Error during import - IndexOutOfBoundsException, "length of pattern values not equal" #69
Description
Hi, thanks for making this tool available.
I tried running the import process against our dataset and it failed in a few places, e.g.
- When
mapTargetis not specified in a simple map reference set
clojure.lang.ExceptionInfo: length of pattern values not equal
at com.eldrix.hermes.snomed$parse_fields.invokeStatic(snomed.clj:530)
at com.eldrix.hermes.snomed$parse_simple_refset_item.invokeStatic(snomed.clj:546)
at com.eldrix.hermes.snomed$parse_simple_refset_item.invoke(snomed.clj:539)
at com.eldrix.hermes.snomed$parse_snomed_filename$fn__11445.invoke(snomed.clj:927)
at clojure.core$map$fn__5935.invoke(core.clj:2772)
- When
guideURLis not specified in a MRCM domain reference set
java.lang.IndexOutOfBoundsException: null
at clojure.lang.PersistentVector.arrayFor(PersistentVector.java:158)
at clojure.lang.PersistentVector.nth(PersistentVector.java:162)
at clojure.lang.APersistentVector.invoke(APersistentVector.java:296)
at com.eldrix.hermes.snomed$parse_mrcm_domain_refset_item.invokeStatic(snomed.clj:723)
at com.eldrix.hermes.snomed$parse_mrcm_domain_refset_item.invoke(snomed.clj:709)
at com.eldrix.hermes.snomed$parse_snomed_filename$fn__11445.invoke(snomed.clj:927)
at clojure.core$map$fn__5935.invoke(core.clj:2772)
New to SNOMED-CT and RF2 files, but from what I understand these columns are optional.
I was able to run the import + index after removing entries that do not have these fields specified.
I'm currently using the provided jar from v1.2.1208 because I'm currently on Java 11. If I try using the jar file from the latest tagged version it gave me a class loader error (java.lang.NoClassDefFoundError: java/util/SequencedCollection) - may I know what's the minimum Java version for the latest tag?
It could be I'm doing something wrong on my side, but let me know if I can provide additional information.
Thank you.