Added export to XML (for data sharing with GUI)

reactics-bdd/export.cc

@@ -808,3 +808,106 @@ string RSExporter::formulaToStr(const FormRSCTLK * form) {
             return "??";
     }
 }
+
+
+void RSExporter::exportToXML() {
+    output << "<xml version=\"1.0\">\n"
+           << indent << "<reaction-system>\n";
+
+    for (Process proc=0; proc<rs->getNumberOfProcesses(); ++proc) {
+        output << indent << indent << "<process name=\"" << rs->processes_ids[proc] << "\">\n";
+
+        for (const auto & reaction : rs->proc_reactions[proc]) {
+            output << indent << indent << indent << "<reaction>\n";
+
+            for (const Entity & e : reaction.rctt) {
+                output << indent << indent << indent << indent
+                       << "<reactant>" << rs->getEntityName(e) << "</reactant>\n";
+            }
+
+            for (const Entity & e : reaction.inhib) {
+                output << indent << indent << indent << indent
+                       << "<inhibitor>" << rs->getEntityName(e) << "</inhibitor>\n";
+            }
+
+            for (const Entity & e : reaction.prod) {
+                output << indent << indent << indent << indent
+                       << "<product>" << rs->getEntityName(e) << "</product>\n";
+            }
+
+            output << indent << indent << indent << "</reaction>\n";
+        }
+
+        output << indent << indent << "</process>\n";
+    }
+
+    output << indent << "</reaction-system>\n";
+
+    output << indent << "<context-automaton>\n";
+
+    for (unsigned stId=0; stId<rs->ctx_aut->states_ids.size(); ++stId) {
+        if (rs->ctx_aut->states_ids[stId] == "T")
+            continue;
+
+        output << indent << indent << "<state id=\"" << stId + 1 << "\" name=\"" 
+               << rs->ctx_aut->states_ids[stId] << "\" x=\"0\" y=\"0\"";
+
+        if (rs->ctx_aut->init_state_defined && stId == rs->ctx_aut->init_state_id)
+            output << " initial=\"true\"";
+
+        output << "/>\n";
+    }
+
+    vector<map<State, vector<CtxAutTransition>>> edges(rs->ctx_aut->states_ids.size());
+
+    for (const CtxAutTransition & trans : rs->ctx_aut->transitions) {
+        if (rs->ctx_aut->states_ids[trans.src_state] == "T" || rs->ctx_aut->states_ids[trans.dst_state] == "T")
+            continue;
+
+        edges[trans.src_state][trans.dst_state].push_back(trans);
+    }
+
+    for (unsigned src=0; src<edges.size(); ++src) {
+        for (const auto &dst : edges[src]) {
+            output << indent << indent << "<edge from=\"" << rs->ctx_aut->getStateName(src)
+                   << "\" to=\"" << rs->ctx_aut->getStateName(dst.first) << "\">\n"; 
+
+            for (const CtxAutTransition &trans : dst.second) {
+                output << indent << indent << indent << "<transition context=\"" << rs->procEntitiesToStr(trans.ctx) << "\"";
+                
+                if (trans.state_constr)
+                    output << " guard=\"" << trans.state_constr->toStr() << "\"";
+                    
+                output << "/>\n";
+            }
+            
+
+            output << indent << indent << "</edge>\n";
+        }
+    }
+
+    output << indent << "</context-automaton>\n";
+
+    output << indent << "<formulas>\n";
+
+    for (const auto & prop : drv->properties) {
+        string fStr = "";
+
+        for (const char ch : prop.second->toStr()) {
+            if (ch == '<')
+                fStr += "&lt;";
+            else if (ch =='>')
+                fStr += "&gt;";
+            else
+                fStr += ch;
+        }
+
+        output << indent << indent << indent << "<formula label=\"" << prop.first <<"\">"
+               << fStr << "</formula>\n";
+
+    }
+
+    output << indent << "</formulas>\n";
+
+    output << "</xml>" << endl;
+}

reactics-bdd/export.hh

@@ -14,6 +14,8 @@ public:
     RSExporter(RctSys *rs, rsin_driver *drv, std::ostream & outStream = std::cout);
 
     void exportToISPL();
+    void exportToXML();
+    
 private:
     RctSys *rs;
     rsin_driver *drv;

reactics-bdd/reactics.cc

@@ -17,6 +17,7 @@ int main(int argc, char **argv)
   bool reach_states = false;
   bool reach_states_succ = false;
   bool export_to_ispl = false;
+  bool export_to_xml = false;
   bool bmc = true;
   bool benchmarking = false;
   bool dump_help_message = false;
@@ -32,7 +33,7 @@ int main(int argc, char **argv)
   int c;
   int option_index = 0;
 
-  while ((c = getopt_long(argc, argv, "c:bBmpPrsStTvXheEG", long_options,
+  while ((c = getopt_long(argc, argv, "c:bBmpPrsStTvXheyEG", long_options,
                           &option_index)) != -1) {
     switch (c) {
       case 0:
@@ -57,6 +58,10 @@ int main(int argc, char **argv)
         export_to_ispl = true;
         break;
 
+      case 'y':
+        export_to_xml = true;
+        break;
+
       //case 'b':
       //    printf("-b with %s\n", optarg);
       //    break;
@@ -141,7 +146,7 @@ int main(int argc, char **argv)
   }
 
   if (!(reach_states || reach_states_succ || rstl_model_checking
-        || show_reactions || print_parsed_sys || export_to_ispl)) {
+        || show_reactions || print_parsed_sys || export_to_ispl || export_to_xml)) {
     FERROR("No task specified: -c, -P, -r, -s, or -e needs to be used");
   }
 
@@ -176,7 +181,7 @@ int main(int argc, char **argv)
     rs.printSystem();
   }
 
-  if (reach_states || reach_states_succ || rstl_model_checking || export_to_ispl) {
+  if (reach_states || reach_states_succ || rstl_model_checking || export_to_ispl || export_to_xml) {
     SymRS srs(&rs, opts);
 
     ModelChecker mc(&srs, opts);
@@ -194,6 +199,11 @@ int main(int argc, char **argv)
       exp.exportToISPL();
     }
 
+    if (export_to_xml) {
+      RSExporter exp(&rs, &driver);
+      exp.exportToXML();
+    }
+
     if (rstl_model_checking) {
       if (bmc) {
         cout << "Using BDD-based Bounded Model Checking" << endl;
@@ -269,6 +279,7 @@ void print_help(std::string path_str)
        << "  -v       -- verbose (use more than once to increase verbosity)" << endl
        << "  -p       -- show progress (where possible)" << endl
        << "  -X       -- backend mode (makes output parsing easier)" << endl
+       << "  -y       -- export to XML (for GUI tool)" << endl
        << endl
        << " Optimisations:" << endl
        << "  -E       -- disable auto-reordering optimisation of BDDs" << endl