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/f4/03d9bd41739068b76caeb84b6843ad/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/de68df05d9cd130ae57e0677cc5f8f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1d/de68df05d9cd130ae57e0677cc5f8f/.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-_prh2v7d 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 05:06:25,742 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:06:26,775 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:06:26,977 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:06:46,208 - cnv_pipe.batch.run_model - INFO - Loaded data with 66 samples
2026-06-03 05:06:46,488 - cnv_pipe.batch.run_model - INFO - Processing cluster 960 with 172 probes
2026-06-03 05:06:46,995 - cnv_pipe.batch.run_model.cluster960 - INFO - Child process started for cluster 960 with 172 probes
2026-06-03 05:10:34,298 - cnv_pipe.batch.run_model.cluster960 - INFO - Child process finished cluster 960. Wrote cluster_960_samples.csv and cluster_960_params.csv
2026-06-03 05:10:34,302 - cnv_pipe.batch.run_model - INFO - Cluster 960 finished in 227.81 seconds. Status: SUCCESS