Rename stage process to simulate, reconstruct, analyze

This allows for more granular control and better parallelization in the future (generate once, simulate multiple, reconstructed multiple, etc).

benchmarks/single/analyze.sh

+#!/bin/bash
+
+source common.sh $*
+
+# Analyze
+root -l -b -q "benchmarks/single/analysis/analyze.cxx+(\"${JUGGLER_REC_FILE}\")"
+if [[ "$?" -ne "0" ]] ; then
+  echo "ERROR analysis failed"
+  exit 1
+fi