add new fields to dbnsfp mapping

biothings · Dec 2, 2019 · 2317dc2 · 2317dc2
1 parent 013b292
commit 2317dc2
Showing 1 changed file with 21 additions and 2 deletions.
diff --git a/src/hub/dataload/sources/dbnsfp/dbnsfp_upload.py b/src/hub/dataload/sources/dbnsfp/dbnsfp_upload.py
@@ -724,7 +724,7 @@ def get_mapping(klass):
                     },
                     "clinvar": {
                         "properties": {
-                            "rs": {
+                            "clinvar_id": {
                                 "type": "integer",
                                 "copy_to": ["all"]
                             },
@@ -744,6 +744,17 @@ def get_mapping(klass):
                                 "type": "keyword",
                                 "normalizer": "keyword_lowercase_normalizer"
                             },
+                            "omim": {
+                                "type": "integer"
+                            },
+                            "medgen": {
+                                "type": "keyword",
+                                "normalizer": "keyword_lowercase_normalizer"
+                            },
+                            "orphanet": {
+                                "type": "keyword",
+                                "normalizer": "keyword_lowercase_normalizer"
+                            },
                             "var_source": {
                                 "type": "keyword",
                                 "normalizer": "keyword_lowercase_normalizer"
@@ -1005,7 +1016,15 @@ def get_mapping(klass):
                     "geuvadis_eqtl_target_gene": {
                         "type": "keyword",
                         "normalizer": "keyword_lowercase_normalizer"
-                    }
+                    },
+                    "hgvsc": {
+                        "type": "keyword",
+                        "normalizer": "keyword_lowercase_normalizer"
+                    },
+                    "hgvsp": {
+                        "type": "keyword",
+                        "normalizer": "keyword_lowercase_normalizer"
+                    } 
                 }
             }
         }