Hi!
I'm working on the alpha diversity analysis, the alpha-group significance worked fine (although it did´t use one of the categorical variables in my metadata sheet).
When running the alpha-correlation i get the error below.
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If 3 of my columns in my sample metadata are numerical, could it be that it´s treating them as discrete variables and that´s why it does´t run?
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Are spaces allowed when naming the sample metadata columns? Or any character restriction?
Thanks in advance
(qiime2-2017.2) MacBook-Pro-de-Malena-2:Secondtrial mae$ qiime diversity alpha-correlation --i-alpha-diversity cm48000/faith_pd_vector.qza --m-metadata-file sample-metadata.tsv --o-visualization cm48000/faith-pd-correlation.qzv --verbose
/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/numpy/lib/function_base.py:2569: RuntimeWarning: invalid value encountered in true_divide
c /= stddev[:, None]
/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/numpy/lib/function_base.py:2570: RuntimeWarning: invalid value encountered in true_divide
c /= stddev[None, :]
/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/scipy/stats/_distn_infrastructure.py:875: RuntimeWarning: invalid value encountered in greater
return (self.a < x) & (x < self.b)
/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/scipy/stats/_distn_infrastructure.py:875: RuntimeWarning: invalid value encountered in less
return (self.a < x) & (x < self.b)
/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/scipy/stats/_distn_infrastructure.py:1814: RuntimeWarning: invalid value encountered in less_equal
cond2 = cond0 & (x <= self.a)
Traceback (most recent call last):
File "/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/q2cli-2017.2.0-py3.5.egg/q2cli/commands.py", line 217, in __call__
results = action(**arguments)
File "<decorator-gen-174>", line 2, in alpha_correlation
File "/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/qiime2-2017.2.0-py3.5.egg/qiime2/sdk/action.py", line 171, in callable_wrapper
output_types, provenance)
File "/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/qiime2-2017.2.0-py3.5.egg/qiime2/sdk/action.py", line 305, in _callable_executor_
ret_val = callable(output_dir=temp_dir, **view_args)
File "/Users/mae/Desktop/Shell/ENTER/envs/qiime2-2017.2/lib/python3.5/site-packages/q2_diversity-2017.2.0-py3.5.egg/q2_diversity/_alpha/_visualizer.py", line 175, in alpha_correlation
with open(os.path.join(output_dir, filename), 'w') as fh:
FileNotFoundError: [Errno 2] No such file or directory: '/var/folders/n3/hytr03qx30v_r4kr_g2z6n840000gn/T/qiime2-temp-0z0zcdco/category-Batch%20Glycerol%20%28g/L%29.jsonp'
Plugin error from diversity:
[Errno 2] No such file or directory: '/var/folders/n3/hytr03qx30v_r4kr
_g2z6n840000gn/T/qiime2-temp-0z0zcdco/category-
Batch%20Glycerol%20%28g/L%29.jsonp'
See above for debug info.