Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/4054179d8c2faede8275f03a3b1080/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/9bb47b2615b36d797f6db1bcaf14db/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/9bb47b2615b36d797f6db1bcaf14db/.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-o3sivnka 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 21:50:19,713 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:50:20,502 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:50:20,671 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:50:21,581 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:50:21,744 - cnv_pipe.batch.run_model - INFO - Processing cluster 1187 with 169 probes
2026-06-03 21:50:22,115 - cnv_pipe.batch.run_model.cluster1187 - INFO - Child process started for cluster 1187 with 169 probes
2026-06-03 21:51:10,872 - cnv_pipe.batch.run_model.cluster1187 - INFO - Child process finished cluster 1187. Wrote cluster_1187_samples.csv and cluster_1187_params.csv
2026-06-03 21:51:10,873 - cnv_pipe.batch.run_model - INFO - Cluster 1187 finished in 49.13 seconds. Status: SUCCESS