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/f6/c4911bc2dd2d7bd48f19479b10f175/counts_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/bb/c40fa5df0d78249fb902d39216259e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/c40fa5df0d78249fb902d39216259e/.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-g_9s5qet 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 19:09:05,127 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 19:09:06,035 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 19:09:06,219 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 19:09:28,984 - cnv_pipe.batch.run_model - INFO - Loaded data with 93 samples
2026-06-02 19:09:29,201 - cnv_pipe.batch.run_model - INFO - Processing cluster 1052 with 186 probes
2026-06-02 19:09:29,598 - cnv_pipe.batch.run_model.cluster1052 - INFO - Child process started for cluster 1052 with 186 probes
2026-06-02 19:12:55,010 - cnv_pipe.batch.run_model.cluster1052 - INFO - Child process finished cluster 1052. Wrote cluster_1052_samples.csv and cluster_1052_params.csv
2026-06-02 19:12:55,012 - cnv_pipe.batch.run_model - INFO - Cluster 1052 finished in 205.81 seconds. Status: SUCCESS