C++ (Cpp) Compartment_getOutside Examples

Example #1

File: TestCompartment.c Project: sys-bio/libroadrunner-deps

END_TEST


START_TEST (test_Compartment_setOutside)
{
  const char *outside = "cell";


  Compartment_setOutside(C, outside);

  fail_unless( !strcmp(Compartment_getOutside(C), outside) );
  fail_unless( Compartment_isSetOutside(C)  );

  if (Compartment_getOutside(C) == outside)
  {
    fail("Compartment_setOutside(...) did not make a copy of string.");
  }

  /* Reflexive case (pathological) */
  Compartment_setOutside(C, Compartment_getOutside(C));
  fail_unless( !strcmp(Compartment_getOutside(C), outside) );

  Compartment_setOutside(C, NULL);
  fail_unless( !Compartment_isSetOutside(C) );

  if (Compartment_getOutside(C) != NULL)
  {
    fail("Compartment_setOutside(C, NULL) did not clear string.");
  }
}

Example #2

File: TestCompartment.c Project: sys-bio/libroadrunner-deps

END_TEST


START_TEST (test_Compartment_initDefaults)
{
  Compartment_t *c = Compartment_create(2, 4);
    
  Compartment_setId(c, "A");
  Compartment_initDefaults(c);

  fail_unless( !strcmp(Compartment_getId     (c), "A"));
  fail_unless( Compartment_getName   (c) == NULL );
  fail_unless( Compartment_getUnits  (c) == NULL );
  fail_unless( Compartment_getOutside(c) == NULL );

  fail_unless( Compartment_getSpatialDimensions(c) == 3   );
  fail_unless( Compartment_getVolume           (c) == 1.0 );
  fail_unless( Compartment_getConstant         (c) == 1   );

  fail_unless( Compartment_isSetId     (c) );
  fail_unless( !Compartment_isSetName   (c) );
  fail_unless( !Compartment_isSetSize   (c) );
  fail_unless( !Compartment_isSetVolume (c) );
  fail_unless( !Compartment_isSetUnits  (c) );
  fail_unless( !Compartment_isSetOutside(c) );
  fail_unless( Compartment_isSetSpatialDimensions(c) );
  fail_unless( Compartment_isSetConstant(c) );
  
  Compartment_free(c);
}

Example #3

File: printModel.c Project: igemsoftware/USTC-Software_2011

void printSpecies(Model_t *m, FILE *f)
{
  int i, j;
  Species_t *s;  
  Compartment_t *c;

  fprintf(f, "\n");
  fprintf(f, "# Initial Conditions for Species and Compartments:\n");
  for ( i=0; i<Model_getNumCompartments(m); i++ ) {
    if ( i== 0 ) fprintf(f, "# Compartments:\n");
    c = Model_getCompartment(m,i);
    if(Compartment_isSetId(c))
      fprintf(f, "%s ", Compartment_getId(c));
    if(Compartment_isSetName(c))
      fprintf(f, "(%s) ", Compartment_getName(c));
    if ( Compartment_isSetVolume(c) )
     fprintf(f, "= %g; ", Compartment_getSize(c));
    fprintf(f, "%s", Compartment_getConstant(c) ? "" : "variable; ");
    if(Compartment_isSetOutside(c))
      fprintf(f, "outside %s; ", Compartment_getOutside(c));
   /*  fprintf(f, "\n"); */
    fprintf(f, "dimensions %d; ", Compartment_getSpatialDimensions(c));

    if(Compartment_isSetUnits(c))
      fprintf(f, "[%s]; ", Compartment_getUnits(c));
    fprintf(f, "\n");
    
    fprintf(f, "# Species concentrations in `compartment' %s\n",
	   Compartment_getId(c));
    for(j=0;j<Model_getNumSpecies(m);j++){
      s = Model_getSpecies(m,j);      
      if(strcmp(Species_getCompartment(s), Compartment_getId(c))==0){  

	fprintf(f, "%s ", Species_getId(s));
	if(Species_isSetName(s))
	  fprintf(f, "(%s) ", Species_getName(s));
	
	if ( Species_isSetInitialAmount(s) )
	  fprintf(f, "= %g/%g; ",
		 Species_getInitialAmount(s),
		 Compartment_getSize(c));
	else if ( Species_isSetInitialConcentration(s) )
	  fprintf(f, "= %g; ", Species_getInitialConcentration(s));
	else
	  fprintf(f, "# no initial value;");	
	fprintf(f, "%s", Species_getBoundaryCondition(s) ? "boundary;" : "");
	fprintf(f, "%s", Species_getConstant(s) ? "constant;" : "");
	if(Species_isSetCharge(s))
	  fprintf(f, "charge = %d; ", Species_getCharge(s));

	fprintf(f, "\n");
      }     
    }
    fprintf(f, "\n");  
  }  
}

Example #4

File: TestL3Compartment.c Project: kirichoi/roadrunner

END_TEST


START_TEST (test_L3_Compartment_createWithNS )
{
  XMLNamespaces_t *xmlns = XMLNamespaces_create();
  XMLNamespaces_add(xmlns, "http://www.sbml.org", "testsbml");
  SBMLNamespaces_t *sbmlns = SBMLNamespaces_create(3,1);
  SBMLNamespaces_addNamespaces(sbmlns,xmlns);

  Compartment_t *c = 
    Compartment_createWithNS (sbmlns);


  fail_unless( SBase_getTypeCode  ((SBase_t *) c) == SBML_COMPARTMENT );
  fail_unless( SBase_getMetaId    ((SBase_t *) c) == NULL );
  fail_unless( SBase_getNotes     ((SBase_t *) c) == NULL );
  fail_unless( SBase_getAnnotation((SBase_t *) c) == NULL );

  fail_unless( SBase_getLevel       ((SBase_t *) c) == 3 );
  fail_unless( SBase_getVersion     ((SBase_t *) c) == 1 );

  fail_unless( Compartment_getNamespaces     (c) != NULL );
  fail_unless( XMLNamespaces_getLength(Compartment_getNamespaces(c)) == 2 );


  fail_unless( Compartment_getId     (c) == NULL );
  fail_unless( Compartment_getName   (c) == NULL );
  fail_unless( Compartment_getUnits  (c) == NULL );
  fail_unless( Compartment_getOutside(c) == NULL );

  fail_unless( util_isNaN(Compartment_getSpatialDimensionsAsDouble(c))   );
  fail_unless( util_isNaN(Compartment_getVolume(c)));
  fail_unless( Compartment_getConstant(c) == 1   );

  fail_unless( !Compartment_isSetId     (c) );
  fail_unless( !Compartment_isSetSpatialDimensions (c) );
  fail_unless( !Compartment_isSetName   (c) );
  fail_unless( !Compartment_isSetSize   (c) );
  fail_unless( !Compartment_isSetVolume (c) );
  fail_unless( !Compartment_isSetUnits  (c) );
  fail_unless( !Compartment_isSetOutside(c) );
  fail_unless( !Compartment_isSetConstant(c) );

  Compartment_free(c);
  XMLNamespaces_free(xmlns);
  SBMLNamespaces_free(sbmlns);
}