Merge branch 'main' of https://github.com/biothings/bte-server into dev

biothings · Nov 4, 2024 · 6071f3c · 6071f3c
2 parents 4953d42 + ec5841d
commit 6071f3c
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Showing 2 changed files with 30 additions and 11 deletions.
diff --git a/config/api_list.yaml b/config/api_list.yaml
@@ -102,9 +102,36 @@ include:
     name: Text Mining Targeted Association API
   # TRAPI (Translator standard) APIs: Automat
   # not accessible by team or api-specific endpoints
-  # using robokop to access all automat resources at once
-  - id: 4f9c8853b721ef1f14ecee6d92fc19b5
-    name: Automat-robokop(Trapi v1.5.0)
+  # Notes: We don't ingest the following:
+  # - Automat-robokop: seems to repeat a lot of data that is in the other APIs
+  - id: f82c01b15c46e024212c1a3271aaef0b
+    name: Automat-ctd(Trapi v1.5.0)
+  - id: 673b9fc76973dfa5fe3ed151fdbfc807
+    name: Automat-drug-central(Trapi v1.5.0)
+  - id: eef72049e4e01c020b7799f711e0e65b
+    name: Automat-gtex(Trapi v1.5.0)
+  - id: 759df287a21c30cd514df323be02a84b
+    name: Automat-gtopdb(Trapi v1.5.0)
+  - id: 349fed5531c094c33f10c071efe9d0de
+    name: Automat-gwas-catalog(Trapi v1.5.0)
+  - id: a5fe24f987331b58191e67598118f369
+    name: Automat-hetionet(Trapi v1.5.0)
+  - id: 8671309d2b94e413a4c1f9a9f82e4660
+    name: Automat-hgnc(Trapi v1.5.0)
+  - id: 0a1c0f46f4950b82b1aa7dad27aad10a
+    name: Automat-hmdb(Trapi v1.5.0)
+  - id: cb7a43d444cb3dcbe8e3c78d314334cf
+    name: Automat-human-goa(Trapi v1.5.0)
+  - id: c64d583402f21cc85810d33befe49c86
+    name: Automat-icees-kg(Trapi v1.5.0)
+  - id: b4023595664163e0aec5e825da150e16
+    name: Automat-intact(Trapi v1.5.0)
+  - id: 3f78d3fb8a7a577fbc7cc0a913ac3fc5
+    name: Automat-panther(Trapi v1.5.0)
+  - id: 1f057c53d42694686369f0e542f965c6
+    name: Automat-pharos(Trapi v1.5.0)
+  - id: 2aca41fc6c3dc426ec6583d42603be02
+    name: Automat-viral-proteome(Trapi v1.5.0)
   # TRAPI (Translator standard) APIs: COHD
   # not accessible by team or api-specific endpoints
   # notes on COHD:
@@ -118,18 +145,11 @@ include:
   # not accessible by team or api-specific endpoints
   - id: 412af63e15b73e5a30778aac84ce313f
     name: Connections Hypothesis Provider API
-  # TRAPI (Translator standard) APIs: Molecular Data Provider
-  # not accessible by team or api-specific endpoints
-  - id: 1901bab8d33bb70b124f400ec1cfdba3
-    name: MolePro
   # TRAPI (Translator standard) APIs: Multiomics (made with RTX team Plover)
   # not accessible by team or api-specific endpoints
   - id: e51073371d7049b9643e1edbdd61bcbd
     name: Clinical Trials KP - TRAPI 1.5.0
     includeFlipped: true
-  - id: edc04feaf16c12424737988ce2e90d60
-    name: Drug Approvals KP - TRAPI 1.5.0
-    includeFlipped: true
   - id: a8be4ea3fe8fa80a952ead0b3c5e4bc1
     name: Microbiome KP - TRAPI 1.5.0
     includeFlipped: true

diff --git a/config/smartapi_overrides.yaml b/config/smartapi_overrides.yaml
@@ -2,7 +2,6 @@
 config:
   only_overrides: false
 apis: {
-  "1d288b3a3caf75d541ffaae3aab386c8": "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/refs/heads/semmeddb_publication_refactor/semmeddb/smartapi.yaml",
   "8f08d1446e0bb9c2b323713ce83e2bd3": "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/refs/heads/remove-clinical-trials/mychem.info/openapi_full.yml",
   "1138c3297e8e403b6ac10cff5609b319": "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/refs/heads/remove-clinical-trials/repodb/smartapi.yaml",
   "edeb26858bd27d0322af93e7a9e08761": "https://raw.githubusercontent.com/NCATS-Tangerine/translator-api-registry/refs/heads/add-pfocr-IDnamespaces/pfocr/smartapi.yaml"