Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/20980a8b72434b119805e31e18f186/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/20980a8b72434b119805e31e18f186/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/3300bc457771f74b01342f0d89c948/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/20980a8b72434b119805e31e18f186/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/2e73101b45ece2c41ccfbda0706f00/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/2e73101b45ece2c41ccfbda0706f00/.command.sh
==> 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-b5g4qzj7 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 18:51:57,582 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 18:51:58,396 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 18:51:58,564 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 18:51:59,529 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 18:51:59,701 - cnv_pipe.batch.run_model - INFO - Processing cluster 9 with 189 probes
2026-05-27 18:52:00,077 - cnv_pipe.batch.run_model.cluster9 - INFO - Child process started for cluster 9 with 189 probes
2026-05-27 18:52:55,837 - cnv_pipe.batch.run_model.cluster9 - INFO - Child process finished cluster 9. Wrote cluster_9_samples.csv and cluster_9_params.csv
2026-05-27 18:52:55,838 - cnv_pipe.batch.run_model - INFO - Cluster 9 finished in 56.14 seconds. Status: SUCCESS