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/78/b7206d94d7395127c70eabac39a5ff/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/78/b7206d94d7395127c70eabac39a5ff/.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-h7z_lr8c 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 19:08:43,884 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 19:08:44,739 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 19:08:44,921 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 19:09:08,954 - cnv_pipe.batch.run_model - INFO - Loaded data with 93 samples
2026-06-02 19:09:09,190 - cnv_pipe.batch.run_model - INFO - Processing cluster 941 with 188 probes
2026-06-02 19:09:09,626 - cnv_pipe.batch.run_model.cluster941 - INFO - Child process started for cluster 941 with 188 probes
2026-06-02 19:12:38,906 - cnv_pipe.batch.run_model.cluster941 - INFO - Child process finished cluster 941. Wrote cluster_941_samples.csv and cluster_941_params.csv
2026-06-02 19:12:38,908 - cnv_pipe.batch.run_model - INFO - Cluster 941 finished in 209.72 seconds. Status: SUCCESS