コード例 #1
0
END_TEST


START_TEST (test_ListOf_clear)
{
  ListOf_t *lo = (ListOf_t*) ListOf_create(2,4);

  SBase_t *sp = (SBase_t*)Species_create(2, 4); 

  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);

  fail_unless( ListOf_size(lo) == 5 );

  /* clear and delete */

  ListOf_clear(lo, 1);

  fail_unless( ListOf_size(lo) == 0 );

  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_appendAndOwn(lo, sp);

  fail_unless( ListOf_size(lo) == 5 );

  /* delete each item */

  SBase_t *elem;
  elem = ListOf_get(lo, 0);
  Species_free((Species_t*) elem);
  elem = ListOf_get(lo, 1);
  Species_free((Species_t*) elem);
  elem = ListOf_get(lo, 2);
  Species_free((Species_t*) elem);
  elem = ListOf_get(lo, 3);
  Species_free((Species_t*) elem);
  elem = ListOf_get(lo, 4);
  Species_free((Species_t*) elem);

  /* clear only */

  ListOf_clear(lo, 0);

  fail_unless( ListOf_size(lo) == 0 );

  ListOf_free(lo);
  
}
コード例 #2
0
END_TEST


START_TEST (test_Species_createWithNS )
{
  XMLNamespaces_t *xmlns = XMLNamespaces_create();
  XMLNamespaces_add(xmlns, "http://www.sbml.org", "testsbml");
  SBMLNamespaces_t *sbmlns = SBMLNamespaces_create(2,1);
  SBMLNamespaces_addNamespaces(sbmlns,xmlns);

  Species_t *object = 
    Species_createWithNS (sbmlns);


  fail_unless( SBase_getTypeCode  ((SBase_t *) object) == SBML_SPECIES );
  fail_unless( SBase_getMetaId    ((SBase_t *) object) == NULL );
  fail_unless( SBase_getNotes     ((SBase_t *) object) == NULL );
  fail_unless( SBase_getAnnotation((SBase_t *) object) == NULL );

  fail_unless( SBase_getLevel       ((SBase_t *) object) == 2 );
  fail_unless( SBase_getVersion     ((SBase_t *) object) == 1 );

  fail_unless( Species_getNamespaces     (object) != NULL );
  fail_unless( XMLNamespaces_getLength(Species_getNamespaces(object)) == 2 );

  Species_free(object);
  XMLNamespaces_free(xmlns);
  SBMLNamespaces_free(sbmlns);
}
コード例 #3
0
END_TEST


/* since the setId function has been used as an
 * alias for setName we cant require it to only
 * be used on a L2 model
START_TEST (test_Species_setId1)
{
  int i = Species_setId(C, "cell");

  fail_unless( i == LIBSBML_UNEXPECTED_ATTRIBUTE );
  fail_unless( !Species_isSetId(C) );
}
END_TEST
*/

START_TEST (test_Species_setId2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setId(c, "1cell");

  fail_unless( i == LIBSBML_INVALID_ATTRIBUTE_VALUE );
  fail_unless( !Species_isSetId(c) );

  Species_free(c);
}
コード例 #4
0
END_TEST


START_TEST (test_L3_Species_hasRequiredAttributes )
{
  Species_t *s = Species_create (3, 1);

  fail_unless ( !Species_hasRequiredAttributes(s));

  Species_setId(s, "id");

  fail_unless ( !Species_hasRequiredAttributes(s));

  Species_setCompartment(s, "cell");

  fail_unless ( !Species_hasRequiredAttributes(s));
  
  Species_setHasOnlySubstanceUnits(s, 0);

  fail_unless ( !Species_hasRequiredAttributes(s));

  Species_setBoundaryCondition(s, 0);

  fail_unless ( !Species_hasRequiredAttributes(s));

  Species_setConstant(s, 0);

  fail_unless ( Species_hasRequiredAttributes(s));

