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/7d/ce96fb470ea4c6928d7cfa1b942820/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/ce96fb470ea4c6928d7cfa1b942820/.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-10ndeikn 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 17:20:57,076 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:20:57,863 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:20:58,021 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:20:58,896 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:20:59,049 - cnv_pipe.batch.run_model - INFO - Processing cluster 83 with 161 probes
2026-06-04 17:20:59,427 - cnv_pipe.batch.run_model.cluster83 - INFO - Child process started for cluster 83 with 161 probes
2026-06-04 17:21:45,373 - cnv_pipe.batch.run_model.cluster83 - INFO - Child process finished cluster 83. Wrote cluster_83_samples.csv and cluster_83_params.csv
2026-06-04 17:21:45,374 - cnv_pipe.batch.run_model - INFO - Cluster 83 finished in 46.32 seconds. Status: SUCCESS