Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/0736553abd3f1ae6189c25cf0a2077/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/b1ef6408000facc2e6abf65f46c0e9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/b1ef6408000facc2e6abf65f46c0e9/.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-79ezal95 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 05:03:38,552 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:03:39,582 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:03:39,781 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:03:57,866 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:03:58,160 - cnv_pipe.batch.run_model - INFO - Processing cluster 747 with 169 probes
2026-06-03 05:03:58,626 - cnv_pipe.batch.run_model.cluster747 - INFO - Child process started for cluster 747 with 169 probes
2026-06-03 05:07:14,435 - cnv_pipe.batch.run_model.cluster747 - INFO - Child process finished cluster 747. Wrote cluster_747_samples.csv and cluster_747_params.csv
2026-06-03 05:07:14,438 - cnv_pipe.batch.run_model - INFO - Cluster 747 finished in 196.28 seconds. Status: SUCCESS