does not support option: 'parallel'"

[qihongl]

Hi, thanks for the exciting work! I am playing with your algorithm and I got the following error message, when I was running your demo with digits.data. Do you have a sense of what is going on here?

---

KeyError Traceback (most recent call last)
/Users/Qihong/anaconda/envs/brainiak/lib/python3.6/site-packages/numba/targets/options.py in from_dict(self, dic)
17 try:
---> 18 ctor = self.OPTIONS[k]
19 except KeyError:

KeyError: 'parallel'

During handling of the above exception, another exception occurred:

KeyError Traceback (most recent call last)
in ()
6 embedding = umap.UMAP(n_neighbors=5,
7 min_dist=0.3,
----> 8 metric='correlation').fit_transform(digits.data)

/Users/Qihong/Dropbox/github/umap/umap/umap_.py in fit_transform(self, X, y)
790 Embedding of the training data in low-dimensional space.
791 """
--> 792 self.fit(X)
793 return self.embedding_

/Users/Qihong/Dropbox/github/umap/umap/umap_.py in fit(self, X, y)
757
758 graph = fuzzy_simplicial_set(X, self.n_neighbors,
--> 759 self._metric, self.metric_kwds)
760
761 if self.n_edge_samples is None:

/Users/Qihong/anaconda/envs/brainiak/lib/python3.6/site-packages/numba/dispatcher.py in _compile_for_args(self, *args, **kws)
305 argtypes.append(self.typeof_pyval(a))
306 try:
--> 307 return self.compile(tuple(argtypes))
308 except errors.TypingError as e:
309 # Intercept typing error that may be due to an argument

/Users/Qihong/anaconda/envs/brainiak/lib/python3.6/site-packages/numba/dispatcher.py in compile(self, sig)
577
578 self._cache_misses[sig] += 1
--> 579 cres = self._compiler.compile(args, return_type)
580 self.add_overload(cres)
581 self._cache.save_overload(sig, cres)

/Users/Qihong/anaconda/envs/brainiak/lib/python3.6/site-packages/numba/dispatcher.py in compile(self, args, return_type)
70 def compile(self, args, return_type):
71 flags = compiler.Flags()
---> 72 self.targetdescr.options.parse_as_flags(flags, self.targetoptions)
73 flags = self._customize_flags(flags)
74

/Users/Qihong/anaconda/envs/brainiak/lib/python3.6/site-packages/numba/targets/options.py in parse_as_flags(cls, flags, options)
26 def parse_as_flags(cls, flags, options):
27 opt = cls()
---> 28 opt.from_dict(options)
29 opt.set_flags(flags)
30 return flags

/Users/Qihong/anaconda/envs/brainiak/lib/python3.6/site-packages/numba/targets/options.py in from_dict(self, dic)
19 except KeyError:
20 fmt = "%r does not support option: '%s'"
---> 21 raise KeyError(fmt % (self.class, k))
22 else:
23 self.values[k] = ctor(v)

KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'parallel'"

[lmcinnes]

The current code targets a fairly new version of numba. You need numba version 0.34 or greater to have it work. In practice I am not sure the parallel pragma adds much performance, so an alternative is to simply remove it from the source in umap/umap_.py wherever it occurs.

[qihongl]

Ah I see! Thanks a lot!

[sleighsoft]

Looks resolved. Please create a new issue if problems persist.