Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/a824105a000bd4102efd8aadd86274/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/a824105a000bd4102efd8aadd86274/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9c/b41f3d5e56a31b4a017a00332debe8/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/a824105a000bd4102efd8aadd86274/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/de67df37a7e44ff479363218da1206/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/de67df37a7e44ff479363218da1206/.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-rzx0x163 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 05:32:08,017 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:32:09,011 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:32:09,203 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:33:04,865 - cnv_pipe.batch.run_model - INFO - Loaded data with 190 samples
2026-06-03 05:33:05,216 - cnv_pipe.batch.run_model - INFO - Processing cluster 970 with 171 probes
2026-06-03 05:33:05,702 - cnv_pipe.batch.run_model.cluster970 - INFO - Child process started for cluster 970 with 171 probes
2026-06-03 05:38:33,660 - cnv_pipe.batch.run_model.cluster970 - INFO - Child process finished cluster 970. Wrote cluster_970_samples.csv and cluster_970_params.csv
2026-06-03 05:38:33,662 - cnv_pipe.batch.run_model - INFO - Cluster 970 finished in 328.45 seconds. Status: SUCCESS