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/76/68c06e724513a74fce3d4a8ca07f78/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/76/68c06e724513a74fce3d4a8ca07f78/.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-4ftxw6q1 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 22:23:27,416 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:28,324 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:28,504 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:29,519 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:29,696 - cnv_pipe.batch.run_model - INFO - Processing cluster 1553 with 174 probes
2026-06-08 22:23:30,077 - cnv_pipe.batch.run_model.cluster1553 - INFO - Child process started for cluster 1553 with 174 probes
2026-06-08 22:24:22,935 - cnv_pipe.batch.run_model.cluster1553 - INFO - Child process finished cluster 1553. Wrote cluster_1553_samples.csv and cluster_1553_params.csv
2026-06-08 22:24:22,938 - cnv_pipe.batch.run_model - INFO - Cluster 1553 finished in 53.24 seconds. Status: SUCCESS