Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/0abbc905604638cc0f1c9bc2c6f05f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/03d9bd41739068b76caeb84b6843ad/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/01db53d2326b62c11c2ad86a42b24d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/01db53d2326b62c11c2ad86a42b24d/.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-pgjmtxz2 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 05:03:46,247 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:03:47,215 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:03:47,413 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:04:05,347 - cnv_pipe.batch.run_model - INFO - Loaded data with 66 samples
2026-06-03 05:04:05,464 - cnv_pipe.batch.run_model - INFO - Processing cluster 1019 with 112 probes
2026-06-03 05:04:06,153 - cnv_pipe.batch.run_model.cluster1019 - INFO - Child process started for cluster 1019 with 112 probes
2026-06-03 05:06:20,901 - cnv_pipe.batch.run_model.cluster1019 - INFO - Child process finished cluster 1019. Wrote cluster_1019_samples.csv and cluster_1019_params.csv
2026-06-03 05:06:20,903 - cnv_pipe.batch.run_model - INFO - Cluster 1019 finished in 135.44 seconds. Status: SUCCESS