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/fb/fe740800bfba3cf532932850d33d2a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/fe740800bfba3cf532932850d33d2a/.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-0vrolzzo 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 05:43:16,721 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:43:17,735 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:43:17,939 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:44:08,149 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:44:08,468 - cnv_pipe.batch.run_model - INFO - Processing cluster 640 with 157 probes
2026-06-03 05:44:08,928 - cnv_pipe.batch.run_model.cluster640 - INFO - Child process started for cluster 640 with 157 probes
2026-06-03 05:48:46,528 - cnv_pipe.batch.run_model.cluster640 - INFO - Child process finished cluster 640. Wrote cluster_640_samples.csv and cluster_640_params.csv
2026-06-03 05:48:46,530 - cnv_pipe.batch.run_model - INFO - Cluster 640 finished in 278.06 seconds. Status: SUCCESS