Examples and clean-ups (#1)

- Attempt at implementing an example for DRS
- Complete reactions set
- New automaton
- Formula
- Fixed automaton scaling
- Proc index in the formula
- Benchmark generators
- Scripts to reproduce experiments for reaction mining

experiments/reaction_mining_mutex/run_mutex_param.sh

@@ -0,0 +1,26 @@
+#!/bin/sh
+
+# sudo systemsetup -getcomputersleep
+#sudo systemsetup -setcomputersleep Never
+# sudo systemsetup -setcomputersleep 1
+
+REACTICS_SMT="../../reactics-smt"
+export PYTHONPATH="$PYTHONPATH:$REACTICS_SMT"
+
+REACTICS_SCRIPT="./pmutex.py"
+
+for i in `seq 2 50`
+do
+    for special_mode in "p" "np-p" "np-np"
+    do
+        echo "$i (sm=${special_mode})"
+        if [[ $special_mode -eq 1 ]]
+        then
+            $REACTICS_SCRIPT $i $special_mode
+            $REACTICS_SCRIPT -o $i $special_mode
+        else
+            $REACTICS_SCRIPT $i $special_mode
+        fi
+    done
+done
+