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/ed/ef6d26115544697e6537209bd53add/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/ef6d26115544697e6537209bd53add/.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-2s9atae6 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 17:20:54,053 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:20:54,918 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:20:55,085 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:20:56,042 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:20:56,216 - cnv_pipe.batch.run_model - INFO - Processing cluster 67 with 195 probes
2026-06-04 17:20:56,602 - cnv_pipe.batch.run_model.cluster67 - INFO - Child process started for cluster 67 with 195 probes
2026-06-04 17:21:52,138 - cnv_pipe.batch.run_model.cluster67 - INFO - Child process finished cluster 67. Wrote cluster_67_samples.csv and cluster_67_params.csv
2026-06-04 17:21:52,140 - cnv_pipe.batch.run_model - INFO - Cluster 67 finished in 55.92 seconds. Status: SUCCESS