Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/576afef5aee0435598f1c27a4e8de7/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/4a5ca2ed3bfe36846e0139286a3b5b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/4a5ca2ed3bfe36846e0139286a3b5b/.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-li3lkvba 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.
2026-06-04 17:24:10,347 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:24:11,157 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:24:11,325 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:24:12,301 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:24:12,378 - cnv_pipe.batch.run_model - INFO - Processing cluster 1101 with 190 probes
2026-06-04 17:24:12,766 - cnv_pipe.batch.run_model.cluster1101 - INFO - Child process started for cluster 1101 with 190 probes
2026-06-04 17:25:09,652 - cnv_pipe.batch.run_model.cluster1101 - INFO - Child process finished cluster 1101. Wrote cluster_1101_samples.csv and cluster_1101_params.csv
2026-06-04 17:25:09,653 - cnv_pipe.batch.run_model - INFO - Cluster 1101 finished in 57.27 seconds. Status: SUCCESS