.batch.run_model - INFO - Cluster 433 finished in 180.96 seconds. Status: SUCCESS