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/1d/c9ebe7ddba1aef0abc18a76eab4a59/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/c9ebe7ddba1aef0abc18a76eab4a59/.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-e5h7mxqu 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 22:22:33,295 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:22:34,176 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:22:34,353 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:22:35,523 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:22:35,746 - cnv_pipe.batch.run_model - INFO - Processing cluster 874 with 198 probes
2026-06-08 22:22:36,126 - cnv_pipe.batch.run_model.cluster874 - INFO - Child process started for cluster 874 with 198 probes
2026-06-08 22:23:37,225 - cnv_pipe.batch.run_model.cluster874 - INFO - Child process finished cluster 874. Wrote cluster_874_samples.csv and cluster_874_params.csv
2026-06-08 22:23:37,227 - cnv_pipe.batch.run_model - INFO - Cluster 874 finished in 61.48 seconds. Status: SUCCESS