Stream: implementers
Topic: Using custom maps to convert from STU3 to R4
Debashish Ghosh (Jun 08 2020 at 16:13):
Hi,
I am currently exploring the Validator tool ( https://github.com/hapifhir/org.hl7.fhir.core) to convert from one Fhir version to another . The default maps provided (https://github.com/FHIR/packages/tree/master/interversion/r4/R3toR4) suffices for most of the cases .
But in future if we want to add some extensions we would want to be able to use the updated .map version for that resource to accomodate that . For example I am using the following comandline arguments for the Validator Tool to use my local custom map for Resource Condition .
c:\fhirmessages\fhir_condition_epic_stu3_searched.json -version 3.0 -to-version 4.0 -output c:\fhirmessages\fhir_condition_epic_r4_searched_output.json -do-native -ig C:\fhirmessages\maps_new
The last argument -ig refers to the directory from where it should load my updated Condtions.map.
But while running it keeps giving the following error :
- .. load IG from C:\fhirmessages\maps_new
- load file: Condition.txt - ignored due to error: (null - NPE)
Am I missing something here . Has anybody used this tool to do conversion using you custom maps ?
Any help on this is greatly appreciated !
Thanks
Lloyd McKenzie (Jun 08 2020 at 16:15):
@Grahame Grieve
Grahame Grieve (Jun 08 2020 at 18:49):
you pointed it to a directory to load content from. It's just telling you that it found a file in there that it couldn't read as loadable content. In this case, it looks like it shouldn't be loaded, so that's fine
Debashish Ghosh (Jun 08 2020 at 19:36):
Thanks for your reply . So I am trying to do a conversion from STU3 to R4 and following the documentation https://wiki.hl7.org/Using_the_FHIR_Validator_to_transform_content#R3_.2F_R4_conversions .
Based on the documentation I provided the following arguments to the tool :
c:\fhirmessages\fhir_condition_epic_stu3_searched.json -transform http://hl7.org/fhir/StructureMap/Condition3to4 -ig C:\fhirmessages\maps_new\interversion\r4\R3toR4 -output c:\fhirmessages\fhir_condition_epic_r4_searched_output.json -log c:\fhirmessages\log\logs.txt
I changed the Conditions.map file in C:\fhirmessages\maps_new\interversion\r4\R3toR4 and also copied all other files in this directory from https://github.com/FHIR/packages .
It keeps giving me the following error :
-
.. load IG from C:\fhirmessages\maps_new\interversion\r4\R3toR4
..Detect format for C:\fhirmessages\maps_new\interversion\r4\R3toR4\AdverseEvent.map.bak
[Fatal Error] :1:1: Content is not allowed in prolog. -
load file: ConceptMaps.txt - ignored due to error: Error in ConceptMaps.txt at 8, 6: Unknown relationship token '='
Start Transform http://hl7.org/fhir/StructureMap/Condition3to4
Group : Condition; vars = source variables [src: (Bundle)], target variables [tgt: (Condition)], shared variables []
Exception in thread "main" java.lang.Error: duplicate
at org.hl7.fhir.r5.utils.StructureMapUtilities.findMatchingMaps(StructureMapUtilities.java:1534)
at org.hl7.fhir.r5.utils.StructureMapUtilities.resolveGroupReference(StructureMapUtilities.java:1671)
at org.hl7.fhir.r5.utils.StructureMapUtilities.executeGroup(StructureMapUtilities.java:1402)
at org.hl7.fhir.r5.utils.StructureMapUtilities.transform(StructureMapUtilities.java:1369)
at org.hl7.fhir.validation.ValidationEngine.transform(ValidationEngine.java:1215)
at org.hl7.fhir.validation.ValidationEngine.transform(ValidationEngine.java:1202)
at org.hl7.fhir.validation.cli.services.ValidationService.transform(ValidationService.java:138)
at org.hl7.fhir.validation.Validator.main(Validator.java:180)
I just want to change some mapping in the resource Condition and see how easy it is to update the mappings .
Is there a trick I am missing out here to get this working ?
Thanks!
Grahame Grieve (Jun 08 2020 at 21:29):
well, it looks like you have a syntax error in tour revised mapping
Last updated: Apr 12 2022 at 19:14 UTC
