Ejemplos de Transition::addInput en C++ (Cpp)

Ejemplo n.º 1

Archivo: TestWriteQualExtension.cpp Proyecto: 0u812/roadrunner-backup

END_TEST


START_TEST (test_QualExtension_create_add_and_write_L3V1V1)
{
  const char* s1 =
    "<?xml version=\"1.0\" encoding=\"UTF-8\"?>\n"
    "<sbml xmlns=\"http://www.sbml.org/sbml/level3/version1/core\" xmlns:qual=\"http://www.sbml.org/sbml/level3/version1/qual/version1\" level=\"3\" version=\"1\" qual:required=\"true\">\n"
    "  <model>\n"
    "    <listOfCompartments>\n"
    "      <compartment id=\"c\" constant=\"true\"/>\n"
    "    </listOfCompartments>\n"
    "    <qual:listOfQualitativeSpecies>\n"
    "      <qual:qualitativeSpecies metaid=\"ddd\" qual:id=\"s1\" qual:compartment=\"c\" qual:constant=\"false\" qual:name=\"sss\" qual:initialLevel=\"1\" qual:maxLevel=\"4\"/>\n"
    "    </qual:listOfQualitativeSpecies>\n"
    "    <qual:listOfTransitions>\n"
    "      <qual:transition sboTerm=\"SBO:0000001\" qual:id=\"d\">\n"
    "        <qual:listOfInputs>\n"
    "          <qual:input qual:id=\"RD\" qual:qualitativeSpecies=\"s1\" qual:transitionEffect=\"none\" qual:name=\"aa\" qual:sign=\"negative\" qual:thresholdLevel=\"2\"/>\n"
    "        </qual:listOfInputs>\n"
    "        <qual:listOfOutputs>\n"
    "          <qual:output qual:id=\"wd\" qual:qualitativeSpecies=\"s1\" qual:transitionEffect=\"production\" qual:name=\"aa\" qual:outputLevel=\"2\"/>\n"
    "        </qual:listOfOutputs>\n"
    "        <qual:listOfFunctionTerms>\n"
		"          <qual:defaultTerm qual:resultLevel=\"1\"/>\n"
		"          <qual:functionTerm qual:resultLevel=\"2\">\n"
    "            <math xmlns=\"http://www.w3.org/1998/Math/MathML\">\n"
		"              <apply>\n"
		"                <geq/>\n"
		"                <ci> s1 </ci>\n"
		"                <cn type=\"integer\"> 2 </cn>\n"
		"              </apply>\n"
		"            </math>\n"
		"          </qual:functionTerm>\n"
		"        </qual:listOfFunctionTerms>\n"
    "      </qual:transition>\n"
    "    </qual:listOfTransitions>\n"
    "  </model>\n"
    "</sbml>\n"
    ;

  QualPkgNamespaces *sbmlns = new QualPkgNamespaces(3,1,1);

  // create the document

  SBMLDocument *document = new SBMLDocument(sbmlns);

  //// mark qual as required

  document->setPackageRequired("qual", true);

  // create the Model

  Model* model= new Model(sbmlns);

  // create the Compartment

  Compartment* compartment = new Compartment(sbmlns);
  compartment->setId("c");
  compartment->setConstant(true);

  fail_unless(model->addCompartment(compartment) == LIBSBML_OPERATION_SUCCESS);

  //// create the QualitativeSpecies

  QualModelPlugin* mplugin = static_cast<QualModelPlugin*>(model->getPlugin("qual"));

  fail_unless(mplugin != NULL);

  QualitativeSpecies* qs = new QualitativeSpecies(sbmlns); 
  fail_unless(qs->setId("s1")               == LIBSBML_OPERATION_SUCCESS);
  fail_unless(qs->setCompartment("c")       == LIBSBML_OPERATION_SUCCESS);
  fail_unless(qs->setConstant(false)        == LIBSBML_OPERATION_SUCCESS);
  fail_unless(qs->setInitialLevel(1)        == LIBSBML_OPERATION_SUCCESS);
  fail_unless(qs->setMaxLevel(4)            == LIBSBML_OPERATION_SUCCESS);
  fail_unless(qs->setName("sss")            == LIBSBML_OPERATION_SUCCESS);
  fail_unless(qs->setMetaId("ddd")          == LIBSBML_OPERATION_SUCCESS);

  fail_unless(mplugin->addQualitativeSpecies(qs) == LIBSBML_OPERATION_SUCCESS);

  Transition* t = new Transition(sbmlns);
  fail_unless(t->setId("d")               == LIBSBML_OPERATION_SUCCESS);
  fail_unless(t->setSBOTerm(1)            == LIBSBML_OPERATION_SUCCESS);

  Input* i = new Input(sbmlns);
  fail_unless(i->setId("RD")                 == LIBSBML_OPERATION_SUCCESS);
  fail_unless(i->setQualitativeSpecies("s1") == LIBSBML_OPERATION_SUCCESS);
  fail_unless(i->setTransitionEffect
  (InputTransitionEffect_fromString("none")) == LIBSBML_OPERATION_SUCCESS);
  fail_unless(i->setSign(InputSign_fromString("negative"))
                                             == LIBSBML_OPERATION_SUCCESS);
  fail_unless(i->setThresholdLevel(2)        == LIBSBML_OPERATION_SUCCESS);
  fail_unless(i->setName("aa")               == LIBSBML_OPERATION_SUCCESS);

  fail_unless(t->addInput(i) == LIBSBML_OPERATION_SUCCESS);

  Output* o = new Output(sbmlns);
  fail_unless(o->setId("wd")                       == LIBSBML_OPERATION_SUCCESS);
  fail_unless(o->setQualitativeSpecies("s1")       == LIBSBML_OPERATION_SUCCESS);
  fail_unless(o->setTransitionEffect
  (OutputTransitionEffect_fromString("production")) == LIBSBML_OPERATION_SUCCESS);
  fail_unless(o->setOutputLevel(2)                 == LIBSBML_OPERATION_SUCCESS);
  fail_unless(o->setName("aa")                     == LIBSBML_OPERATION_SUCCESS);

  fail_unless(t->addOutput(o) == LIBSBML_OPERATION_SUCCESS);

  FunctionTerm* ft = new FunctionTerm(sbmlns);
  ASTNode* math = SBML_parseL3Formula("geq(s1, 2)");
  fail_unless(ft->setResultLevel(2) == LIBSBML_OPERATION_SUCCESS);
  fail_unless(ft->setMath(math)     == LIBSBML_OPERATION_SUCCESS);

  fail_unless(t->addFunctionTerm(ft) == LIBSBML_OPERATION_SUCCESS);

  DefaultTerm* dt = new DefaultTerm(sbmlns);
  fail_unless(dt->setResultLevel(1) == LIBSBML_OPERATION_SUCCESS);


  fail_unless(t->setDefaultTerm(dt) == LIBSBML_OPERATION_SUCCESS);

  fail_unless(mplugin->addTransition(t) == LIBSBML_OPERATION_SUCCESS);

  fail_unless(document->setModel(model) == LIBSBML_OPERATION_SUCCESS);

  char *s2 = writeSBMLToString(document);

  fail_unless(strcmp(s1,s2) == 0); 

  free(s2);

  delete document;  
}