Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/9711be98d2e5098018361c12afea05/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/29/af246ec051b56c9a276e75668dcc0a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/29/af246ec051b56c9a276e75668dcc0a/.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-lznlw3uy 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.
2026-06-01 21:56:07,679 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-01 21:56:08,548 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-01 21:56:08,721 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-01 21:56:09,724 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-01 21:56:09,907 - cnv_pipe.batch.run_model - INFO - Processing cluster 850 with 199 probes
2026-06-01 21:56:10,299 - cnv_pipe.batch.run_model.cluster850 - INFO - Child process started for cluster 850 with 199 probes
2026-06-01 21:57:13,465 - cnv_pipe.batch.run_model.cluster850 - INFO - Child process finished cluster 850. Wrote cluster_850_samples.csv and cluster_850_params.csv
2026-06-01 21:57:13,466 - cnv_pipe.batch.run_model - INFO - Cluster 850 finished in 63.56 seconds. Status: SUCCESS