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/67/4d2dd757fcacff17218aee22ca99ca/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/4d2dd757fcacff17218aee22ca99ca/.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-0x9dzp_2 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 19:47:13,948 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 19:47:15,129 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 19:47:15,384 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 19:47:16,831 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 19:47:17,144 - cnv_pipe.batch.run_model - INFO - Processing cluster 677 with 196 probes
2026-06-04 19:47:17,727 - cnv_pipe.batch.run_model.cluster677 - INFO - Child process started for cluster 677 with 196 probes
2026-06-04 19:48:44,619 - cnv_pipe.batch.run_model.cluster677 - INFO - Child process finished cluster 677. Wrote cluster_677_samples.csv and cluster_677_params.csv
2026-06-04 19:48:44,622 - cnv_pipe.batch.run_model - INFO - Cluster 677 finished in 87.48 seconds. Status: SUCCESS