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/fa/3c91a5767af8a1a9eac19e486f69f9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/3c91a5767af8a1a9eac19e486f69f9/.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-iq5i7jex 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 06:06:17,712 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:06:18,594 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:06:18,773 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:07:03,134 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 06:07:03,227 - cnv_pipe.batch.run_model - INFO - Processing cluster 607 with 183 probes
2026-06-03 06:07:03,780 - cnv_pipe.batch.run_model.cluster607 - INFO - Child process started for cluster 607 with 183 probes
2026-06-03 06:12:07,240 - cnv_pipe.batch.run_model.cluster607 - INFO - Child process finished cluster 607. Wrote cluster_607_samples.csv and cluster_607_params.csv
2026-06-03 06:12:07,242 - cnv_pipe.batch.run_model - INFO - Cluster 607 finished in 304.02 seconds. Status: SUCCESS