Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/8ee81d6b6b4fcd312c228fa48d406e/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/24e96a927cbf41133fb0c0eb604fdf/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b7/24e96a927cbf41133fb0c0eb604fdf/.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-y_6r5k4j 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.
2026-06-04 17:00:37,246 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:00:38,155 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:00:38,330 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:00:39,488 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:00:39,564 - cnv_pipe.batch.run_model - INFO - Processing cluster 688 with 177 probes
2026-06-04 17:00:39,957 - cnv_pipe.batch.run_model.cluster688 - INFO - Child process started for cluster 688 with 177 probes
2026-06-04 17:01:33,707 - cnv_pipe.batch.run_model.cluster688 - INFO - Child process finished cluster 688. Wrote cluster_688_samples.csv and cluster_688_params.csv
2026-06-04 17:01:33,707 - cnv_pipe.batch.run_model - INFO - Cluster 688 finished in 54.14 seconds. Status: SUCCESS