Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/7ad2f4ddc4c4a4c48994b5bb742c26/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/7ad2f4ddc4c4a4c48994b5bb742c26/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/c0245ecb359325a9a7b51ebaedf239/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/7ad2f4ddc4c4a4c48994b5bb742c26/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/8d01cfe4bb2135d0cfe5cea8d5fe19/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/8d01cfe4bb2135d0cfe5cea8d5fe19/.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-t2q7wjui 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.
2026-05-27 04:59:13,117 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 04:59:13,931 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 04:59:14,099 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 04:59:15,035 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 04:59:15,195 - cnv_pipe.batch.run_model - INFO - Processing cluster 998 with 199 probes
2026-05-27 04:59:15,588 - cnv_pipe.batch.run_model.cluster998 - INFO - Child process started for cluster 998 with 199 probes
2026-05-27 05:00:13,568 - cnv_pipe.batch.run_model.cluster998 - INFO - Child process finished cluster 998. Wrote cluster_998_samples.csv and cluster_998_params.csv
2026-05-27 05:00:13,569 - cnv_pipe.batch.run_model - INFO - Cluster 998 finished in 58.37 seconds. Status: SUCCESS