Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/93/8bd0c230e524b7e1388b18e755b8fa/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/229fd731f1d90bda13c284a4f0278d/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ee/b5ce6dcc6e157cdb5d3964be28073d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ee/b5ce6dcc6e157cdb5d3964be28073d/.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-vlekg_mg 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 17:06:57,901 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:06:58,688 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:06:58,856 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:06:59,805 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:06:59,882 - cnv_pipe.batch.run_model - INFO - Processing cluster 559 with 97 probes
2026-06-04 17:07:00,257 - cnv_pipe.batch.run_model.cluster559 - INFO - Child process started for cluster 559 with 97 probes
2026-06-04 17:07:30,400 - cnv_pipe.batch.run_model.cluster559 - INFO - Child process finished cluster 559. Wrote cluster_559_samples.csv and cluster_559_params.csv
2026-06-04 17:07:30,401 - cnv_pipe.batch.run_model - INFO - Cluster 559 finished in 30.52 seconds. Status: SUCCESS