bioversions 0.5.325__tar.gz → 0.5.327__tar.gz

{bioversions-0.5.325/src/bioversions.egg-info → bioversions-0.5.327}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: bioversions
-Version: 0.5.325
+Version: 0.5.327
 Summary: What's the current version for each biological database?
 Home-page: https://github.com/biopragmatics/bioversions
 Download-URL: https://github.com/biopragmatics/bioversions/releases

{bioversions-0.5.325 → bioversions-0.5.327}/docs/_data/versions.yml

@@ -1,7 +1,7 @@
 annotations:
   author: runner
-  date: '2024-03-28'
-  revision: 626
+  date: '2024-03-30'
+  revision: 628
 database:
 - name: A nomenclatural ontology for biological names
   prefix: nomen
@@ -867,6 +867,8 @@ database:
     version: '2.199'
   - retrieved: '2024-03-25'
     version: '2.204'
+  - retrieved: '2024-03-29'
+    version: '2.205'
   vtype: date
 - name: Clinical Trials Ontology
   prefix: cto
@@ -1334,6 +1336,10 @@ database:
     homepage: https://github.com/DiseaseOntology/HumanDiseaseOntology/tree/main/src/ontology/releases/2024-02-28
     retrieved: '2024-03-25'
     version: '2024-02-28'
+  - date: '2024-03-28'
+    homepage: https://github.com/DiseaseOntology/HumanDiseaseOntology/tree/main/src/ontology/releases/2024-03-28
+    retrieved: '2024-03-29'
+    version: '2024-03-28'
   vtype: date
 - name: DisGeNet
   releases:
@@ -1691,6 +1697,8 @@ database:
   releases:
   - retrieved: '2024-03-25'
     version: '2024-02-02'
+  - retrieved: '2024-03-29'
+    version: '2024-03-25'
   vtype: date
 - name: Evidence Code Ontology
   prefix: eco
@@ -1812,6 +1820,8 @@ database:
     version: '4.148'
   - retrieved: '2024-03-25'
     version: '4.159'
+  - retrieved: '2024-03-29'
+    version: '4.160'
   vtype: date
 - name: Experimental Factor Ontology
   prefix: efo
@@ -2004,6 +2014,8 @@ database:
     version: '2023-11-13'
   - retrieved: '2024-03-25'
     version: '2024-03-20'
+  - retrieved: '2024-03-30'
+    version: '2024-03-26'
   vtype: date
 - name: Flora Phenotype Ontology
   prefix: flopo
@@ -2869,6 +2881,10 @@ database:
     homepage: ftp://ftp.ebi.ac.uk/pub/databases/interpro/98.0/
     retrieved: '2024-03-25'
     version: '98.0'
+  - date: '2024-03-28'
+    homepage: ftp://ftp.ebi.ac.uk/pub/databases/interpro/99.0/
+    retrieved: '2024-03-30'
+    version: '99.0'
   vtype: semver_minor
 - name: ITIS
   prefix: itis
@@ -3677,6 +3693,8 @@ database:
     version: '2023-09-19'
   - retrieved: '2024-03-25'
     version: '2024-02-28'
+  - retrieved: '2024-03-30'
+    version: '2024-03-26'
   vtype: date
 - name: NCI Thesaurus
   prefix: ncit
@@ -3840,6 +3858,12 @@ database:
   - date: '2024-03-26'
     retrieved: '2024-03-28'
     version: March 26, 2024
+  - date: '2024-03-27'
+    retrieved: '2024-03-29'
+    version: March 27, 2024
+  - date: '2024-03-28'
+    retrieved: '2024-03-30'
+    version: March 28, 2024
   vtype: date
 - name: 'OntoAvida: ontology for Avida digital evolution platform'
   prefix: ontoavida
@@ -3936,6 +3960,8 @@ database:
     version: '2023-10-08'
   - retrieved: '2024-03-25'
     version: '2024-01-10'
+  - retrieved: '2024-03-29'
+    version: '2024-03-22'
   vtype: date
 - name: Ontology for Nutritional Studies
   prefix: ons
@@ -4136,6 +4162,8 @@ database:
     version: '2023-09-01'
   - retrieved: '2024-03-25'
     version: '2024-02-02'
+  - retrieved: '2024-03-29'
+    version: '2024-03-25'
   vtype: date
 - name: Ontology of Organizational Structures of Trauma centers and Trauma Systems
   prefix: oostt
@@ -4238,6 +4266,10 @@ database:
     version: 2.0.50
   - retrieved: '2024-03-25'
     version: 2.0.51
+  - retrieved: '2024-03-29'
+    version: 2.0.52
+  - retrieved: '2024-03-30'
+    version: 2.0.53
   vtype: semver
 - name: Ontology of units of Measure (OM)
   prefix: om
@@ -5015,6 +5047,8 @@ database:
     version: '6.211'
   - retrieved: '2024-03-25'
     version: '6.219'
+  - retrieved: '2024-03-29'
+    version: '6.220'
   vtype: date
 - name: Reactome
   prefix: reactome
@@ -6351,6 +6385,10 @@ database:
     version: '2024-03-26'
   - retrieved: '2024-03-28'
     version: '2024-03-27'
+  - retrieved: '2024-03-29'
+    version: '2024-03-28'
+  - retrieved: '2024-03-30'
+    version: '2024-03-29'
   vtype: date
 - name: SWO (The Software Ontology)
   prefix: swo
@@ -6867,6 +6905,8 @@ database:
     version: '2019-06-07'
   - retrieved: '2024-03-25'
     version: '2024-03-08'
+  - retrieved: '2024-03-30'
+    version: '2024-03-22'
   vtype: date
 - name: VEuPathDB Ontology
   prefix: eupath
@@ -8436,6 +8476,10 @@ database:
     version: '2024-03-25'
   - retrieved: '2024-03-28'
     version: '2024-03-26'
+  - retrieved: '2024-03-29'
+    version: '2024-03-27'
+  - retrieved: '2024-03-30'
+    version: '2024-03-28'
   vtype: date
 - name: Zebrafish Phenotype Ontology
   prefix: zp

