Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/60/f9dff405351ae9980859be791ec4fd/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/60/f9dff405351ae9980859be791ec4fd/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/73bca1ba80c4b143f06a4c975cd378/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/60/f9dff405351ae9980859be791ec4fd/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/9b21f5e68745a900c7e0a275e877ce/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/9b21f5e68745a900c7e0a275e877ce/.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-q195tequ 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.
2026-05-28 00:00:51,874 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-28 00:00:52,730 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-28 00:00:52,908 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-28 00:00:53,901 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-28 00:00:54,055 - cnv_pipe.batch.run_model - INFO - Processing cluster 777 with 140 probes
2026-05-28 00:00:54,446 - cnv_pipe.batch.run_model.cluster777 - INFO - Child process started for cluster 777 with 140 probes
2026-05-28 00:01:36,696 - cnv_pipe.batch.run_model.cluster777 - INFO - Child process finished cluster 777. Wrote cluster_777_samples.csv and cluster_777_params.csv
2026-05-28 00:01:36,697 - cnv_pipe.batch.run_model - INFO - Cluster 777 finished in 42.64 seconds. Status: SUCCESS