Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4b/b66aba058a3c62f6e70309bde2f9ef/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/76dbf24131d8638b605a05f6049f91/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/76dbf24131d8638b605a05f6049f91/.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-3tx0_eon 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 11:38:05,893 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 11:38:06,731 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 11:38:06,905 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 11:38:07,870 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 11:38:08,056 - cnv_pipe.batch.run_model - INFO - Processing cluster 874 with 198 probes
2026-05-27 11:38:08,459 - cnv_pipe.batch.run_model.cluster874 - INFO - Child process started for cluster 874 with 198 probes
2026-05-27 11:39:08,624 - cnv_pipe.batch.run_model.cluster874 - INFO - Child process finished cluster 874. Wrote cluster_874_samples.csv and cluster_874_params.csv
2026-05-27 11:39:08,626 - cnv_pipe.batch.run_model - INFO - Cluster 874 finished in 60.57 seconds. Status: SUCCESS