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/ca/1e31f26331335d27d37b8aa2540ac5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/1e31f26331335d27d37b8aa2540ac5/.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-k136kdyx 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 05:43:14,450 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:43:15,482 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:43:15,676 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:44:09,654 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:44:09,770 - cnv_pipe.batch.run_model - INFO - Processing cluster 624 with 170 probes
2026-06-03 05:44:10,462 - cnv_pipe.batch.run_model.cluster624 - INFO - Child process started for cluster 624 with 170 probes
2026-06-03 05:48:59,207 - cnv_pipe.batch.run_model.cluster624 - INFO - Child process finished cluster 624. Wrote cluster_624_samples.csv and cluster_624_params.csv
2026-06-03 05:48:59,210 - cnv_pipe.batch.run_model - INFO - Cluster 624 finished in 289.44 seconds. Status: SUCCESS