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/a7/b773fb8a2fd4dad66523f2c8efd774/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/b773fb8a2fd4dad66523f2c8efd774/.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-w4r3j9bh 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 21:56:34,534 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-01 21:56:35,336 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-01 21:56:35,504 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-01 21:56:36,514 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-01 21:56:36,589 - cnv_pipe.batch.run_model - INFO - Processing cluster 990 with 200 probes
2026-06-01 21:56:36,964 - cnv_pipe.batch.run_model.cluster990 - INFO - Child process started for cluster 990 with 200 probes
2026-06-01 21:57:36,463 - cnv_pipe.batch.run_model.cluster990 - INFO - Child process finished cluster 990. Wrote cluster_990_samples.csv and cluster_990_params.csv
2026-06-01 21:57:36,464 - cnv_pipe.batch.run_model - INFO - Cluster 990 finished in 59.87 seconds. Status: SUCCESS