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/4f/fec5c8fddda234d9ff3d10caac4088/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/fec5c8fddda234d9ff3d10caac4088/.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-nluin_mt 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 05:45:08,802 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:45:10,571 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:45:10,945 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:46:36,766 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:46:37,136 - cnv_pipe.batch.run_model - INFO - Processing cluster 973 with 199 probes
2026-06-03 05:46:37,952 - cnv_pipe.batch.run_model.cluster973 - INFO - Child process started for cluster 973 with 199 probes
2026-06-03 05:53:51,646 - cnv_pipe.batch.run_model.cluster973 - INFO - Child process finished cluster 973. Wrote cluster_973_samples.csv and cluster_973_params.csv
2026-06-03 05:53:51,648 - cnv_pipe.batch.run_model - INFO - Cluster 973 finished in 434.51 seconds. Status: SUCCESS