Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/75aeaf41b6380bc4dbc477aee55d52/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/1c856d9086dcf623a96d30642cd779/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/1c856d9086dcf623a96d30642cd779/.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-a73mj8m0 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 19:08:46,836 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 19:08:47,696 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 19:08:47,879 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 19:09:12,056 - cnv_pipe.batch.run_model - INFO - Loaded data with 93 samples
2026-06-02 19:09:12,283 - cnv_pipe.batch.run_model - INFO - Processing cluster 961 with 199 probes
2026-06-02 19:09:12,695 - cnv_pipe.batch.run_model.cluster961 - INFO - Child process started for cluster 961 with 199 probes
2026-06-02 19:12:56,080 - cnv_pipe.batch.run_model.cluster961 - INFO - Child process finished cluster 961. Wrote cluster_961_samples.csv and cluster_961_params.csv
2026-06-02 19:12:56,082 - cnv_pipe.batch.run_model - INFO - Cluster 961 finished in 223.80 seconds. Status: SUCCESS