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/d2b5a88a532bbe87259a6d81bc76c8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/d2b5a88a532bbe87259a6d81bc76c8/.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-yz0eek8h 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 22:23:36,511 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:37,469 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:37,663 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:38,732 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:38,900 - cnv_pipe.batch.run_model - INFO - Processing cluster 1601 with 148 probes
2026-06-08 22:23:39,351 - cnv_pipe.batch.run_model.cluster1601 - INFO - Child process started for cluster 1601 with 148 probes
2026-06-08 22:24:31,851 - cnv_pipe.batch.run_model.cluster1601 - INFO - Child process finished cluster 1601. Wrote cluster_1601_samples.csv and cluster_1601_params.csv
2026-06-08 22:24:31,852 - cnv_pipe.batch.run_model - INFO - Cluster 1601 finished in 52.95 seconds. Status: SUCCESS