Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/f9f27a09b601f52e05c80c785a44b5/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/f9f27a09b601f52e05c80c785a44b5/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/ff8de5d7320cf16f51e1a038b6c5df/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/f9f27a09b601f52e05c80c785a44b5/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/3b73cc88da2a73f7a3b5520c512318/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/3b73cc88da2a73f7a3b5520c512318/.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-duib0dl7 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 06:07:38,180 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:07:39,074 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:07:39,252 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:08:25,172 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 06:08:25,264 - cnv_pipe.batch.run_model - INFO - Processing cluster 925 with 183 probes
2026-06-03 06:08:25,824 - cnv_pipe.batch.run_model.cluster925 - INFO - Child process started for cluster 925 with 183 probes
2026-06-03 06:13:35,701 - cnv_pipe.batch.run_model.cluster925 - INFO - Child process finished cluster 925. Wrote cluster_925_samples.csv and cluster_925_params.csv
2026-06-03 06:13:35,703 - cnv_pipe.batch.run_model - INFO - Cluster 925 finished in 310.44 seconds. Status: SUCCESS