Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/cd25ceab0480418b3bcf50cf1021e1/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/81bc1a8eb8ad0fb2aabf3ab5aa379b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/81bc1a8eb8ad0fb2aabf3ab5aa379b/.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-zqcnbbu0 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 19:48:57,517 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 19:48:58,730 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 19:48:58,956 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 19:49:00,460 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 19:49:00,560 - cnv_pipe.batch.run_model - INFO - Processing cluster 1248 with 177 probes
2026-06-04 19:49:01,077 - cnv_pipe.batch.run_model.cluster1248 - INFO - Child process started for cluster 1248 with 177 probes
2026-06-04 19:50:15,229 - cnv_pipe.batch.run_model.cluster1248 - INFO - Child process finished cluster 1248. Wrote cluster_1248_samples.csv and cluster_1248_params.csv
2026-06-04 19:50:15,231 - cnv_pipe.batch.run_model - INFO - Cluster 1248 finished in 74.67 seconds. Status: SUCCESS