Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/f9f27a09b601f52e05c80c785a44b5/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/f9f27a09b601f52e05c80c785a44b5/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/ff8de5d7320cf16f51e1a038b6c5df/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/f9f27a09b601f52e05c80c785a44b5/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/3ec7cb6f87d9f4554f87db90481b56/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/3ec7cb6f87d9f4554f87db90481b56/.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-pnv810sc 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 06:07:14,983 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:07:15,864 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:07:16,046 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:08:00,914 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 06:08:01,132 - cnv_pipe.batch.run_model - INFO - Processing cluster 817 with 132 probes
2026-06-03 06:08:01,540 - cnv_pipe.batch.run_model.cluster817 - INFO - Child process started for cluster 817 with 132 probes
2026-06-03 06:11:42,452 - cnv_pipe.batch.run_model.cluster817 - INFO - Child process finished cluster 817. Wrote cluster_817_samples.csv and cluster_817_params.csv
2026-06-03 06:11:42,454 - cnv_pipe.batch.run_model - INFO - Cluster 817 finished in 221.32 seconds. Status: SUCCESS