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/5f/10702b8ce06c2fae4a47988f2be6eb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/10702b8ce06c2fae4a47988f2be6eb/.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-wh6aart3 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 06:11:09,979 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:11:10,902 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:11:11,082 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:11:56,194 - cnv_pipe.batch.run_model - INFO - Loaded data with 188 samples
2026-06-03 06:11:56,414 - cnv_pipe.batch.run_model - INFO - Processing cluster 972 with 173 probes
2026-06-03 06:11:56,827 - cnv_pipe.batch.run_model.cluster972 - INFO - Child process started for cluster 972 with 173 probes
2026-06-03 06:16:40,057 - cnv_pipe.batch.run_model.cluster972 - INFO - Child process finished cluster 972. Wrote cluster_972_samples.csv and cluster_972_params.csv
2026-06-03 06:16:40,059 - cnv_pipe.batch.run_model - INFO - Cluster 972 finished in 283.65 seconds. Status: SUCCESS