Ignore non eligibile reactions in export

src/main/java/groupId/IsoMet/ParseSbml.java

@@ -118,8 +118,10 @@ public class ParseSbml {
 			}
 
 			try {
-				IsoMetReaction reaction = new IsoMetReaction(rEntry, substrates, products);
-				reactions.put(rEntry.getId(), reaction);
+				if(!substrates.isEmpty() && !products.isEmpty()){ //ignore export reactions
+					IsoMetReaction reaction = new IsoMetReaction(rEntry, substrates, products);
+					reactions.put(rEntry.getId(), reaction);
+				}
 			}catch (Exception e){
 				logger.error("[RXN] "+rEntry.getId()+": not able to create reaction");
 				logger.trace("",e);
@@ -333,7 +335,7 @@ public class ParseSbml {
 		BufferedWriter w;
 		try {
 			w = new BufferedWriter(new FileWriter(outputDir+"/reactions.tab"));
-			for(IsoMetReaction r : reactions.values()){ //TODO: option to export only reaction with AAM?
+			for(IsoMetReaction r : validReactions){ //TODO: option to export only reaction with AAM?
 				w.write(r.getSbmlReaction().getId()
 						+"\t"+r.getSubstrates().stream().map(Compound::getSbmlSpecie).map(Species::getId).collect(Collectors.joining(","))
 						+"\t"+r.getProducts().stream().map(Compound::getSbmlSpecie).map(Species::getId).collect(Collectors.joining(","))