Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/2d50f455cabdde1da69d368cfa42c8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/2d50f455cabdde1da69d368cfa42c8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3c/ff2366509e976f294111f7718a1f5b/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/2d50f455cabdde1da69d368cfa42c8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/cca0e83ca441510abb180f17fe5088/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/cca0e83ca441510abb180f17fe5088/.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-fica844x 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.
2026-06-05 23:46:26,942 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 23:46:27,833 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 23:46:28,047 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 23:47:16,041 - cnv_pipe.batch.run_model - INFO - Loaded data with 185 samples
2026-06-05 23:47:16,283 - cnv_pipe.batch.run_model - INFO - Processing cluster 1004 with 142 probes
2026-06-05 23:47:16,684 - cnv_pipe.batch.run_model.cluster1004 - INFO - Child process started for cluster 1004 with 142 probes
2026-06-05 23:51:52,730 - cnv_pipe.batch.run_model.cluster1004 - INFO - Child process finished cluster 1004. Wrote cluster_1004_samples.csv and cluster_1004_params.csv
2026-06-05 23:51:52,733 - cnv_pipe.batch.run_model - INFO - Cluster 1004 finished in 276.45 seconds. Status: SUCCESS