Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/576afef5aee0435598f1c27a4e8de7/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/46/2cfc2afea72e4ce85c71acc2c0f96e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/46/2cfc2afea72e4ce85c71acc2c0f96e/.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-omvo93wz 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.
2026-06-04 17:20:59,236 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:21:00,089 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:21:00,261 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:21:01,226 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:21:01,398 - cnv_pipe.batch.run_model - INFO - Processing cluster 92 with 185 probes
2026-06-04 17:21:01,775 - cnv_pipe.batch.run_model.cluster92 - INFO - Child process started for cluster 92 with 185 probes
2026-06-04 17:21:56,482 - cnv_pipe.batch.run_model.cluster92 - INFO - Child process finished cluster 92. Wrote cluster_92_samples.csv and cluster_92_params.csv
2026-06-04 17:21:56,484 - cnv_pipe.batch.run_model - INFO - Cluster 92 finished in 55.09 seconds. Status: SUCCESS