  Species_free(s);
}
コード例 #5
0
END_TEST


START_TEST (test_L3_Species_free_NULL)
{
  Species_free(NULL);
}
コード例 #6
0
END_TEST


START_TEST (test_ListOf_append)
{
  Model_t *m = Model_create(2, 4);
  Model_createCompartment(m);

  ListOf_t *loc = Model_getListOfCompartments(m);

  fail_unless(ListOf_size(loc) == 1);

  SBase_t *c = (SBase_t*)Compartment_create(2, 4);
  int i = ListOf_append(loc, c);

  fail_unless(i == LIBSBML_OPERATION_SUCCESS);
  fail_unless(ListOf_size(loc) == 2);

  SBase_t *sp = (SBase_t*)Species_create(2, 4);
  i = ListOf_append(loc, sp);

  fail_unless(i == LIBSBML_INVALID_OBJECT);
  fail_unless(ListOf_size(loc) == 2);

  Model_free(m);
  Species_free((Species_t*)sp);
}
コード例 #7
0
END_TEST


START_TEST (test_Species_setSpatialSizeUnits)
{
  Species_t *s = 
    Species_create(2, 1);
  const char *units = "volume";


  Species_setSpatialSizeUnits(s, units);

  fail_unless( !strcmp(Species_getSpatialSizeUnits(s), units) );
  fail_unless( Species_isSetSpatialSizeUnits(s) );

  if (Species_getSpatialSizeUnits(s) == units)
  {
    fail("Species_setSpatialSizeUnits(...) did not make a copy of string.");
  }

  /* Reflexive case (pathological) */
  Species_setSpatialSizeUnits(s, Species_getSpatialSizeUnits(s));
  fail_unless( !strcmp(Species_getSpatialSizeUnits(s), units) );

  Species_setSpatialSizeUnits(s, NULL);
  fail_unless( !Species_isSetSpatialSizeUnits(s) );

  if (Species_getSpatialSizeUnits(s) != NULL)
  {
    fail("Species_setSpatialSizeUnits(S, NULL) did not clear string.");
  }

  Species_free(s);
}
コード例 #8
0
END_TEST


START_TEST (test_Reaction_addProductBySpecies)
{
  Species_t *s = Species_create(2, 4);
  Species_setId(s, "s");
  Reaction_addProductBySpecies(R, s, 2.0, "sr", 0);

  fail_unless( Reaction_getNumReactants(R) == 0 );
  fail_unless( Reaction_getNumProducts (R) == 1 );
  fail_unless( Reaction_getNumModifiers(R) == 0 );

  SpeciesReference_t *sr = Reaction_getProduct(R, 0);

  fail_unless(!strcmp(SpeciesReference_getSpecies(sr), "s"));
  fail_unless(util_isEqual(SpeciesReference_getStoichiometry(sr), 2.0) == 1);
  fail_unless(!strcmp(SpeciesReference_getId(sr), "sr"));
  fail_unless(SpeciesReference_getConstant(sr) == 0);

  fail_unless(Reaction_addProductBySpecies(R, s, 1.0, "sr", 0) == LIBSBML_DUPLICATE_OBJECT_ID);
  fail_unless( Reaction_getNumProducts (R) == 1 );

  Species_free(s);
}
コード例 #9
0
END_TEST


START_TEST (test_ListOf_remove)
{
  ListOf_t *lo = (ListOf_t*) ListOf_create(2,4);

  SBase_t *sp = (SBase_t*)Species_create(2, 4);

  fail_unless( ListOf_size(lo) == 0 );

  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);

  fail_unless( ListOf_size(lo) == 5 );

  SBase_t *elem;
  elem = ListOf_remove(lo, 0);
  Species_free((Species_t*) elem);
  elem = ListOf_remove(lo, 0);
  Species_free((Species_t*) elem);
  elem = ListOf_remove(lo, 0);
  Species_free((Species_t*) elem);
  elem = ListOf_remove(lo, 0);
  Species_free((Species_t*) elem);
  elem = ListOf_remove(lo, 0);
  Species_free((Species_t*) elem);

  fail_unless( ListOf_size(lo) == 0 );

