CTS2-LE Loading Core Terminologies

Overview

CTS2-LE currently provides specific loaders for the below listed terminological resources. Due to the fact that file structures or entire file representations of a code system/value set may change when new versions are published, the usage of a loader is always bound to a specific terminology version. Thus, if a user wishes to import a vocabulary that is not represented through a FHIR value set definition, he or she has to send a request to the contact partner at Fraunhofer FOKUS.

Terminology	Version, Language	System Intern Identifier	Obtained from, file format
International Classification of Diseases (ICD)	2010, English	ICD10en-v10	World Health Organization, ClaML
Internationale statistische Klassifikation der Krankheiten und verwandter Gesundheitsprobleme	2013, German	ICD10de-v13	DIMDI downloads, ClaML
Internationale statistische Klassifikation der Krankheiten und verwandter Gesundheitsprobleme	2015, German	ICD10de-v15	DIMDI downloads, ClaML
Internationale statistische Klassifikation der Krankheiten und verwandter Gesundheitsprobleme	2016, German	ICD10de-v16	DIMDI downloads, ClaML
Alphabetisches Verzeichnis zur ICD-10-GM	2013, German	alphaID-v13	DIMDI downloads, TXT (CSV)
Alphabetisches Verzeichnis zur ICD-10-GM	2015, German	alphaID-v15	DIMDI downloads, TXT (CSV)
Alphabetisches Verzeichnis zur ICD-10-GM	2016, German	alphaID-v16	DIMDI downloads, TXT (CSV)
Operationen- und Prozedurenschlüssel	2013, German	ops13	DIMDI downloads, ClaML
Operationen- und Prozedurenschlüssel	2015, German	ops15	DIMDI downloads, ClaML
Medical Subject Headings	2012, English	mesh12	NIH downloads (U.S. National Library of Medicine), XML
Medical Subject Headings	2014, English + additional German designations	mesh14	NIH downloads (U.S. National Library of Medicine), XML
Medical Subject Headings	2014, German	mesh14-de	DIMDI downloads, XML
Medical Subject Headings	2017, English	mesh17	NIH downloads, XML
Anatomisch Therapeutisch Chemische Klassifikation mit definierten Tagesdosen (ATC DDD)	2013, German	ATC_DDD_v13	WiDO downloads (Wissenschaftliches Institut der AOK), XML
Anatomisch Therapeutisch Chemische Klassifikation mit definierten Tagesdosen (ATC DDD)	2015, German	ATC_DDD_v15	WiDO downloads (Wissenschaftliches Institut der AOK), XML
Unified Code for Units of Measure	2013, English	ucum	UCUM downloads, TSV
Logical Observation Identifiers Names and Codes	2.44, English	loinc	LOINC downloads (Regenstrief Institute, Inc.), XML
SNOMED CT	2015, English	snomed	IHTSDO (International Health Terminology Standards Development Organisation)
PathLex	2015, English	pathlex	Anatomic Pathology Lexicon, OWL/RDF
Bundeslebensmittelschlüssel	3.02 , German + English	bls	Max Rubner Institut, TXT

Activating a Loader

This section refers to some notations (e.g. <H>) that were introduced in the Installation and Setup Guide.

1. Ensure that the server is not running
2. Open <H>\CTS2LE_resources\resources-custom\cts2_conf.xml
Example cts2_conf.xml file

<conf>	
 <vocabularies loadAll="false" fresh="false" index="false" sigCheck="false">
	 <vocabulary load="true" friendly-name="Example code system" resourceID="exa"/>
 </vocabularies>
</conf>

3. Adapt the following attributes according to your needs; i.e. fill in true to enable the described behaviour:
• attributes of the <vocabularies>-element
  • loadAll: load all vocabularies stated by means of the child <vocabulary> elements
  • fresh: discards the entire store content before loading
  • index: build an index based on concept designations
  • sigCheck: check the integrated vocabularies for schema conformance
• attribute of individual <vocabulary> elements
  • load: load the respective vocabulary
  • friendly-name: is the human readable name for a terminology - changing the value of this attribute will not have any effect at all
  • resourceID: is a system intern identifier for the terminology; must not be changed
4. Save the file
5. Change to directory <H>
6. - On Windows: Run bin\SuperLoader.bat
   - On Linux: Run ./bin/SuperLoader.sh