Use TMP_DIR for calls

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

@@ -36,6 +36,7 @@ object Main {
         logger.debug(s"Subcommand requires ${tasks.size} tasks")
         try {
           tasks.foreach(_.run())
+          c.cleanup()
         } catch {
           case e: AssertException =>
             logger.error(s"Error during task execution, see above!")
@@ -43,7 +44,6 @@ object Main {
             logger.error(s"General exception ${e.getMessage}")
             e.printStackTrace()
         }
-        c.cleanup()
       case _ =>
         logger.error(s"Found no subcommand, see help below")
         conf.printHelp()

toolflow/src/main/scala/com/minres/tgc/hammer/tasks/Task.scala

@@ -1,5 +1,6 @@
 package com.minres.tgc.hammer.tasks
 
+import com.minres.tgc.hammer.Global.TMP_DIR
 import com.minres.tgc.hammer.Main
 import com.minres.tgc.hammer.util.Logging
 import os.{Path, Shellable}
@@ -26,6 +27,6 @@ trait TaskImpl[T <: Task : ClassTag] extends Task with Logging[T] {
       os.Inherit
     else
       logFile
-    os.proc("bash", "-c", command).call(stdout = output)
+    os.proc("bash", "-c", command).call(cwd = TMP_DIR, stdout = output)
   }
 }