Hi Johannes,
what is the nature of the problem? It doesn't behave as it is supposed
to? Or you're getting an error? If so could you paste it?
I tried to run
scheme_router.py
I'm getting the follow error attached.
Nil
On 4/16/19 11:35 AM, Johannes Castner wrote:
Dear all,
A couple of months back I’ve spent some significant time working on Python and
Scheme code that imported the opencog system and the AtomSpace and then
imported, merged and reasoned on a collection of ontologies in various formats
(owl, obo and JSON-LD) all in anticipation of then running the pattern-miner to
discover important questions that aren’t explicitly answered in any of those
ontologies. I did all of that in order to complete my dissertation and I have
to urgently now make all of this code work; but for some reason, as one bug was
fixed, all of my code subsequently stopped working and we (I’m working with a
friend as we’re seeking to use all of this code in a bigger project) and we
were unable until now to make it work! Here’s my repo that I need to make work;
it’s a bunch of Python and scheme code I’ve written against the Opencog API:
https://github.com/CollectiWise/collectiwise
In particular, I’m trying to run this file (which imports some of the others):
https://github.com/CollectiWise/collectiwise/blob/master/python/scheme_router.py
please someone help us to get it running again; I’m desperate as this code is
necessary for 1) a product we’re trying to get to market and 2) my last paper
for my dissertation that I need to defend in two months.
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nilg@sofia-desktop:~/Sources/collectiwise/python$ trash opencog.log; python3
scheme_router.py
True
Traceback (most recent call last):
File "/usr/local/lib/python3.6/dist-packages/pronto/parser/obo.py", line 234,
in _classify
s = _cached_synonyms[obo_header]
KeyError: '"all" RELATED synonym []'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/local/lib/python3.6/dist-packages/pronto/synonym.py", line 115, in
__init__
self.syn_type = SynonymType._instances[syn_type]
KeyError: 'synonym'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "scheme_router.py", line 149, in <module>
main()
File "scheme_router.py", line 126, in main
envo =
pronto.Ontology('https://raw.githubusercontent.com/EnvironmentOntology/envo/master/envo.obo')
File "/usr/local/lib/python3.6/dist-packages/pronto/ontology.py", line 109,
in __init__
self.parse(handle, parser)
File "/usr/local/lib/python3.6/dist-packages/pronto/ontology.py", line 224,
in parse
self.meta, self.terms, self.imports, self.typedefs = p.parse(stream)
File "/usr/local/lib/python3.6/dist-packages/pronto/parser/obo.py", line 70,
in parse
terms, typedefs = cls._classify(_rawtypedef, _rawterms)
File "/usr/local/lib/python3.6/dist-packages/pronto/parser/obo.py", line 236,
in _classify
s = Synonym.from_obo(obo_header, scope)
File "/usr/local/lib/python3.6/dist-packages/pronto/synonym.py", line 139, in
from_obo
return cls(**groupdict)
File "/usr/local/lib/python3.6/dist-packages/pronto/synonym.py", line 118, in
__init__
raise ValueError("Undefined synonym type: {}".format(syn_type))
ValueError: Undefined synonym type: synonym
