Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/53d08abbe7f3c300c6e5e14d79dc78/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/cb2de6208776a35e41f12277ab5098/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/cb2de6208776a35e41f12277ab5098/.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-gfmrl9em 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 05:57:33,379 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:57:34,351 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:57:34,547 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:58:21,039 - cnv_pipe.batch.run_model - INFO - Loaded data with 180 samples
2026-06-03 05:58:21,139 - cnv_pipe.batch.run_model - INFO - Processing cluster 1007 with 198 probes
2026-06-03 05:58:21,608 - cnv_pipe.batch.run_model.cluster1007 - INFO - Child process started for cluster 1007 with 198 probes
2026-06-03 06:03:50,656 - cnv_pipe.batch.run_model.cluster1007 - INFO - Child process finished cluster 1007. Wrote cluster_1007_samples.csv and cluster_1007_params.csv
2026-06-03 06:03:50,659 - cnv_pipe.batch.run_model - INFO - Cluster 1007 finished in 329.52 seconds. Status: SUCCESS