APM: RSMC version 1.0 (not 1.0a) from ipisvn

rs.cc

@@ -0,0 +1,170 @@
+/*
+    Copyright (c) 2012-2014
+    Artur Meski <meski@ipipan.waw.pl>
+
+    Reuse of the code or its part for any purpose
+    without the author's permission is strictly prohibited.
+*/
+
+#include "rs.hh"
+
+bool RctSys::hasAtom(std::string name)
+{
+    if (atoms_names.find(name) == atoms_names.end())
+        return false;
+    else
+        return true;
+}
+
+void RctSys::addAtom(std::string name)
+{
+    if (!hasAtom(name))
+    {
+        Atom new_atom_id = atoms_ids.size();
+
+        VERB_L2("Adding atom: " << name << " index=" << new_atom_id);
+
+        atoms_ids.push_back(name);
+        atoms_names[name] = new_atom_id;
+    }
+}
+
+std::string RctSys::getAtomName(Atom atomID)
+{
+    if (atomID < atoms_ids.size())
+        return atoms_ids[atomID];
+    else
+    {
+        FERROR("No such atom ID: " << atomID);
+        return "??";
+    }
+}
+
+RctSys::Atom RctSys::getAtomID(std::string name)
+{
+    if (!hasAtom(name))
+    {
+        FERROR("No such atom: " << name);
+    }
+    return atoms_names[name];
+}
+
+void RctSys::pushReactant(std::string atomName)
+{
+    if (!hasAtom(atomName))
+        addAtom(atomName);
+    tmpReactants.insert(getAtomID(atomName));
+}
+void RctSys::pushInhibitor(std::string atomName)
+{
+    if (!hasAtom(atomName))
+        addAtom(atomName);
+    tmpInhibitors.insert(getAtomID(atomName));
+}
+void RctSys::pushProduct(std::string atomName)
+{
+    if (!hasAtom(atomName))
+        addAtom(atomName);
+    tmpProducts.insert(getAtomID(atomName));
+}
+
+void RctSys::commitReaction(void)
+{
+    VERB_L3("Saving reaction");
+
+    Reaction r;
+
+    r.rctt = tmpReactants;
+    r.inhib = tmpInhibitors;
+    r.prod = tmpProducts;
+
+    reactions.push_back(r);
+
+    tmpReactants.clear();
+    tmpInhibitors.clear();
+    tmpProducts.clear();
+}
+
+std::string RctSys::atomsToStr(const Atoms &atoms)
+{
+    std::string s = " ";
+    for (auto a = atoms.begin(); a != atoms.end(); ++a)
+    {
+        s += atomToStr(*a) + " ";
+    }
+    return s;
+}
+
+void RctSys::showReactions(void)
+{
+    cout << "# Reactions:" << endl;
+    for (auto r = reactions.begin(); r != reactions.end(); ++r)
+    {
+        cout << " * (R={" << atomsToStr(r->rctt) << "},"
+             << "I={" << atomsToStr(r->inhib) << "}," 
+             << "P={" << atomsToStr(r->prod) << "})" << endl;
+    } 
+}
+
+void RctSys::pushStateAtom(std::string atomName)
+{
+    if (!hasAtom(atomName))
+    {
+        FERROR("No such entity: " << atomName);
+    }
+    tmpState.insert(getAtomID(atomName)); 
+}
+
+void RctSys::commitInitState(void)
+{
+    initStates.insert(tmpState); 
+    tmpState.clear();
+}
+
+
+void RctSys::addActionAtom(std::string atomName)
+{
+    if (!hasAtom(atomName))
+        addAtom(atomName);
+    actionAtoms.insert(getAtomID(atomName));
+}
+
+bool RctSys::isActionAtom(Atom atom)
+{
+    if (actionAtoms.count(atom) > 0)
+        return true;
+    else
+        return false;
+}
+
+void RctSys::showActionAtoms(void)
+{
+    cout << "# Context entities:";
+    for (auto a = actionAtoms.begin(); a != actionAtoms.end(); ++a)
+    {
+        cout << " " << getAtomName(*a);
+    }
+    cout << endl;
+}
+
+void RctSys::showInitialStates(void)
+{
+    cout << "# Initial states:" << endl;
+    for (auto s = initStates.begin(); s != initStates.end(); ++s)
+    {
+        cout << " *";
+        for (auto a = s->begin(); a != s->end(); ++a)
+        {
+            cout << " " << getAtomName(*a);
+        }
+        cout << endl;
+    }
+}
+
+void RctSys::printSystem(void)
+{
+    showInitialStates();
+    showActionAtoms();
+    showReactions();
+
+}