Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0c/83a6eb5a9efd76c3cc3115568a186b/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/63bbfcf1adfa3c7bd4ac717c9f5c0a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/63bbfcf1adfa3c7bd4ac717c9f5c0a/.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-tqhxx6vl 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 06:08:53,345 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:08:54,243 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:08:54,415 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:09:41,593 - cnv_pipe.batch.run_model - INFO - Loaded data with 188 samples
2026-06-03 06:09:41,835 - cnv_pipe.batch.run_model - INFO - Processing cluster 621 with 199 probes
2026-06-03 06:09:42,270 - cnv_pipe.batch.run_model.cluster621 - INFO - Child process started for cluster 621 with 199 probes
2026-06-03 06:14:59,769 - cnv_pipe.batch.run_model.cluster621 - INFO - Child process finished cluster 621. Wrote cluster_621_samples.csv and cluster_621_params.csv
2026-06-03 06:14:59,772 - cnv_pipe.batch.run_model - INFO - Cluster 621 finished in 317.94 seconds. Status: SUCCESS