Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/327f035bf8fc6fbcf2fa0d952a6c14/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/d40ebedc86d2c146905fe0cc4e8ec6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/d40ebedc86d2c146905fe0cc4e8ec6/.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-1_v5whkp 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.
2026-06-03 05:38:38,112 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:38:39,192 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:38:39,414 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:39:32,457 - cnv_pipe.batch.run_model - INFO - Loaded data with 182 samples
2026-06-03 05:39:32,614 - cnv_pipe.batch.run_model - INFO - Processing cluster 885 with 186 probes
2026-06-03 05:39:33,096 - cnv_pipe.batch.run_model.cluster885 - INFO - Child process started for cluster 885 with 186 probes
2026-06-03 05:45:37,599 - cnv_pipe.batch.run_model.cluster885 - INFO - Child process finished cluster 885. Wrote cluster_885_samples.csv and cluster_885_params.csv
2026-06-03 05:45:37,601 - cnv_pipe.batch.run_model - INFO - Cluster 885 finished in 364.99 seconds. Status: SUCCESS