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/8a/13c01e778b4ab7df63f1cc5933b1b1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/13c01e778b4ab7df63f1cc5933b1b1/.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-r3bci8m4 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 05:42:33,852 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:42:34,717 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:42:34,910 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:43:20,665 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:43:20,927 - cnv_pipe.batch.run_model - INFO - Processing cluster 511 with 159 probes
2026-06-03 05:43:21,391 - cnv_pipe.batch.run_model.cluster511 - INFO - Child process started for cluster 511 with 159 probes
2026-06-03 05:48:17,705 - cnv_pipe.batch.run_model.cluster511 - INFO - Child process finished cluster 511. Wrote cluster_511_samples.csv and cluster_511_params.csv
2026-06-03 05:48:17,707 - cnv_pipe.batch.run_model - INFO - Cluster 511 finished in 296.78 seconds. Status: SUCCESS