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/9e/0e40c67bf89ad4e514e4fe16de4add/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/0e40c67bf89ad4e514e4fe16de4add/.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-_q78h083 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 22:23:56,597 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:57,383 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:57,553 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:58,516 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:58,596 - cnv_pipe.batch.run_model - INFO - Processing cluster 1638 with 193 probes
2026-06-08 22:23:59,065 - cnv_pipe.batch.run_model.cluster1638 - INFO - Child process started for cluster 1638 with 193 probes
2026-06-08 22:24:55,529 - cnv_pipe.batch.run_model.cluster1638 - INFO - Child process finished cluster 1638. Wrote cluster_1638_samples.csv and cluster_1638_params.csv
2026-06-08 22:24:55,531 - cnv_pipe.batch.run_model - INFO - Cluster 1638 finished in 56.93 seconds. Status: SUCCESS