Bump ontology version to v3.0.0-alpha and add ne aliases to sq2cql co…

…nfig
medizininformatik-initiative · Oct 20, 2024 · 4822a4b · 4822a4b
1 parent e915994
commit 4822a4b
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Showing 3 changed files with 35 additions and 24 deletions.
diff --git a/docker-compose.yml b/docker-compose.yml
@@ -139,7 +139,7 @@ services:
         condition: service_healthy
     environment:
       ELASTIC_HOST: http://dataportal-elastic:9200
-      ELASTIC_GIT_TAG: v3.0.0-test.7
+      ELASTIC_GIT_TAG: v3.0.0-alpha
       ELASTIC_FILEPATH: https://github.com/medizininformatik-initiative/fhir-ontology-generator/raw/TAGPLACEHOLDER/example/fdpg-ontology/
       ELASTIC_FILENAME: elastic.zip
       # if set to false, existing indices are not overridden.

diff --git a/pom.xml b/pom.xml
@@ -27,7 +27,7 @@
     <java.version>17</java.version>
     <mockwebserver.version>4.10.0</mockwebserver.version>
     <okhttp3.version>4.10.0</okhttp3.version>
-    <ontology-tag>v3.0.0-test.11</ontology-tag>
+    <ontology-tag>v3.0.0-alpha</ontology-tag>
   </properties>
 
   <dependencies>

diff --git a/...va/de/numcodex/feasibility_gui_backend/query/translation/QueryTranslatorSpringConfig.java b/...va/de/numcodex/feasibility_gui_backend/query/translation/QueryTranslatorSpringConfig.java
@@ -86,30 +86,41 @@ Translator createCqlTranslator(@Qualifier("translation") ObjectMapper jsonUtil)
                 Stream.of(mappings)
                         .collect(Collectors.toMap(Mapping::key, Function.identity(), (a, b) -> a)),
                 mappingTreeBase,
-            Map.ofEntries(entry("http://fhir.de/CodeSystem/bfarm/icd-10-gm", "icd10"),
-                entry("mii.abide", "abide"),
-                entry("http://fhir.de/CodeSystem/bfarm/ops", "ops"),
-                entry("http://dicom.nema.org/resources/ontology/DCM", "dcm"),
-                entry("https://www.medizininformatik-initiative.de/fhir/core/modul-person/CodeSystem/Vitalstatus", "vitalstatus"),
-                entry("http://loinc.org", "loinc"),
-                entry("https://fhir.bbmri.de/CodeSystem/SampleMaterialType", "sample"),
-                entry("http://fhir.de/CodeSystem/bfarm/atc", "atc"),
-                entry("http://snomed.info/sct", "snomed"),
-                entry("http://terminology.hl7.org/CodeSystem/condition-ver-status", "cvs"),
-                entry("http://hl7.org/fhir/administrative-gender", "gender"),
-                entry("urn:oid:1.2.276.0.76.5.409", "urn409"),
-                entry(
-                    "https://www.netzwerk-universitaetsmedizin.de/fhir/CodeSystem/ecrf-parameter-codes",
-                    "numecrf"),
-                entry("urn:iso:std:iso:3166", "iso3166"),
-                entry("https://www.netzwerk-universitaetsmedizin.de/fhir/CodeSystem/frailty-score",
-                    "frailtyscore"),
-                entry("http://terminology.hl7.org/CodeSystem/consentcategorycodes", "consentcategory"),
-                entry("urn:oid:2.16.840.1.113883.3.1937.777.24.5.3", "consent"),
-                entry("http://hl7.org/fhir/sid/icd-o-3", "icdo3"),
-                entry("http://hl7.org/fhir/consent-provision-type", "provisiontype"))));
+                Map.ofEntries(entry("http://fhir.de/CodeSystem/bfarm/icd-10-gm", "icd10"),
+                        entry("mii.abide", "abide"),
+                        entry("http://fhir.de/CodeSystem/bfarm/ops", "ops"),
+                        entry("http://dicom.nema.org/resources/ontology/DCM", "dcm"),
+                        entry("https://www.medizininformatik-initiative.de/fhir/core/modul-person/CodeSystem/Vitalstatus", "vitalstatus"),
+                        entry("http://loinc.org", "loinc"),
+                        entry("https://fhir.bbmri.de/CodeSystem/SampleMaterialType", "sample"),
+                        entry("http://fhir.de/CodeSystem/bfarm/atc", "atc"),
+                        entry("http://snomed.info/sct", "snomed"),
+                        entry("http://terminology.hl7.org/CodeSystem/condition-ver-status", "cvs"),
+                        entry("http://hl7.org/fhir/administrative-gender", "gender"),
+                        entry("urn:oid:1.2.276.0.76.5.409", "urn409"),
+                        entry(
+                                "https://www.netzwerk-universitaetsmedizin.de/fhir/CodeSystem/ecrf-parameter-codes",
+                                "numecrf"),
+                        entry("urn:iso:std:iso:3166", "iso3166"),
+                        entry("https://www.netzwerk-universitaetsmedizin.de/fhir/CodeSystem/frailty-score",
+                                "frailtyscore"),
+                        entry("http://terminology.hl7.org/CodeSystem/consentcategorycodes", "consentcategory"),
+                        entry("urn:oid:2.16.840.1.113883.3.1937.777.24.5.3", "consent"),
+                        entry("http://hl7.org/fhir/sid/icd-o-3", "icdo3"),
+                        entry("fdpg.mii.cds", "fdpgmiicds"),
+                        entry("http://fhir.de/CodeSystem/bfarm/alpha-id", "alphaid"),
+                        entry("urn:iso:std:iso:11073:10101", "ISO11073"),
+                        entry("http://terminology.hl7.org/CodeSystem/icd-o-3", "icdo3"),
+                        entry("http://fhir.de/CodeSystem/dkgev/Fachabteilungsschluessel", "fachabteilungsschluessel"),
+                        entry("http://terminology.hl7.org/CodeSystem/v3-ActCode", "v3actcode"),
+                        entry("http://fhir.de/CodeSystem/dkgev/Fachabteilungsschluessel-erweitert", "fachabteilungsschluesselerweitert"),
+                        entry("http://fhir.de/CodeSystem/kontaktart-de", "kontaktart"),
+                        entry("http://hl7.org/fhir/sid/icd-10", "sidicd10"),
+                        entry("http://fhir.de/CodeSystem/Kontaktebene", "kontaktebene"),
+                        entry("http://hl7.org/fhir/consent-provision-type", "provisiontype"))));
     }
 
+
     @Qualifier("cql")
     @Lazy
     @Bean