Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/576afef5aee0435598f1c27a4e8de7/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/c76a44035117e2aa98a4baaf61cc9c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/59d78094f24fef10cfec50595f7294/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/59d78094f24fef10cfec50595f7294/.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-fv0zt2vs 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.
2026-06-04 17:23:48,389 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:23:49,171 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:23:49,329 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:23:50,167 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:23:50,305 - cnv_pipe.batch.run_model - INFO - Processing cluster 981 with 172 probes
2026-06-04 17:23:50,662 - cnv_pipe.batch.run_model.cluster981 - INFO - Child process started for cluster 981 with 172 probes
2026-06-04 17:24:39,760 - cnv_pipe.batch.run_model.cluster981 - INFO - Child process finished cluster 981. Wrote cluster_981_samples.csv and cluster_981_params.csv
2026-06-04 17:24:39,761 - cnv_pipe.batch.run_model - INFO - Cluster 981 finished in 49.46 seconds. Status: SUCCESS