improve exception handling

toolflow/src/main/scala/com/minres/tgc/hammer/Main.scala

@@ -2,6 +2,7 @@ package com.minres.tgc.hammer
 
 import ch.qos.logback.classic.Level
 import com.minres.tgc.hammer.cli.{HammerConf, MySubcommand}
+import com.minres.tgc.hammer.util.AssertException
 import com.typesafe.scalalogging.Logger
 import org.slf4j.LoggerFactory
 
@@ -36,8 +37,11 @@ object Main {
         try {
           tasks.foreach(_.run())
         } catch {
-          case e: Exception =>
+          case e: AssertException =>
             logger.error(s"Error during task execution, see above!")
+          case e: Exception =>
+            logger.error(s"General exception ${e.getMessage}")
+            e.printStackTrace()
         }
       case _ =>
         logger.error(s"Found no subcommand, see help below")

toolflow/src/main/scala/com/minres/tgc/hammer/util/AssertException.scala

@@ -0,0 +1,3 @@
+package com.minres.tgc.hammer.util
+
+case class AssertException() extends Exception

toolflow/src/main/scala/com/minres/tgc/hammer/util/Logging.scala

@@ -10,7 +10,7 @@ trait Logging[T: ClassTag] {
   protected def assert(boolean: Boolean, msg: String): Unit = {
     if (!boolean) {
       log.error(msg)
-      throw new Exception()
+      throw AssertException()
     }
   }
 }