Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/d418a9ee96101ea3196d311c3a7ba0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2e/34d10d02404c3733330ff92c096eb5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2e/34d10d02404c3733330ff92c096eb5/.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-oyc45yp0 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 22:24:28,451 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:24:29,231 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:24:29,402 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:24:30,375 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:24:30,547 - cnv_pipe.batch.run_model - INFO - Processing cluster 1080 with 187 probes
2026-06-08 22:24:30,915 - cnv_pipe.batch.run_model.cluster1080 - INFO - Child process started for cluster 1080 with 187 probes
2026-06-08 22:25:25,920 - cnv_pipe.batch.run_model.cluster1080 - INFO - Child process finished cluster 1080. Wrote cluster_1080_samples.csv and cluster_1080_params.csv
2026-06-08 22:25:25,921 - cnv_pipe.batch.run_model - INFO - Cluster 1080 finished in 55.37 seconds. Status: SUCCESS