Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/86/d3f2ba928beab4f875cf9bd7d52c2c/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/c5e205faa85e96f3060e831bbde3eb/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c1/5bb79d8ccb0ab909001006e37764ae/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c1/5bb79d8ccb0ab909001006e37764ae/.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-x37arf84 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 05:31:00,877 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:31:01,821 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:31:02,006 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:31:49,515 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:31:49,795 - cnv_pipe.batch.run_model - INFO - Processing cluster 75 with 200 probes
2026-06-03 05:31:50,240 - cnv_pipe.batch.run_model.cluster75 - INFO - Child process started for cluster 75 with 200 probes
2026-06-03 05:37:44,546 - cnv_pipe.batch.run_model.cluster75 - INFO - Child process finished cluster 75. Wrote cluster_75_samples.csv and cluster_75_params.csv
2026-06-03 05:37:44,549 - cnv_pipe.batch.run_model - INFO - Cluster 75 finished in 354.75 seconds. Status: SUCCESS