removed spark.shuffle.sort.bypassMergeThreshold and increased spark.yarn.executor.memoryOverhead to 6G

dhp-workflows/dhp-graph-provision/src/main/resources/eu/dnetlib/dhp/oa/provision/oozie_app/workflow.xml

@@ -147,6 +147,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -185,6 +186,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -212,6 +214,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -239,6 +242,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -266,6 +270,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -293,6 +298,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -320,6 +326,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -347,6 +354,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -386,6 +394,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -414,6 +423,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -442,6 +452,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -470,6 +481,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -498,6 +510,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -526,6 +539,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -554,6 +568,7 @@
                 --executor-cores=${sparkExecutorCoresForJoining}
                 --executor-memory=${sparkExecutorMemoryForJoining}
                 --driver-memory=${sparkDriverMemoryForJoining}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
@@ -584,6 +599,7 @@
                 --executor-cores=${sparkExecutorCores}
                 --executor-memory=${sparkExecutorMemory}
                 --driver-memory=${sparkDriverMemory}
+                --conf spark.yarn.executor.memoryOverhead=6G
                 --conf spark.extraListeners=${spark2ExtraListeners}
                 --conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
                 --conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}