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/73/307ac72aa34938304aaf839e45087d/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/73/307ac72aa34938304aaf839e45087d/.command.sh
==> 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-sgwpc5qw 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 21:47:57,336 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:47:58,161 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:47:58,331 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:47:59,256 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:47:59,438 - cnv_pipe.batch.run_model - INFO - Processing cluster 407 with 199 probes
2026-06-03 21:47:59,812 - cnv_pipe.batch.run_model.cluster407 - INFO - Child process started for cluster 407 with 199 probes
2026-06-03 21:48:58,345 - cnv_pipe.batch.run_model.cluster407 - INFO - Child process finished cluster 407. Wrote cluster_407_samples.csv and cluster_407_params.csv
2026-06-03 21:48:58,346 - cnv_pipe.batch.run_model - INFO - Cluster 407 finished in 58.91 seconds. Status: SUCCESS