Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/d1e96bfdd243f35cecbdbd35c5ccc5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/02be44bdb567d668b68930eb114a44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/89/36cbe54eb7b104b4cb955f631ed325/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/89/36cbe54eb7b104b4cb955f631ed325/.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-l5jb7xtc 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.
2026-06-08 22:22:28,624 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:22:29,486 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:22:29,658 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:22:30,707 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:22:30,886 - cnv_pipe.batch.run_model - INFO - Processing cluster 1200 with 199 probes
2026-06-08 22:22:31,264 - cnv_pipe.batch.run_model.cluster1200 - INFO - Child process started for cluster 1200 with 199 probes
2026-06-08 22:23:31,684 - cnv_pipe.batch.run_model.cluster1200 - INFO - Child process finished cluster 1200. Wrote cluster_1200_samples.csv and cluster_1200_params.csv
2026-06-08 22:23:31,687 - cnv_pipe.batch.run_model - INFO - Cluster 1200 finished in 60.80 seconds. Status: SUCCESS