Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/d03b578e25999b1cf8c227a4071696/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/b030d90c96e85c3f766cbd9ecaf6e8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/b030d90c96e85c3f766cbd9ecaf6e8/.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-uikspk69 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 04:50:02,173 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:50:02,997 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:50:03,169 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:50:25,415 - cnv_pipe.batch.run_model - INFO - Loaded data with 87 samples
2026-06-03 04:50:25,642 - cnv_pipe.batch.run_model - INFO - Processing cluster 685 with 175 probes
2026-06-03 04:50:26,087 - cnv_pipe.batch.run_model.cluster685 - INFO - Child process started for cluster 685 with 175 probes
2026-06-03 04:53:36,627 - cnv_pipe.batch.run_model.cluster685 - INFO - Child process finished cluster 685. Wrote cluster_685_samples.csv and cluster_685_params.csv
2026-06-03 04:53:36,630 - cnv_pipe.batch.run_model - INFO - Cluster 685 finished in 190.99 seconds. Status: SUCCESS