Merge pull request #167 from biolink/go-site-617

Use correct go_context jsonld file in gaf->go-cam
biolink · Apr 21, 2018 · 3e6df08 · 3e6df08
2 parents 96aad76 + 7a4140a
commit 3e6df08
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Showing 2 changed files with 5 additions and 2 deletions.
diff --git a/notebooks/Phenotype_Enrichment.ipynb b/notebooks/Phenotype_Enrichment.ipynb
@@ -589,7 +589,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.5.2"
+   "version": "3.6.2"
   }
  },
  "nbformat": 4,

diff --git a/ontobio/rdfgen/assoc_rdfgen.py b/ontobio/rdfgen/assoc_rdfgen.py
@@ -20,7 +20,10 @@
 evt = Evidence()
 upt = UpperLevel()
 
-prefix_context = {key: value for context in curie_util.default_curie_maps + [curie_util.read_biocontext("minerva_context")] for key, value in context.items()}
+# Pull the go_context file from prefixcommons.
+# NOTE: this is a temporary measure. We will build the go json ld context as part of the pipeline in future
+# See https://github.com/geneontology/go-site/issues/617
+prefix_context = {key: value for context in curie_util.default_curie_maps + [curie_util.read_biocontext("go_context")] for key, value in context.items()}
 
 HAS_SUPPORTING_REFERENCE = URIRef(expand_uri(evt.has_supporting_reference, cmaps=[evt._prefixmap]))