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/28/2d4f9a02982eacf5667e3a85187d49/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/28/2d4f9a02982eacf5667e3a85187d49/.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-0yr_79hk 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 22:23:56,636 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:57,431 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:57,601 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:58,594 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:58,787 - cnv_pipe.batch.run_model - INFO - Processing cluster 1634 with 194 probes
2026-06-08 22:23:59,160 - cnv_pipe.batch.run_model.cluster1634 - INFO - Child process started for cluster 1634 with 194 probes
2026-06-08 22:24:57,714 - cnv_pipe.batch.run_model.cluster1634 - INFO - Child process finished cluster 1634. Wrote cluster_1634_samples.csv and cluster_1634_params.csv
2026-06-08 22:24:57,716 - cnv_pipe.batch.run_model - INFO - Cluster 1634 finished in 58.93 seconds. Status: SUCCESS