Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4d/86887286c60e0ec78f76ef509ef74d/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3b/5fb84b9b25028695977080974e1a0c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/cb1d61a62a95d0c158d23d7238d9a8/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/cb1d61a62a95d0c158d23d7238d9a8/.command.sh
==> 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-5ht4oeyx 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.
2026-06-03 05:06:30,726 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:06:32,313 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:06:32,609 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:06:55,945 - cnv_pipe.batch.run_model - INFO - Loaded data with 68 samples
2026-06-03 05:06:56,205 - cnv_pipe.batch.run_model - INFO - Processing cluster 99 with 200 probes
2026-06-03 05:06:56,781 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process started for cluster 99 with 200 probes
2026-06-03 05:11:04,007 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process finished cluster 99. Wrote cluster_99_samples.csv and cluster_99_params.csv
2026-06-03 05:11:04,010 - cnv_pipe.batch.run_model - INFO - Cluster 99 finished in 247.80 seconds. Status: SUCCESS