Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/0736553abd3f1ae6189c25cf0a2077/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cf/e1499c3a956820b1ad145f6f85b723/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cf/e1499c3a956820b1ad145f6f85b723/.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-itcrkeuf 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.
2026-06-03 05:01:30,834 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:01:31,824 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:01:32,012 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:01:49,827 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:01:49,916 - cnv_pipe.batch.run_model - INFO - Processing cluster 55 with 200 probes
2026-06-03 05:01:50,446 - cnv_pipe.batch.run_model.cluster55 - INFO - Child process started for cluster 55 with 200 probes
2026-06-03 05:05:21,890 - cnv_pipe.batch.run_model.cluster55 - INFO - Child process finished cluster 55. Wrote cluster_55_samples.csv and cluster_55_params.csv
2026-06-03 05:05:21,893 - cnv_pipe.batch.run_model - INFO - Cluster 55 finished in 211.98 seconds. Status: SUCCESS