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/8e/02be44bdb567d668b68930eb114a44/sample_metrics_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/6b/9b702bb8f90711edd1a0e96a4e3227/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6b/9b702bb8f90711edd1a0e96a4e3227/.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-3i9369gn 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 22:23:27,893 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:28,756 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:28,931 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:29,941 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:30,113 - cnv_pipe.batch.run_model - INFO - Processing cluster 1395 with 199 probes
2026-06-08 22:23:30,494 - cnv_pipe.batch.run_model.cluster1395 - INFO - Child process started for cluster 1395 with 199 probes
2026-06-08 22:24:33,899 - cnv_pipe.batch.run_model.cluster1395 - INFO - Child process finished cluster 1395. Wrote cluster_1395_samples.csv and cluster_1395_params.csv
2026-06-08 22:24:33,901 - cnv_pipe.batch.run_model - INFO - Cluster 1395 finished in 63.79 seconds. Status: SUCCESS