Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/0beda2781c070bcd33e32f334984f5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/60bd63abdd8fae769cf821f3fe2a2f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/60bd63abdd8fae769cf821f3fe2a2f/.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-gfma246k 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 05:27:35,299 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:27:36,306 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:27:36,503 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:28:36,689 - cnv_pipe.batch.run_model - INFO - Loaded data with 236 samples
2026-06-03 05:28:36,891 - cnv_pipe.batch.run_model - INFO - Processing cluster 965 with 167 probes
2026-06-03 05:28:37,514 - cnv_pipe.batch.run_model.cluster965 - INFO - Child process started for cluster 965 with 167 probes
2026-06-03 05:35:10,316 - cnv_pipe.batch.run_model.cluster965 - INFO - Child process finished cluster 965. Wrote cluster_965_samples.csv and cluster_965_params.csv
2026-06-03 05:35:10,319 - cnv_pipe.batch.run_model - INFO - Cluster 965 finished in 393.43 seconds. Status: SUCCESS