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Added additional logging for validation of JSON schema #14

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merged 1 commit into from
Jan 22, 2024
Merged

Added additional logging for validation of JSON schema #14

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3 changes: 2 additions & 1 deletion plugins/nf-iridanext/src/main/nextflow/iridanext/IridaNextJSONOutput.groovy
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Original file line number Diff line number Diff line change
Expand Up @@ -189,7 +189,8 @@ class IridaNextJSONOutput {
outputStream.close()
}
} catch (ValidationException e) {
log.error "Failed to write IRIDA Next JSON output to ${path}. JSON did not match schema ${jsonSchema}"
log.error "Failed to write IRIDA Next JSON output to ${path}. JSON did not match schema ${jsonSchema.getUri()}. " +
"Message: ${e.getMessage()}"
throw e
}
}
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2 changes: 2 additions & 0 deletions plugins/nf-iridanext/src/main/nextflow/iridanext/IridaNextObserver.groovy
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Expand Up @@ -139,6 +139,8 @@ class IridaNextObserver implements TraceObserver {
SchemaStore schemaStore = new SchemaStore()
Path jsonSchemaPathAsPath = Nextflow.file(jsonSchemaPath) as Path
jsonSchema = schemaStore.loadSchema(jsonSchemaPathAsPath.toFile().toURI())
log.debug "Loaded custom schema ${jsonSchema.getUri()} for validating IRIDA Next output " +
"from iridanext.output.schema=${jsonSchemaPath}"
}

// Used for overriding the "meta.id" key used to define identifiers for a scope
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