Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/d418a9ee96101ea3196d311c3a7ba0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/5850405aeffc9e2713b450120eaa3b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/5850405aeffc9e2713b450120eaa3b/.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-itvxjt1g 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.
2026-06-08 22:25:37,228 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:25:38,061 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:25:38,233 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:25:39,194 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:25:39,359 - cnv_pipe.batch.run_model - INFO - Processing cluster 1561 with 127 probes
2026-06-08 22:25:39,729 - cnv_pipe.batch.run_model.cluster1561 - INFO - Child process started for cluster 1561 with 127 probes
2026-06-08 22:26:18,747 - cnv_pipe.batch.run_model.cluster1561 - INFO - Child process finished cluster 1561. Wrote cluster_1561_samples.csv and cluster_1561_params.csv
2026-06-08 22:26:18,748 - cnv_pipe.batch.run_model - INFO - Cluster 1561 finished in 39.39 seconds. Status: SUCCESS