Hi!
I wanted to ask for help with Galaxy module (Galaxy) of GraPhlAn. When trying to Annotate tree on a file (guide.txt) taken from here (graphlan · biobakery/biobakery Wiki · GitHub), the following error is presented.
Traceback (most recent call last):
File “/galaxy-central/tools/graphlan/graphlan_annotate.py”, line 56, in
ctree.annotate( args[‘annot’], args[‘outtree’] if args[‘outtree’] else args[‘intree’] ) # ,
File “/galaxy-central/tools/graphlan/src/graphlan_lib.py”, line 170, in annotate
cl = list(self.tree.find_clades( {“name”: clade[:-1]} ))
File “/galaxy_venv/local/lib/python2.7/site-packages/Bio/Phylo/BaseTree.py”, line 360, in match_attrs
found = elem.find_any(target, **kwargs)
File “/galaxy_venv/local/lib/python2.7/site-packages/Bio/Phylo/BaseTree.py”, line 296, in find_any
return next(hits)
File “/galaxy_venv/local/lib/python2.7/site-packages/Bio/Phylo/BaseTree.py”, line 140, in match
re.match(pattern + ‘$’, target))
File “/galaxy_venv/lib/python2.7/re.py”, line 137, in match
return _compile(pattern, flags).match(string)
File “/galaxy_venv/lib/python2.7/re.py”, line 244, in _compile
raise error, v # invalid expression
sre_constants.error: nothing to repeat
Thank you in advance!