Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/a494e8e980c0e7d8e3b4d352c11387/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8f/841e5a79983808789af26f09d1fb32/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8f/841e5a79983808789af26f09d1fb32/.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-4bte_86b 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 18:37:26,100 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:26,893 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:27,060 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:37:42,100 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:37:42,343 - cnv_pipe.batch.run_model - INFO - Processing cluster 89 with 82 probes
2026-06-02 18:37:42,726 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process started for cluster 89 with 82 probes
2026-06-02 18:39:14,043 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process finished cluster 89. Wrote cluster_89_samples.csv and cluster_89_params.csv
2026-06-02 18:39:14,044 - cnv_pipe.batch.run_model - INFO - Cluster 89 finished in 91.70 seconds. Status: SUCCESS