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/b4/9ed982020895d476172f9849454703/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/9ed982020895d476172f9849454703/.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-tc7lxane 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 16:59:52,546 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 16:59:53,407 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 16:59:53,579 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 16:59:54,660 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 16:59:54,728 - cnv_pipe.batch.run_model - INFO - Processing cluster 888 with 180 probes
2026-06-04 16:59:55,105 - cnv_pipe.batch.run_model.cluster888 - INFO - Child process started for cluster 888 with 180 probes
2026-06-04 17:00:50,943 - cnv_pipe.batch.run_model.cluster888 - INFO - Child process finished cluster 888. Wrote cluster_888_samples.csv and cluster_888_params.csv
2026-06-04 17:00:50,945 - cnv_pipe.batch.run_model - INFO - Cluster 888 finished in 56.22 seconds. Status: SUCCESS