Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/41e5c371c3a62eb95974375831623f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/eac3f3f6becc27e43f10cee4b5ad1b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/eac3f3f6becc27e43f10cee4b5ad1b/.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-8qzf7ah3 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 04:53:31,029 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:53:31,930 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:53:32,112 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:53:48,540 - cnv_pipe.batch.run_model - INFO - Loaded data with 65 samples
2026-06-03 04:53:48,782 - cnv_pipe.batch.run_model - INFO - Processing cluster 1116 with 109 probes
2026-06-03 04:53:49,203 - cnv_pipe.batch.run_model.cluster1116 - INFO - Child process started for cluster 1116 with 109 probes
2026-06-03 04:55:51,518 - cnv_pipe.batch.run_model.cluster1116 - INFO - Child process finished cluster 1116. Wrote cluster_1116_samples.csv and cluster_1116_params.csv
2026-06-03 04:55:51,520 - cnv_pipe.batch.run_model - INFO - Cluster 1116 finished in 122.74 seconds. Status: SUCCESS