Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0c/83a6eb5a9efd76c3cc3115568a186b/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/17bdfdacd26b3213b55843338c425a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/17bdfdacd26b3213b55843338c425a/.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-mcn7abln 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 06:10:49,736 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:10:50,644 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:10:50,830 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:11:38,038 - cnv_pipe.batch.run_model - INFO - Loaded data with 188 samples
2026-06-03 06:11:38,132 - cnv_pipe.batch.run_model - INFO - Processing cluster 922 with 68 probes
2026-06-03 06:11:38,570 - cnv_pipe.batch.run_model.cluster922 - INFO - Child process started for cluster 922 with 68 probes
2026-06-03 06:14:00,356 - cnv_pipe.batch.run_model.cluster922 - INFO - Child process finished cluster 922. Wrote cluster_922_samples.csv and cluster_922_params.csv
2026-06-03 06:14:00,357 - cnv_pipe.batch.run_model - INFO - Cluster 922 finished in 142.23 seconds. Status: SUCCESS