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Opaque failure while reading GenBank #623
Description
Importing this genbank file produces an opaque error:
Other_GenBank_imports.txt
The GenBank file parses correctly with BioPython
Converting GenBank to SBOL Version 2 Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException:
1 at org.sbolstandard.core2.GenBank.read(GenBank.java:1334) at
org.sbolstandard.core2.SBOLReader.read(SBOLReader.java:700) at
org.sbolstandard.core2.SBOLReader.read(SBOLReader.java:625) at
org.sbolstandard.core2.SBOLReader.read(SBOLReader.java:512) at
org.sbolstandard.core2.SBOLReader.read(SBOLReader.java:437) at
org.sbolstandard.core2.SBOLReader.read(SBOLReader.java:422) at
org.sbolstandard.core2.SBOLValidate.validate(SBOLValidate.java:2726) at
org.sbolstandard.core2.SBOLValidate.main(SBOLValidate.java:3028)
Activity
jakebeal commentedon Sep 18, 2021
The triggering issue, BTW, is apparently that line 9602 in the file had an extra newline.
I think you're not really supposed to to this, but other GenBank parsers are tolerant of this and libSBOLj is not.