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/de/e89d42722a4efcb57530546088799f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/e89d42722a4efcb57530546088799f/.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-cd22_4vu 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 18:47:08,447 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:47:09,318 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:47:09,494 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:47:31,456 - cnv_pipe.batch.run_model - INFO - Loaded data with 96 samples
2026-06-02 18:47:31,682 - cnv_pipe.batch.run_model - INFO - Processing cluster 922 with 68 probes
2026-06-02 18:47:32,067 - cnv_pipe.batch.run_model.cluster922 - INFO - Child process started for cluster 922 with 68 probes
2026-06-02 18:49:01,210 - cnv_pipe.batch.run_model.cluster922 - INFO - Child process finished cluster 922. Wrote cluster_922_samples.csv and cluster_922_params.csv
2026-06-02 18:49:01,211 - cnv_pipe.batch.run_model - INFO - Cluster 922 finished in 89.53 seconds. Status: SUCCESS