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/c4/d5951915781474a3f80c50b7c27231/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c4/d5951915781474a3f80c50b7c27231/.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-u8put_ya 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 17:00:35,983 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:00:36,907 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:00:37,083 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:00:38,091 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:00:38,270 - cnv_pipe.batch.run_model - INFO - Processing cluster 866 with 180 probes
2026-06-04 17:00:38,640 - cnv_pipe.batch.run_model.cluster866 - INFO - Child process started for cluster 866 with 180 probes
2026-06-04 17:01:32,781 - cnv_pipe.batch.run_model.cluster866 - INFO - Child process finished cluster 866. Wrote cluster_866_samples.csv and cluster_866_params.csv
2026-06-04 17:01:32,783 - cnv_pipe.batch.run_model - INFO - Cluster 866 finished in 54.51 seconds. Status: SUCCESS