We need to add an index for "ClassificationModel:classification" property.
That would be rather a workaround - I think we need to store classifications as edges to a classification nodes.

02:21:44,649 INFO [org.jboss.windup.config.RuleSubset] (AeshProcess: 4) Rule [XmlBaseRules from file:/home/ondra/work/Migration/Windup2/target/windup-distribution-2.2.0-SNAPSHOT/rules/uncategorized/XmlBaseRules.windup.xml] matched and will be performed.
02:21:44,664 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:22:24,927 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaQuelonea.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:22:24,927 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:23:07,495 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:23:51,076 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaJolideyBooking.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:23:51,077 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:24:36,035 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:25:25,032 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaJolideyBookingPortugal.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:25:25,033 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:26:08,524 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:26:47,672 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to externalServices.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:26:47,673 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:27:28,347 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:28:09,163 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaQueloneaPortugal.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:28:09,165 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:28:53,468 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:29:37,535 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaBarceloLCI.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:29:37,536 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:30:23,016 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:31:04,125 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaBVppB2C.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:31:04,127 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:31:50,426 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:32:33,276 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaBVppB2B.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:32:33,277 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:33:15,807 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:34:03,683 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaQueloneaTest.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:34:03,684 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:34:41,486 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes
02:35:19,959 INFO [org.jboss.windup.reporting.config.classification.Classification] (AeshProcess: 4) Classification added to boaBarcelo.war/WEB-INF/web.xml [Classification.as(WAR Application Descriptor)]
02:35:19,960 WARNING [com.thinkaurelius.titan.graphdb.transaction.StandardTitanTx] (AeshProcess: 4) Query requires iterating over all vertices [(ClassificationModel:classification = WAR Application Descriptor)]. For better performance, use indexes