Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0abbc905604638cc0f1c9bc2c6f05f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/409f3ce2f7a62b51f64f0c955975ef/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/409f3ce2f7a62b51f64f0c955975ef/.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-qaulc3kk 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 05:03:37,039 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:03:38,062 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:03:38,260 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:03:56,799 - cnv_pipe.batch.run_model - INFO - Loaded data with 66 samples
2026-06-03 05:03:57,086 - cnv_pipe.batch.run_model - INFO - Processing cluster 971 with 188 probes
2026-06-03 05:03:57,588 - cnv_pipe.batch.run_model.cluster971 - INFO - Child process started for cluster 971 with 188 probes
2026-06-03 05:07:18,047 - cnv_pipe.batch.run_model.cluster971 - INFO - Child process finished cluster 971. Wrote cluster_971_samples.csv and cluster_971_params.csv
2026-06-03 05:07:18,050 - cnv_pipe.batch.run_model - INFO - Cluster 971 finished in 200.96 seconds. Status: SUCCESS