  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_append(lo, sp);
  ListOf_appendAndOwn(lo, sp);

  fail_unless( ListOf_size(lo) == 5 );

  ListOf_free(lo);
}
コード例 #10
0
END_TEST


START_TEST (test_L3_Species_initDefaults)
{
  Species_t *s = Species_create(3,1);

  fail_unless( Species_getId     (s) == NULL );
  fail_unless( Species_getName   (s) == NULL );
  fail_unless( Species_getCompartment  (s) == NULL );
  fail_unless( util_isNaN(Species_getInitialAmount (s)) );
  fail_unless( util_isNaN(Species_getInitialConcentration (s)) );
  fail_unless( Species_getSubstanceUnits  (s) == NULL );
  fail_unless( Species_getHasOnlySubstanceUnits(s) == 0   );
  fail_unless( Species_getBoundaryCondition(s) == 0   );
  fail_unless( Species_getConstant(s) == 0   );
  fail_unless( Species_getConversionFactor  (s) == NULL );

  fail_unless( !Species_isSetId     (s) );
  fail_unless( !Species_isSetName   (s) );
  fail_unless( !Species_isSetCompartment (s) );
  fail_unless( !Species_isSetInitialAmount (s) );
  fail_unless( !Species_isSetInitialConcentration (s) );
  fail_unless( !Species_isSetSubstanceUnits  (s) );
  fail_unless( !Species_isSetHasOnlySubstanceUnits(s)   );
  fail_unless( !Species_isSetBoundaryCondition(s)   );
  fail_unless( !Species_isSetConstant(s)   );
  fail_unless( !Species_isSetConversionFactor  (s) );

  Species_initDefaults(s);

  fail_unless( Species_getId     (s) == NULL );
  fail_unless( Species_getName   (s) == NULL );
  fail_unless( Species_getCompartment  (s) == NULL );
  fail_unless( util_isNaN(Species_getInitialAmount (s)) );
  fail_unless( util_isNaN(Species_getInitialConcentration (s)) );
  fail_unless( !strcmp(Species_getSubstanceUnits  (s),"mole" ));
  fail_unless( Species_getHasOnlySubstanceUnits(s) == 0   );
  fail_unless( Species_getBoundaryCondition(s) == 0   );
  fail_unless( Species_getConstant(s) == 0   );
  fail_unless( Species_getConversionFactor  (s) == NULL );

  fail_unless( !Species_isSetId     (s) );
  fail_unless( !Species_isSetName   (s) );
  fail_unless( !Species_isSetCompartment (s) );
  fail_unless( !Species_isSetInitialAmount (s) );
  fail_unless( !Species_isSetInitialConcentration (s) );
  fail_unless( Species_isSetSubstanceUnits  (s) );
  fail_unless( Species_isSetHasOnlySubstanceUnits(s)   );
  fail_unless( Species_isSetBoundaryCondition(s)   );
  fail_unless( Species_isSetConstant(s)   );
  fail_unless( !Species_isSetConversionFactor  (s) );

  Species_free(s);
}
コード例 #11
0
END_TEST


START_TEST (test_L3_Species_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);

  Species_t *s = 
    Species_createWithNS (sbmlns);


  fail_unless( SBase_getTypeCode  ((SBase_t *) s) == SBML_SPECIES );
  fail_unless( SBase_getMetaId    ((SBase_t *) s) == NULL );
  fail_unless( SBase_getNotes     ((SBase_t *) s) == NULL );
  fail_unless( SBase_getAnnotation((SBase_t *) s) == NULL );

