Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/8ee81d6b6b4fcd312c228fa48d406e/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/79/4f8b3bf40db2aefc26d606719a4c5f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/79/4f8b3bf40db2aefc26d606719a4c5f/.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-1f0q5lup 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 17:00:38,570 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:00:39,361 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:00:39,532 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:00:40,471 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:00:40,650 - cnv_pipe.batch.run_model - INFO - Processing cluster 1211 with 193 probes
2026-06-04 17:00:41,025 - cnv_pipe.batch.run_model.cluster1211 - INFO - Child process started for cluster 1211 with 193 probes
2026-06-04 17:01:37,251 - cnv_pipe.batch.run_model.cluster1211 - INFO - Child process finished cluster 1211. Wrote cluster_1211_samples.csv and cluster_1211_params.csv
2026-06-04 17:01:37,252 - cnv_pipe.batch.run_model - INFO - Cluster 1211 finished in 56.60 seconds. Status: SUCCESS