Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/fac372430477ba1f6c897ba5fc7630/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/1d2e59991622f31f1a8ccc74ada3d3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/1d2e59991622f31f1a8ccc74ada3d3/.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-2flekl7n 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 05:42:24,680 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:42:25,526 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:42:25,702 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:43:09,705 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:43:09,806 - cnv_pipe.batch.run_model - INFO - Processing cluster 476 with 193 probes
2026-06-03 05:43:10,335 - cnv_pipe.batch.run_model.cluster476 - INFO - Child process started for cluster 476 with 193 probes
2026-06-03 05:49:28,741 - cnv_pipe.batch.run_model.cluster476 - INFO - Child process finished cluster 476. Wrote cluster_476_samples.csv and cluster_476_params.csv
2026-06-03 05:49:28,743 - cnv_pipe.batch.run_model - INFO - Cluster 476 finished in 378.94 seconds. Status: SUCCESS