Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/d1e96bfdd243f35cecbdbd35c5ccc5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/1ed7115a3eacb5c821124e8d8cfb8d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/1ed7115a3eacb5c821124e8d8cfb8d/.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-rvzf55bv 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.
2026-06-08 22:19:18,785 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:19:19,653 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:19:19,823 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:19:20,804 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:19:20,964 - cnv_pipe.batch.run_model - INFO - Processing cluster 68 with 184 probes
2026-06-08 22:19:21,334 - cnv_pipe.batch.run_model.cluster68 - INFO - Child process started for cluster 68 with 184 probes
2026-06-08 22:20:20,329 - cnv_pipe.batch.run_model.cluster68 - INFO - Child process finished cluster 68. Wrote cluster_68_samples.csv and cluster_68_params.csv
2026-06-08 22:20:20,330 - cnv_pipe.batch.run_model - INFO - Cluster 68 finished in 59.37 seconds. Status: SUCCESS