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

  fail_unless( Species_getNamespaces     (s) != NULL );
  fail_unless( XMLNamespaces_getLength(Species_getNamespaces(s)) == 2 );


  fail_unless( Species_getId     (s) == NULL );
  fail_unless( Species_getName   (s) == NULL );
  fail_unless( Species_getCompartment  (s) == NULL );
  fail_unless( util_isNaN(Species_getInitialAmount (s)) );
  fail_unless( util_isNaN(Species_getInitialConcentration (s)) );
  fail_unless( Species_getSubstanceUnits  (s) == NULL );
  fail_unless( Species_getHasOnlySubstanceUnits(s) == 0   );
  fail_unless( Species_getBoundaryCondition(s) == 0   );
  fail_unless( Species_getConstant(s) == 0   );
  fail_unless( Species_getConversionFactor  (s) == NULL );

  fail_unless( !Species_isSetId     (s) );
  fail_unless( !Species_isSetName   (s) );
  fail_unless( !Species_isSetCompartment (s) );
  fail_unless( !Species_isSetInitialAmount (s) );
  fail_unless( !Species_isSetInitialConcentration (s) );
  fail_unless( !Species_isSetSubstanceUnits  (s) );
  fail_unless( !Species_isSetHasOnlySubstanceUnits(s)   );
  fail_unless( !Species_isSetBoundaryCondition(s)   );
  fail_unless( !Species_isSetConstant(s)   );
  fail_unless( !Species_isSetConversionFactor  (s) );

  Species_free(s);
  XMLNamespaces_free(xmlns);
  SBMLNamespaces_free(sbmlns);
}
コード例 #12
0
END_TEST


START_TEST (test_Species_setConstant2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setConstant(c, 1);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( Species_getConstant(c) == 1 );

  Species_free(c);
}
コード例 #13
0
END_TEST


START_TEST (test_Species_setCharge3)
{
  Species_t *c = 
    Species_create(2, 1);

  int i = Species_unsetCharge(c);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( !Species_isSetCharge(c));

  Species_free(c);
}
コード例 #14
0
END_TEST


START_TEST (test_Species_setSpatialSizeUnits4)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setSpatialSizeUnits(c, NULL);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( !Species_isSetSpatialSizeUnits(c) );

  Species_free(c);
}
コード例 #15
0
END_TEST


START_TEST (test_Species_setCharge2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setCharge(c, 4);

  fail_unless( i == LIBSBML_UNEXPECTED_ATTRIBUTE );
  fail_unless( !Species_isSetCharge(c));

  Species_free(c);
}
コード例 #16
0
END_TEST


START_TEST (test_Species_setSpatialSizeUnits2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setSpatialSizeUnits(c, "1cell");

  fail_unless( i == LIBSBML_INVALID_ATTRIBUTE_VALUE );
  fail_unless( !Species_isSetSpatialSizeUnits(c) );

  Species_free(c);
}
コード例 #17
0
END_TEST


START_TEST (test_Species_setId3)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setId(c, "cell");

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( Species_isSetId(c) );
  fail_unless( !strcmp(Species_getId(c), "cell" ));

  Species_free(c);
}
コード例 #18
0
END_TEST


START_TEST (test_Species_setSpatialSizeUnits3)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setSpatialSizeUnits(c, "mole");

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( !strcmp(Species_getSpatialSizeUnits(c), "mole") );
  fail_unless( Species_isSetSpatialSizeUnits(c) );

  Species_free(c);
}
コード例 #19
0
END_TEST


START_TEST (test_Species_setName2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setName(c, "1cell");

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( Species_isSetName(c) );

  i = Species_unsetName(c);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( !Species_isSetName(c) );

  Species_free(c);
}
コード例 #20
0
END_TEST


START_TEST (test_Species_setSpeciesType2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setSpeciesType(c, "1cell");

  fail_unless( i == LIBSBML_INVALID_ATTRIBUTE_VALUE );
  fail_unless( !Species_isSetSpeciesType(c) );

  i = Species_unsetSpeciesType(c);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( !Species_isSetSpeciesType(c) );

