Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/9711be98d2e5098018361c12afea05/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/fbf91020dceafb523c9843e4b9a74a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/57/9eb58db278e9e52aa27608f56ffbe3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/57/9eb58db278e9e52aa27608f56ffbe3/.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-smec2uyi 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.
2026-06-01 21:56:32,254 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-01 21:56:33,097 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-01 21:56:33,267 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-01 21:56:34,188 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-01 21:56:34,398 - cnv_pipe.batch.run_model - INFO - Processing cluster 977 with 181 probes
2026-06-01 21:56:34,774 - cnv_pipe.batch.run_model.cluster977 - INFO - Child process started for cluster 977 with 181 probes
2026-06-01 21:57:27,578 - cnv_pipe.batch.run_model.cluster977 - INFO - Child process finished cluster 977. Wrote cluster_977_samples.csv and cluster_977_params.csv
2026-06-01 21:57:27,579 - cnv_pipe.batch.run_model - INFO - Cluster 977 finished in 53.18 seconds. Status: SUCCESS