{bioversions-0.5.325 → bioversions-0.5.327}/docs/failures.md

@@ -2,4 +2,5 @@
 
 - issue parsing Drug Gene Interaction Database: 
 - failed to resolve DisGeNet
-- failed to resolve Antibody Registry
+- failed to resolve Antibody Registry
+- failed to resolve NPASS

{bioversions-0.5.325 → bioversions-0.5.327}/docs/img/has_release_url.svg

@@ -6,7 +6,7 @@
   <rdf:RDF xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:cc="http://creativecommons.org/ns#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
    <cc:Work>
     <dc:type rdf:resource="http://purl.org/dc/dcmitype/StillImage"/>
-    <dc:date>2024-03-28T00:46:19.407204</dc:date>
+    <dc:date>2024-03-30T00:44:17.079039</dc:date>
     <dc:format>image/svg+xml</dc:format>
     <dc:creator>
      <cc:Agent>

{bioversions-0.5.325 → bioversions-0.5.327}/docs/img/version_date_types.svg

@@ -6,7 +6,7 @@
   <rdf:RDF xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:cc="http://creativecommons.org/ns#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
    <cc:Work>
     <dc:type rdf:resource="http://purl.org/dc/dcmitype/StillImage"/>
-    <dc:date>2024-03-28T00:46:19.337820</dc:date>
+    <dc:date>2024-03-30T00:44:17.010179</dc:date>
     <dc:format>image/svg+xml</dc:format>
     <dc:creator>
      <cc:Agent>

{bioversions-0.5.325 → bioversions-0.5.327}/docs/img/version_types.svg

@@ -6,7 +6,7 @@
   <rdf:RDF xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:cc="http://creativecommons.org/ns#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
    <cc:Work>
     <dc:type rdf:resource="http://purl.org/dc/dcmitype/StillImage"/>
-    <dc:date>2024-03-28T00:46:19.230634</dc:date>
+    <dc:date>2024-03-30T00:44:16.903952</dc:date>
     <dc:format>image/svg+xml</dc:format>
     <dc:creator>
      <cc:Agent>

{bioversions-0.5.325 → bioversions-0.5.327}/setup.cfg

@@ -1,6 +1,6 @@
 [metadata]
 name = bioversions
-version = 0.5.325
+version = 0.5.327
 description = What's the current version for each biological database?
 long_description = file: README.md
 long_description_content_type = text/markdown

{bioversions-0.5.325 → bioversions-0.5.327}/src/bioversions/resources/versions.json

