Require chromosome or supercontig prefix in datastore_config.properties.

Author: Sam Hokin

lis-datastore/src/main/java/org/intermine/bio/dataconversion/DatastoreUtils.java

@@ -130,7 +130,11 @@ public boolean isSupercontig(String primaryIdentifier) {
             String assy = fields[2];
             String name = fields[3];
             String key = gensp+"."+strainIdentifier;
+            List<String> chrPrefixes = chromosomePrefixes.get(key);
             List<String> scPrefixes = supercontigPrefixes.get(key);
+            if (chrPrefixes==null && scPrefixes==null) {
+                throw new RuntimeException(primaryIdentifier+": missing chromosome and supercontig prefixes in datastore_config.properties. One is required.");
+            }
             if (scPrefixes==null) {
                 // we don't know
                 return false;
@@ -176,6 +180,9 @@ public boolean isChromosome(String primaryIdentifier) {
             String key = gensp+"."+strainIdentifier;
             List<String> chrPrefixes = chromosomePrefixes.get(key);
             List<String> scPrefixes = supercontigPrefixes.get(key);
+            if (chrPrefixes==null && scPrefixes==null) {
+                throw new RuntimeException("Missing chromosome and supercontig prefixes in datastore_config.properties. One is required.");
+            }
             if (chrPrefixes==null) {
                 // we don't know
                 return false;