diff --git a/inception/inception-kb/src/main/resources/de/tudarmstadt/ukp/inception/kb/yaml/knowledgebase-profiles.yaml b/inception/inception-kb/src/main/resources/de/tudarmstadt/ukp/inception/kb/yaml/knowledgebase-profiles.yaml index 7a8371a58e6..b9e9613ec29 100644 --- a/inception/inception-kb/src/main/resources/de/tudarmstadt/ukp/inception/kb/yaml/knowledgebase-profiles.yaml +++ b/inception/inception-kb/src/main/resources/de/tudarmstadt/ukp/inception/kb/yaml/knowledgebase-profiles.yaml @@ -373,6 +373,16 @@ snomed-ct: - Download SNOMED CT RD2 data files, e.g. from the [National Library of Medicine](https://www.nlm.nih.gov/healthit/snomedct/international.html) - The RD2 package contains a data file in _OWL Functional Syntax_ wiht the ending `.owl` - rename the file to end in `.ofn` - Import the renamed file into the knowledge base created from this profile (this may take a while) + + At this point, you will be able to link against SNOMED concepts, but the tree browser will not be able to find + certain concepts. To fix this, an additional step has to be performed: + + - Obtain a copy for the [ELK Reasoner standalone executable](https://github.com/liveontologies/elk-reasoner/releases) + - Use ELK to classify the SNOMED _OWL Functional Syntax_ data:
+ `java -jar elk-standalone.jar -i snomed-file.ofn -c -o snomed-classified-file.ofn` + - Import that converted classified file into same knowledge base that already contains the other SNOMED data + + After all imports are complete, enable the _read only_ checkbox - this enables an internal cache and improves performance. host-institution-name: SNOMED International website-url: https://www.snomed.org license-url: https://www.snomed.org/get-snomed