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Published
20 hours ago •
IHTSDO
IHTSDO
Help with creating new refset types
Hi, We're trying to establish a new refset with custom attributes for our national extension.
I've created a complex map and a simple map.
In summary:
- Simple map works and exports fine
- additionalFields are accepted, however, the complex map is not included in export Note: I tested with ICD-10 and ICD-9-CMeq complex maps. Both exports work fine after adding new members.
Steps
Created refset concepts and loaded into Snowstorm on branch in module 51000202101:
{
"conceptId": "2041000202101",
"fsn": {
"term": "SNOMED CT to ATC complex map (foundation metadata concept)",
"lang": "en"
},
"pt": {
"term": "SNOMED CT til ATC kompleks map",
"lang": "no"
},
"active": true,
"effectiveTime": "20201015",
"released": true,
"releasedEffectiveTime": 20201015,
"moduleId": "51000202101",
"definitionStatus": "PRIMITIVE",
"descriptions": [
{
"active": true,
"moduleId": "51000202101",
"released": true,
"releasedEffectiveTime": 20201015,
"descriptionId": "735281000202117",
"term": "SNOMED CT to ATC complex map (foundation metadata concept)",
"conceptId": "2041000202101",
"typeId": "900000000000003001",
"acceptabilityMap": {
"900000000000509007": "PREFERRED"
},
"type": "FSN",
"caseSignificance": "ENTIRE_TERM_CASE_SENSITIVE",
"lang": "en",
"effectiveTime": "20201015"
},
{
"active": true,
"moduleId": "51000202101",
"released": true,
"releasedEffectiveTime": 20201015,
"descriptionId": "735291000202115",
"term": "SNOMED CT to ATC complex map",
"conceptId": "2041000202101",
"typeId": "900000000000013009",
"acceptabilityMap": {
"900000000000509007": "PREFERRED"
},
"type": "SYNONYM",
"caseSignificance": "ENTIRE_TERM_CASE_SENSITIVE",
"lang": "en",
"effectiveTime": "20201015"
},
{
"active": true,
"moduleId": "51000202101",
"released": true,
"releasedEffectiveTime": 20201015,
"descriptionId": "735301000202116",
"term": "SNOMED CT til ATC kompleks map",
"conceptId": "2041000202101",
"typeId": "900000000000013009",
"acceptabilityMap": {
"61000202103": "PREFERRED"
},
"type": "SYNONYM",
"caseSignificance": "ENTIRE_TERM_CASE_SENSITIVE",
"lang": "no",
"effectiveTime": "20201015"
}
],
"classAxioms": [
{
"axiomId": "e0b46527-0fd0-4c76-8d39-f8e7c0e5431a",
"moduleId": "51000202101",
"active": true,
"released": true,
"definitionStatusId": "900000000000074008",
"relationships": [
{
"active": true,
"moduleId": "900000000000207008",
"released": false,
"sourceId": "2041000202101",
"destinationId": "1231000202105",
"typeId": "116680003",
"type": {
"conceptId": "116680003",
"definitionStatus": "PRIMITIVE",
"moduleId": "900000000000012004",
"fsn": {
"term": "Is a (attribute)",
"lang": "en"
},
"pt": {
"term": "Is a",
"lang": "en"
},
"id": "116680003"
},
"target": {
"conceptId": "1231000202105",
"definitionStatus": "PRIMITIVE",
"moduleId": "51000202101",
"fsn": {
"term": "Norwegian national reference set (foundation metadata concept)",
"lang": "en"
},
"pt": {
"term": "Norske nasjonale referansesett",
"lang": "no"
},
"id": "1231000202105"
},
"groupId": 0,
"characteristicType": "STATED_RELATIONSHIP",
"modifier": "EXISTENTIAL"
},
{
"active": true,
"moduleId": "900000000000207008",
"released": false,
"sourceId": "2041000202101",
"destinationId": "447250001",
"typeId": "116680003",
"type": {
"conceptId": "116680003",
"definitionStatus": "PRIMITIVE",
"moduleId": "900000000000012004",
"fsn": {
"term": "Is a (attribute)",
"lang": "en"
},
"pt": {
"term": "Is a",
"lang": "en"
},
"id": "116680003"
},
"target": {
"conceptId": "447250001",
"definitionStatus": "PRIMITIVE",
"moduleId": "900000000000012004",
"fsn": {
"term": "Complex map type reference set (foundation metadata concept)",
"lang": "en"
},
"pt": {
"term": "Complex map type reference set",
"lang": "en"
},
"id": "447250001"
},
"groupId": 0,
"characteristicType": "STATED_RELATIONSHIP",
"modifier": "EXISTENTIAL"
}
],
"definitionStatus": "PRIMITIVE",
"id": "e0b46527-0fd0-4c76-8d39-f8e7c0e5431a",
"effectiveTime": 20201015
}
],
"gciAxioms": [],
"relationships": [
{
"active": true,
"moduleId": "51000202101",
"released": true,
"releasedEffectiveTime": 20201015,
"relationshipId": "8791000202120",
"sourceId": "2041000202101",
