Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/843b442b3f4056063ad6882f8d6b2c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/843b442b3f4056063ad6882f8d6b2c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/713da545586dd355eb0d9e2e579513/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/843b442b3f4056063ad6882f8d6b2c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/2ffb52ae96183675a70c85bb2562c0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/2ffb52ae96183675a70c85bb2562c0/.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-286v3i8x 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.
2026-06-02 18:46:57,152 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:46:57,936 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:46:58,103 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:47:19,850 - cnv_pipe.batch.run_model - INFO - Loaded data with 96 samples
2026-06-02 18:47:20,053 - cnv_pipe.batch.run_model - INFO - Processing cluster 860 with 129 probes
2026-06-02 18:47:20,450 - cnv_pipe.batch.run_model.cluster860 - INFO - Child process started for cluster 860 with 129 probes
2026-06-02 18:49:53,771 - cnv_pipe.batch.run_model.cluster860 - INFO - Child process finished cluster 860. Wrote cluster_860_samples.csv and cluster_860_params.csv
2026-06-02 18:49:53,773 - cnv_pipe.batch.run_model - INFO - Cluster 860 finished in 153.72 seconds. Status: SUCCESS