Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/85b140281e9b2950cd842c897b7042/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9c/c419fda359b872329ac09d9ee16b04/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9c/c419fda359b872329ac09d9ee16b04/.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-1c1ppg4u 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.
2026-06-02 18:37:54,088 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:54,885 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:55,051 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:38:09,596 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:38:09,675 - cnv_pipe.batch.run_model - INFO - Processing cluster 1004 with 142 probes
2026-06-02 18:38:10,095 - cnv_pipe.batch.run_model.cluster1004 - INFO - Child process started for cluster 1004 with 142 probes
2026-06-02 18:40:49,512 - cnv_pipe.batch.run_model.cluster1004 - INFO - Child process finished cluster 1004. Wrote cluster_1004_samples.csv and cluster_1004_params.csv
2026-06-02 18:40:49,514 - cnv_pipe.batch.run_model - INFO - Cluster 1004 finished in 159.84 seconds. Status: SUCCESS