Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4d/86887286c60e0ec78f76ef509ef74d/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/d45a9ee3f9814f6005f2cc1ca29072/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/d45a9ee3f9814f6005f2cc1ca29072/.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-iymm5q67 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.
2026-06-03 05:08:40,551 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:08:41,484 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:08:41,670 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:08:57,259 - cnv_pipe.batch.run_model - INFO - Loaded data with 68 samples
2026-06-03 05:08:57,358 - cnv_pipe.batch.run_model - INFO - Processing cluster 787 with 175 probes
2026-06-03 05:08:57,936 - cnv_pipe.batch.run_model.cluster787 - INFO - Child process started for cluster 787 with 175 probes
2026-06-03 05:12:03,871 - cnv_pipe.batch.run_model.cluster787 - INFO - Child process finished cluster 787. Wrote cluster_787_samples.csv and cluster_787_params.csv
2026-06-03 05:12:03,874 - cnv_pipe.batch.run_model - INFO - Cluster 787 finished in 186.52 seconds. Status: SUCCESS