コード例 #1
0
END_TEST


START_TEST (test_GroupsExtension_read_L3V1V1_defaultNS)
{
  char *filename = safe_strcat(TestDataDirectory, "groups-example1-defaultNS.xml");
  SBMLDocument *document = readSBMLFromFile(filename);
  
  fail_unless(document->getPackageName() == "core");

  Model *model = document->getModel();

  document->printErrors();

  fail_unless(model != NULL);
  fail_unless(document->getNumErrors() == 0);

  // get the Group

  GroupsModelPlugin* mplugin = static_cast<GroupsModelPlugin*>(model->getPlugin("groups"));
  fail_unless(mplugin != NULL);

  fail_unless(mplugin->getNumGroups() == 1);
  fail_unless(mplugin->getListOfGroups()->getPackageName() == "groups");

  Group* group = mplugin->getGroup(0);
  fail_unless(group->getId()          == "ATP");
  fail_unless(group->getSBOTermID()   == "SBO:0000252");
  fail_unless(group->getKind()        == GROUP_KIND_CLASSIFICATION);
  fail_unless(group->isSetKind()      == true);
  fail_unless(!strcmp(GroupKind_toString(group->getKind()), "classification"));
  fail_unless(group->getNumMembers()  == 2);
  fail_unless(group->getPackageName() == "groups");

  fail_unless(group->getListOfMembers()->getPackageName() == "groups");

  Member* member = group->getMember(0);
  fail_unless(member->getIdRef()      == "ATPc");
  fail_unless(member->getPackageName() == "groups");

  member = group->getMember(1);
  fail_unless(member->getIdRef()      == "ATPm");
  fail_unless(member->getPackageName() == "groups");

  delete document;  
  safe_free(filename);
}
コード例 #2
0
END_TEST


START_TEST (test_GroupsModelPlugin_copyNesting2)
{
  //GroupsPkgNamespaces gpn;
  //SBMLDocument doc(&gpn);
  char *filename = safe_strcat(TestDataDirectory, "groups-nested1.xml");
  SBMLDocument *document = readSBMLFromFile(filename);
  Model* model = document->getModel();
  fail_unless(model != NULL);
  GroupsModelPlugin* mplugin = static_cast<GroupsModelPlugin*>(model->getPlugin("groups"));
  fail_unless(mplugin != NULL);

  fail_unless(mplugin->getNumGroups() == 4);
  Group* group1 = mplugin->getGroup(0);
  Group* group2 = mplugin->getGroup(1);
  Group* group3 = mplugin->getGroup(2);
  Group* group4 = mplugin->getGroup(3);
  group3->getListOfMembers()->setSBOTerm(5);
  mplugin->copyInformationToNestedLists();
  fail_unless(!group1->getListOfMembers()->isSetSBOTerm());
  fail_unless( group2->getListOfMembers()->getSBOTerm() == 5);
  fail_unless( group3->getListOfMembers()->getSBOTerm() == 5);
  fail_unless( group4->getListOfMembers()->getSBOTerm() == 252);

  group4->getListOfMembers()->setNotes("These are some notes, v1.", true);
  group3->getListOfMembers()->setNotes("These are some notes, v2.", true);
  mplugin->copyInformationToNestedLists();
  fail_unless(!group1->getListOfMembers()->isSetNotes());
  fail_unless( group2->getListOfMembers()->getNotesString().find("These are some notes, v2.") != string::npos);
  fail_unless( group3->getListOfMembers()->getNotesString().find("These are some notes, v2.") != string::npos);
  fail_unless( group4->getListOfMembers()->getNotesString().find("These are some notes, v1.") != string::npos);

  group4->getListOfMembers()->setAnnotation("This is a malformed annotation, v1.");
  group3->getListOfMembers()->setAnnotation("This is a malformed annotation, v2.");
  mplugin->copyInformationToNestedLists();
  fail_unless(!group1->getListOfMembers()->isSetAnnotation());
  fail_unless( group2->getListOfMembers()->getAnnotationString().find("This is a malformed annotation, v2.") != string::npos);
  fail_unless( group3->getListOfMembers()->getAnnotationString().find("This is a malformed annotation, v2.") != string::npos);
  fail_unless( group4->getListOfMembers()->getAnnotationString().find("This is a malformed annotation, v1.") != string::npos);

  delete document;
  safe_free((void*)(filename));
}
コード例 #3
0
END_TEST


START_TEST (test_GroupsExtension_read_memberConstraints)
{
  char *filename = safe_strcat(TestDataDirectory, "groups_speciestype_example.xml");
  SBMLDocument *document = readSBMLFromFile(filename);
  fail_unless(document->getPackageName() == "core");

  Model *model = document->getModel();

  fail_unless(model != NULL);
  fail_unless(model->getPackageName() == "core");
  fail_unless(document->getNumErrors() == 0);

  // get the Group

  GroupsModelPlugin* mplugin = static_cast<GroupsModelPlugin*>(model->getPlugin("groups"));
  fail_unless(mplugin != NULL);

  fail_unless(mplugin->getNumGroups() == 1);
  fail_unless(mplugin->getListOfGroups()->getPackageName() == "groups");

  Group* group = mplugin->getGroup(0);
  fail_unless(group->getId()          == "ATP");
  fail_unless(group->getKind()        == GROUP_KIND_CLASSIFICATION);
  fail_unless(group->getNumMembers()  == 2);
  fail_unless(group->getNumMemberConstraints() == 3);
  fail_unless(group->getPackageName() == "groups");

  fail_unless(group->getListOfMembers()->getPackageName() == "groups");
  fail_unless(group->getListOfMembers()->getSBOTermID()   == "SBO:0000248");

  Member* member = group->getMember(0);
  fail_unless(member->getIdRef()      == "ATPc");
  fail_unless(member->getPackageName() == "groups");

  member = group->getMember(1);
  fail_unless(member->getIdRef()      == "ATPm");
  fail_unless(member->getPackageName() == "groups");

  ListOfMemberConstraints* lomcs = group->getListOfMemberConstraints();
  fail_unless(lomcs->getPackageName() == "groups");
  fail_unless(lomcs->isSetMembersShareType() == true);
  fail_unless(lomcs->getMembersShareType() == true);

  MemberConstraint* mc = group->getMemberConstraint(0);
  fail_unless(mc->isSetDistinctAttribute() == true);
  fail_unless(mc->isSetIdenticalAttribute() == false);
  fail_unless(mc->getDistinctAttribute() == "compartment");
  fail_unless(mc->getPackageName() == "groups");

  mc = group->getMemberConstraint(1);
  fail_unless(mc->isSetDistinctAttribute() == false);
  fail_unless(mc->isSetIdenticalAttribute() == true);
  fail_unless(mc->getIdenticalAttribute() == "initialConcentration");
  fail_unless(mc->getPackageName() == "groups");

  mc = group->getMemberConstraint(2);
  fail_unless(mc->isSetDistinctAttribute() == false);
  fail_unless(mc->isSetIdenticalAttribute() == true);
  fail_unless(mc->getIdenticalAttribute() == "constant");
  fail_unless(mc->getPackageName() == "groups");


  delete document;  
}