  Species_free(c);
}
コード例 #21
0
END_TEST


START_TEST (test_Species_setHasOnlySubstanceUnits2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setHasOnlySubstanceUnits(c, 0);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( Species_getHasOnlySubstanceUnits(c) == 0 );

  i = Species_setHasOnlySubstanceUnits(c, 1);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( Species_getHasOnlySubstanceUnits(c) == 1 );

  Species_free(c);
}
コード例 #22
0
END_TEST


START_TEST (test_Species_setInitialAmount2)
{
  Species_t *c = 
    Species_create(2, 2);

  int i = Species_setInitialAmount(c, 4);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( Species_getInitialAmount(c) == 4.0 );
  fail_unless( Species_isSetInitialAmount(c));

  i = Species_unsetInitialAmount(c);

  fail_unless( i == LIBSBML_OPERATION_SUCCESS );
  fail_unless( !Species_isSetInitialAmount(c));

  Species_free(c);
}
コード例 #23
0
END_TEST


//START_TEST (test_Species_createWith)
//{
//  Species_t *s = Species_createWith("Ca", "Calcium");
//
//
//  fail_unless( SBase_getTypeCode  ((SBase_t *) s) == SBML_SPECIES );
//  fail_unless( SBase_getMetaId    ((SBase_t *) s) == NULL );
//  fail_unless( SBase_getNotes     ((SBase_t *) s) == NULL );
//  fail_unless( SBase_getAnnotation((SBase_t *) s) == NULL );
//
//  fail_unless( !strcmp(Species_getName            (s), "Calcium"  ) );
//  fail_unless( Species_getSpatialSizeUnits     (s) == NULL );
//  fail_unless( Species_getHasOnlySubstanceUnits(s) == 0 );
//  fail_unless( Species_getConstant             (s) == 0 );
//
//  fail_unless( !strcmp(Species_getId            (s), "Ca"  ) );
//
//  fail_unless(   Species_isSetId                   (s) );
//  fail_unless(   Species_isSetName                 (s) );
//  fail_unless( ! Species_isSetCompartment          (s) );
//  fail_unless( ! Species_isSetSubstanceUnits       (s) );
//  fail_unless( ! Species_isSetSpatialSizeUnits     (s) );
//  fail_unless( ! Species_isSetUnits                (s) );
//  fail_unless( ! Species_isSetInitialAmount        (s) );
//  fail_unless( ! Species_isSetInitialConcentration (s) );
//  fail_unless( ! Species_isSetCharge               (s) );
//
//  Species_free(s);
//}
//END_TEST


START_TEST (test_Species_free_NULL)
{
  Species_free(NULL);
}
コード例 #24
0
END_TEST


START_TEST (test_Reaction_addModifierBySpecies)
{
  Species_t *s = Species_create(2, 4);
  Species_setId(s, "s");
  Reaction_addModifierBySpecies(R, s, "sr");

  fail_unless( Reaction_getNumReactants(R) == 0 );
  fail_unless( Reaction_getNumProducts (R) == 0 );
  fail_unless( Reaction_getNumModifiers(R) == 1 );

  SpeciesReference_t *sr = Reaction_getModifier(R, 0);

  fail_unless(!strcmp(SpeciesReference_getSpecies(sr), "s"));
  fail_unless(!strcmp(SpeciesReference_getId(sr), "sr"));

  fail_unless(Reaction_addModifierBySpecies(R, s, "sr") == LIBSBML_DUPLICATE_OBJECT_ID);
  fail_unless( Reaction_getNumModifiers (R) == 1 );

  Species_free(s);
}
コード例 #25
0
void
SpeciesTest_teardown (void)
{
  Species_free(S);
}
コード例 #26
0
void
SpeciesTest1_teardown (void)
{
  Species_free(C);
}