m6anet inference pooling replicates

[sunsetyerin]

How many replicates m6anet can handle? I tried 3 and 4 samples and it shows the following error message. But when I tried 2 samples, it worked perfectly fine.

Traceback (most recent call last): File "/miniconda3/envs/m6anet/bin/m6anet", line 8, in <module> sys.exit(main()) File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/m6anet/__init__.py", line 30, in main args.func(args) File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/m6anet/scripts/inference.py", line 88, in main ds = NanopolishReplicateDS(input_dir, DEFAULT_MIN_READS, args.norm_path, mode='Inference') File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/m6anet/utils/data_utils.py", line 337, in __init__ super().__init__(root_dir, min_reads, norm_path, File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/m6anet/utils/data_utils.py", line 77, in __init__ self.initialize_data_info() File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/m6anet/utils/data_utils.py", line 357, in initialize_data_info read_info = pd.concat(all_read_info, axis=1) File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/pandas/core/reshape/concat.py", line 258, in concat return op.get_result() File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/pandas/core/reshape/concat.py", line 468, in get_result indexers[ax] = obj_labels.reindex(new_labels)[1] File "/miniconda3/envs/m6anet/lib/python3.8/site-packages/pandas/core/indexes/multi.py", line 2500, in reindex raise ValueError("cannot handle a non-unique multi-index!") ValueError: cannot handle a non-unique multi-index!

[chrishendra93]

hi @sunsetyerin, thanks for reporting this. m6Anet, by right, should assign unique sample names to each one of those replicates but this does not seem to be the case from the error message. Can you tell me what are the directories' name in this case and the specific command that you ran? Also can you try renaming the folders of each replicate and try again?

[sunsetyerin]

thanks it worked out