Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f0b3dcb3638939686c3bfe5522d719/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f0b3dcb3638939686c3bfe5522d719/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/f0b3dcb3638939686c3bfe5522d719/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/11663a86573f63438a8e925e4816d0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/c47e853deaa60c507a0203d6637cff/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/c47e853deaa60c507a0203d6637cff/.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-u_7l8ekh 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.
2026-05-28 05:38:13,479 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-28 05:38:14,339 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-28 05:38:14,516 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-28 05:38:15,687 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-28 05:38:15,893 - cnv_pipe.batch.run_model - INFO - Processing cluster 82 with 171 probes
2026-05-28 05:38:16,291 - cnv_pipe.batch.run_model.cluster82 - INFO - Child process started for cluster 82 with 171 probes
2026-05-28 05:39:12,938 - cnv_pipe.batch.run_model.cluster82 - INFO - Child process finished cluster 82. Wrote cluster_82_samples.csv and cluster_82_params.csv
2026-05-28 05:39:12,940 - cnv_pipe.batch.run_model - INFO - Cluster 82 finished in 57.05 seconds. Status: SUCCESS