Hi QIIME2 team,
The qiime diversity beta-group-significance is currently failing. I ran this notebook a few years back and was trying to reproduce the analysis with the same data inputs, but now I am not able to get an output for this code. I am happy to provide the data inputs as well. I found forum discussions about beta-group-significance but have not found this error that I am encountering described on the forum.
%%bash
source activate qiime2-2020.2
qiime diversity beta-group-significance
--i-distance-matrix Normalised_TIC_20231218_1220_BC.qza
--m-metadata-file StromatoliteTissue_Pos_metadata_022420_submergedcolumn_1220.txt
--m-metadata-column ATTRIBUTE_submerged
--o-visualization Normalised_TIC_20231218_BC-significance.qzv
I am getting the following error:
Plugin error from diversity:
Value must be a nonnegative integer or None
Debug info has been saved to /var/folders/mk/s89dd3_s1g3df6ctgmxs75r80000gn/T/qiime2-q2cli-err-ywvkmxeu.log
Here is the debug info:
Traceback (most recent call last):
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/q2cli/commands.py", line 329, in call
results = action(**arguments)
File "", line 2, in beta_group_significance
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/qiime2/sdk/action.py", line 244, in bound_callable
outputs = self.callable_executor(scope, callable_args,
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/qiime2/sdk/action.py", line 452, in callable_executor
ret_val = self._callable(output_dir=temp_dir, **view_args)
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/q2_diversity/_beta/_visualizer.py", line 203, in beta_group_significance
result_html = q2templates.df_to_html(result.to_frame())
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/q2templates/util.py", line 45, in df_to_html
with pd.option_context('display.max_colwidth', -1):
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/pandas/_config/config.py", line 444, in enter
_set_option(pat, val, silent=True)
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/pandas/_config/config.py", line 160, in _set_option
o.validator(v)
File "/opt/anaconda3/envs/qiime2-2021.4/lib/python3.8/site-packages/pandas/_config/config.py", line 882, in is_nonnegative_int
raise ValueError(msg)
ValueError: Value must be a nonnegative integer or None