Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/d1e96bfdd243f35cecbdbd35c5ccc5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/331cb0887c1f09c32026e76308f58f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/331cb0887c1f09c32026e76308f58f/.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-t270m7ws 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.
2026-06-08 22:24:14,439 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:24:15,288 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:24:15,459 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:24:16,422 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:24:16,593 - cnv_pipe.batch.run_model - INFO - Processing cluster 1799 with 177 probes
2026-06-08 22:24:16,965 - cnv_pipe.batch.run_model.cluster1799 - INFO - Child process started for cluster 1799 with 177 probes
2026-06-08 22:25:10,523 - cnv_pipe.batch.run_model.cluster1799 - INFO - Child process finished cluster 1799. Wrote cluster_1799_samples.csv and cluster_1799_params.csv
2026-06-08 22:25:10,525 - cnv_pipe.batch.run_model - INFO - Cluster 1799 finished in 53.93 seconds. Status: SUCCESS