HDBSCAN TypeError when binning contigs

[pabloati]

Hi,

I have been trying to run LRBinner on a metagenomics dataset from ONT reads. I first run it just for the reads and it worked perfectly. However, when I try to bin the contigs created by metaFlye, I get the following error when the HDBSCAN is running:

2023-07-26 09:59:54,654 - INFO - Clustering using HDBSCAN running Traceback (most recent call last): File "/home/metac/bin/lrbinner", line 203, in main() File "/home/metac/bin/lrbinner", line 185, in main pipelines.run_contig_binning(args) File "/home/metac/Programs/LRBinner/mbcclr_utils/pipelines.py", line 239, in run_contig_binning cluster_utils.perform_contig_binning_HDBSCAN( File "/home/metac/Programs/LRBinner/mbcclr_utils/cluster_utils.py", line 494, in perform_contig_binning_HDBSCAN labels = HDBSCAN(min_cluster_size=250).fit_predict(latent) File "/home/metac/anaconda3/envs/snakemake/envs/lrbinner/lib/python3.10/site-packages/hdbscan/hdbscan_.py", line 1243, in fit_predict self.fit(X) File "/home/metac/anaconda3/envs/snakemake/envs/lrbinner/lib/python3.10/site-packages/hdbscan/hdbscan_.py", line 1205, in fit ) = hdbscan(clean_data, **kwargs) File "/home/metac/anaconda3/envs/snakemake/envs/lrbinner/lib/python3.10/site-packages/hdbscan/hdbscan_.py", line 884, in hdbscan tree_to_labels( File "/home/metac/anaconda3/envs/snakemake/envs/lrbinner/lib/python3.10/site-packages/hdbscan/hdbscan.py", line 80, in _tree_to_labels labels, probabilities, stabilities = get_clusters( File "hdbscan/_hdbscan_tree.pyx", line 659, in hdbscan._hdbscan_tree.get_clusters File "hdbscan/_hdbscan_tree.pyx", line 733, in hdbscan._hdbscan_tree.get_clusters TypeError: 'numpy.float64' object cannot be interpreted as an integer

Could you give me some insight on what may be happening?

Thank you in advance, Pablo