Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/2bc6a550b9b7a6a7c04a8c46d11f24/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/83e563c36202ba5981304259ae26d8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/04/83e563c36202ba5981304259ae26d8/.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-3awta9x8 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.
2026-06-04 17:11:01,417 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:11:02,275 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:11:02,448 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:11:03,458 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:11:03,635 - cnv_pipe.batch.run_model - INFO - Processing cluster 79 with 186 probes
2026-06-04 17:11:04,004 - cnv_pipe.batch.run_model.cluster79 - INFO - Child process started for cluster 79 with 186 probes
2026-06-04 17:12:03,036 - cnv_pipe.batch.run_model.cluster79 - INFO - Child process finished cluster 79. Wrote cluster_79_samples.csv and cluster_79_params.csv
2026-06-04 17:12:03,037 - cnv_pipe.batch.run_model - INFO - Cluster 79 finished in 59.40 seconds. Status: SUCCESS