Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/75aeaf41b6380bc4dbc477aee55d52/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/21e5ddb1ddc8ed33325d7ca1938db1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/21e5ddb1ddc8ed33325d7ca1938db1/.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-q2p4or2a 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.
2026-06-02 19:08:56,084 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 19:08:56,929 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 19:08:57,101 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 19:09:20,904 - cnv_pipe.batch.run_model - INFO - Loaded data with 93 samples
2026-06-02 19:09:21,115 - cnv_pipe.batch.run_model - INFO - Processing cluster 1013 with 175 probes
2026-06-02 19:09:21,494 - cnv_pipe.batch.run_model.cluster1013 - INFO - Child process started for cluster 1013 with 175 probes
2026-06-02 19:12:41,809 - cnv_pipe.batch.run_model.cluster1013 - INFO - Child process finished cluster 1013. Wrote cluster_1013_samples.csv and cluster_1013_params.csv
2026-06-02 19:12:41,810 - cnv_pipe.batch.run_model - INFO - Cluster 1013 finished in 200.70 seconds. Status: SUCCESS