Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/7b21e6b3d5296dfad38952efcc4e3e/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/0cbb0badfe19886d94c3bb11e046cb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/0cbb0badfe19886d94c3bb11e046cb/.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-jxwyzcrl 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.
2026-06-05 14:03:50,396 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 14:03:51,300 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 14:03:51,477 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 14:03:52,495 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 14:03:52,576 - cnv_pipe.batch.run_model - INFO - Processing cluster 777 with 140 probes
2026-06-05 14:03:53,083 - cnv_pipe.batch.run_model.cluster777 - INFO - Child process started for cluster 777 with 140 probes
2026-06-05 14:04:37,952 - cnv_pipe.batch.run_model.cluster777 - INFO - Child process finished cluster 777. Wrote cluster_777_samples.csv and cluster_777_params.csv
2026-06-05 14:04:37,953 - cnv_pipe.batch.run_model - INFO - Cluster 777 finished in 45.38 seconds. Status: SUCCESS