Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/cd25ceab0480418b3bcf50cf1021e1/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/2b2dd12eb99737c6948847e8e91ddc/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/2b2dd12eb99737c6948847e8e91ddc/.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-6sqnq22e 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 19:45:18,915 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 19:45:19,775 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 19:45:19,948 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 19:45:20,896 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 19:45:21,069 - cnv_pipe.batch.run_model - INFO - Processing cluster 75 with 200 probes
2026-06-04 19:45:21,451 - cnv_pipe.batch.run_model.cluster75 - INFO - Child process started for cluster 75 with 200 probes
2026-06-04 19:46:23,203 - cnv_pipe.batch.run_model.cluster75 - INFO - Child process finished cluster 75. Wrote cluster_75_samples.csv and cluster_75_params.csv
2026-06-04 19:46:23,204 - cnv_pipe.batch.run_model - INFO - Cluster 75 finished in 62.13 seconds. Status: SUCCESS