@@ -1,7 +1,7 @@
 {
   "annotations": {
-    "revision": 626,
-    "date": "2024-03-28",
+    "revision": 628,
+    "date": "2024-03-30",
     "author": "runner"
   },
   "database": [
@@ -1585,6 +1585,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "2.204"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2.205"
         }
       ],
       "vtype": "date"
@@ -2404,6 +2408,12 @@
           "version": "2024-02-28",
           "homepage": "https://github.com/DiseaseOntology/HumanDiseaseOntology/tree/main/src/ontology/releases/2024-02-28",
           "date": "2024-02-28"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2024-03-28",
+          "homepage": "https://github.com/DiseaseOntology/HumanDiseaseOntology/tree/main/src/ontology/releases/2024-03-28",
+          "date": "2024-03-28"
         }
       ],
       "vtype": "date"
@@ -3064,6 +3074,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "2024-02-02"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2024-03-25"
         }
       ],
       "name": "Evidence and Conclusion Ontology",
@@ -3297,6 +3311,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "4.159"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "4.160"
         }
       ],
       "vtype": "date"
@@ -3676,6 +3694,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "2024-03-20"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "2024-03-26"
         }
       ],
       "vtype": "date"
@@ -5188,6 +5210,12 @@
           "version": "98.0",
           "homepage": "ftp://ftp.ebi.ac.uk/pub/databases/interpro/98.0/",
           "date": "2024-01-25"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "99.0",
+          "homepage": "ftp://ftp.ebi.ac.uk/pub/databases/interpro/99.0/",
+          "date": "2024-03-28"
         }
       ],
       "vtype": "semver_minor"
@@ -6667,6 +6695,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "2024-02-28"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "2024-03-26"
         }
       ],
       "name": "NCBI Taxonomy",
@@ -6968,6 +7000,16 @@
           "retrieved": "2024-03-28",
           "version": "March 26, 2024",
           "date": "2024-03-26"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "March 27, 2024",
+          "date": "2024-03-27"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "March 28, 2024",
+          "date": "2024-03-28"
         }
       ],
       "name": "Online Mendelian Inheritance in Man",
@@ -7150,6 +7192,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "2024-01-10"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2024-03-22"
         }
       ],
       "name": "Ontology for Modeling and Representation of Social Entities",
@@ -7538,6 +7584,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "2024-02-02"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2024-03-25"
         }
       ],
       "vtype": "date"
@@ -7690,6 +7740,14 @@
         {
           "retrieved": "2024-03-25",
           "version": "2.0.51"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2.0.52"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "2.0.53"
         }
       ],
       "name": "Ontology of units of Measure",
@@ -9110,6 +9168,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "6.219"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "6.220"
         }
       ],
       "vtype": "date"
@@ -11703,6 +11765,14 @@
         {
           "retrieved": "2024-03-28",
           "version": "2024-03-27"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2024-03-28"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "2024-03-29"
         }
       ],
       "name": "SwissLipids",
@@ -12663,6 +12733,10 @@
         {
           "retrieved": "2024-03-25",
           "version": "2024-03-08"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "2024-03-22"
         }
       ],
       "vtype": "date"
@@ -15445,6 +15519,14 @@
         {
           "retrieved": "2024-03-28",
           "version": "2024-03-26"
+        },
+        {
+          "retrieved": "2024-03-29",
+          "version": "2024-03-27"
+        },
+        {
+          "retrieved": "2024-03-30",
+          "version": "2024-03-28"
         }
       ],
       "name": "Zebrafish Information Network",

{bioversions-0.5.325 → bioversions-0.5.327}/src/bioversions/sources/__init__.py

@@ -153,6 +153,7 @@ def get_getter_dict() -> Mapping[str, Type[Getter]]:
         rv[norm(getter.name)] = getter
     # TODO engineer this into the data model and backfill them
     rv["omim.ps"] = OMIMGetter
+    rv["omimps"] = OMIMGetter
     return rv
 
 

{bioversions-0.5.325 → bioversions-0.5.327}/src/bioversions/utils.py

@@ -270,7 +270,7 @@ class OBOFoundryGetter(Getter):
 
     def get(self) -> str:
         """Get the OBO version."""
-        url = f"http://purl.obolibrary.org/obo/{self.key}.obo"
+        url = f"https://purl.obolibrary.org/obo/{self.key}.obo"
         return self.process(get_obo_version(url))
 
     def process(self, version: str) -> str:

{bioversions-0.5.325 → bioversions-0.5.327}/src/bioversions/version.py

@@ -9,7 +9,7 @@ __all__ = [
     "VERSION",
 ]
 
-VERSION = "0.5.325"
+VERSION = "0.5.327"
 
 
 def get_git_hash() -> str:

{bioversions-0.5.325 → bioversions-0.5.327/src/bioversions.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: bioversions
-Version: 0.5.325
+Version: 0.5.327
 Summary: What's the current version for each biological database?
 Home-page: https://github.com/biopragmatics/bioversions
 Download-URL: https://github.com/biopragmatics/bioversions/releases