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/8c/b9a995e7e4638e5e4c5cc44e1cd71b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8c/b9a995e7e4638e5e4c5cc44e1cd71b/.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-29r7jy9k 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 22:24:16,916 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:24:17,761 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:24:17,931 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:24:18,887 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:24:19,056 - cnv_pipe.batch.run_model - INFO - Processing cluster 1047 with 163 probes
2026-06-08 22:24:19,431 - cnv_pipe.batch.run_model.cluster1047 - INFO - Child process started for cluster 1047 with 163 probes
2026-06-08 22:25:10,885 - cnv_pipe.batch.run_model.cluster1047 - INFO - Child process finished cluster 1047. Wrote cluster_1047_samples.csv and cluster_1047_params.csv
2026-06-08 22:25:10,888 - cnv_pipe.batch.run_model - INFO - Cluster 1047 finished in 51.83 seconds. Status: SUCCESS