Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/5144ad9e68402ab9f76dba7152c49a/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/02bdfd0e7ec1daed7bd5172e13fd2f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/02bdfd0e7ec1daed7bd5172e13fd2f/.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-9_cehkid 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 04:44:04,331 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:44:05,121 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:44:05,288 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:44:20,845 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-03 04:44:20,922 - cnv_pipe.batch.run_model - INFO - Processing cluster 1129 with 135 probes
2026-06-03 04:44:21,300 - cnv_pipe.batch.run_model.cluster1129 - INFO - Child process started for cluster 1129 with 135 probes
2026-06-03 04:46:55,486 - cnv_pipe.batch.run_model.cluster1129 - INFO - Child process finished cluster 1129. Wrote cluster_1129_samples.csv and cluster_1129_params.csv
2026-06-03 04:46:55,488 - cnv_pipe.batch.run_model - INFO - Cluster 1129 finished in 154.57 seconds. Status: SUCCESS