Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/1f8d437761990ed890e1456d2296f8/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/ab774a4dd38ea6198e35b4888cf096/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/ab774a4dd38ea6198e35b4888cf096/.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-nsadepdw 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.
2026-06-08 17:41:23,572 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 17:41:24,445 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 17:41:24,620 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 17:41:25,730 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 17:41:25,801 - cnv_pipe.batch.run_model - INFO - Processing cluster 1109 with 146 probes
2026-06-08 17:41:26,174 - cnv_pipe.batch.run_model.cluster1109 - INFO - Child process started for cluster 1109 with 146 probes
2026-06-08 17:42:14,238 - cnv_pipe.batch.run_model.cluster1109 - INFO - Child process finished cluster 1109. Wrote cluster_1109_samples.csv and cluster_1109_params.csv
2026-06-08 17:42:14,240 - cnv_pipe.batch.run_model - INFO - Cluster 1109 finished in 48.44 seconds. Status: SUCCESS