"destinationId": "447250001",
"typeId": "116680003",
"type": {
"conceptId": "116680003",
"definitionStatus": "PRIMITIVE",
"moduleId": "900000000000012004",
"fsn": {
"term": "Is a (attribute)",
"lang": "en"
},
"pt": {
"term": "Is a",
"lang": "en"
},
"id": "116680003"
},
"target": {
"conceptId": "447250001",
"definitionStatus": "PRIMITIVE",
"moduleId": "900000000000012004",
"fsn": {
"term": "Complex map type reference set (foundation metadata concept)",
"lang": "en"
},
"pt": {
"term": "Complex map type reference set",
"lang": "en"
},
"id": "447250001"
},
"groupId": 0,
"characteristicType": "INFERRED_RELATIONSHIP",
"modifier": "EXISTENTIAL",
"effectiveTime": "20201015",
"id": "8791000202120"
},
{
"active": true,
"moduleId": "51000202101",
"released": true,
"releasedEffectiveTime": 20201015,
"relationshipId": "8801000202124",
"sourceId": "2041000202101",
"destinationId": "1231000202105",
"typeId": "116680003",
"type": {
"conceptId": "116680003",
"definitionStatus": "PRIMITIVE",
"moduleId": "900000000000012004",
"fsn": {
"term": "Is a (attribute)",
"lang": "en"
},
"pt": {
"term": "Is a",
"lang": "en"
},
"id": "116680003"
},
"target": {
"conceptId": "1231000202105",
"definitionStatus": "PRIMITIVE",
"moduleId": "51000202101",
"fsn": {
"term": "Norwegian national reference set (foundation metadata concept)",
"lang": "en"
},
"pt": {
"term": "Norske nasjonale referansesett",
"lang": "no"
},
"id": "1231000202105"
},
"groupId": 0,
"characteristicType": "INFERRED_RELATIONSHIP",
"modifier": "EXISTENTIAL",
"effectiveTime": "20201015",
"id": "8801000202124"
}
],
"validationResults": []
}
To 'keep it simple' I replicated the same attributes as the ICD-9CMeq refset in application.properties:
refset.types.ATCComplexMap=2041000202101|Map|iisssc|mapGroup,mapPriority,mapRule,mapAdvice,mapTarget,correlationId
(and rebuilt and restarted Snowstorm).
Created a new member in complex map:
{
"active": true,
"moduleId": "51000202101",
"released": false,
"refsetId": "2041000202101",
"referencedComponentId": "6910009",
"additionalFields": {
"mapRule": "TRUE",
"mapAdvice": "ALWAYS A01A A01",
"mapPriority": "1",
"mapGroup": "1",
"correlationId": "447557004",
"mapTarget": "A01A A01"
}
}
Reading the Release File Spec required me to create members in the Refset Descriptor refset:
id effectiveTime active moduleId refsetId referencedComponentId attributeDescription attributeType attributeOrder
aa442a76-3a9c-4a15-9a1d-23392d460064 1 51000202101 900000000000456007 2041000202101 900000000000501005 900000000000478000 1
8560ac73-570d-48d2-a675-1712e8394bc2 1 51000202101 900000000000456007 2041000202101 900000000000502003 900000000000478000 2
70d7ffe7-6c6e-42ae-81b5-006c9092fb49 1 51000202101 900000000000456007 2041000202101 900000000000503008 900000000000465000 3
bff2d231-a69a-4996-aa28-6faf24367490 1 51000202101 900000000000456007 2041000202101 900000000000500006 900000000000461009 0
ee59a20e-8918-427b-8145-194aeff68761 1 51000202101 900000000000456007 2041000202101 900000000000504002 900000000000465000 4
903f1a9e-07cf-49b4-a5d8-e598674ee69c 1 51000202101 900000000000456007 2041000202101 900000000000505001 900000000000465000 5
c07a5097-5ffe-49f2-9bc2-2fda4040ee18 1 51000202101 900000000000456007 2041000202101 447247004 900000000000461009 6
Export params:
{
"branchPath": "MAIN/SNOMEDCT-NO/MAPS",
"type": "DELTA",
"unpromotedChangesOnly": true
}
However, the export doesn't include the refset file as expected... Could use some help here.
Thanks!
All of this looks good to me. Snowstorm does not currently make use of the Refset Descriptor refset, but good to have that anyway.
Please check that the concept which represents the refset 2041000202101 |SNOMED CT to ATC complex map (foundation metadata concept)| is visible on the branch you are exporting from.
Hi @kaicode, thanks for your advice. I have done some more testing and:
- New complex refsets with custom attributes placed on the
MAINbranch are successfully exported - Similar refsets (same setup and content) placed on subbranches of
MAINwill not export successfully - Surprisingly, Snowstorm exports refsets from
MAINeven if the concept representing the refset is not on branch (it's on a subbranch)
Any thoughts on why this might occur?