Ejemplo n.º 1
0
void
Model::dealWithModelUnits()
{
  UnitRefsFilter filter;
  List * elements = getAllElements(&filter);
  unsigned int n = 0;
  unsigned int num = elements->getSize();
  
  if (isSetVolumeUnits())
  {
    std::string volume = getVolumeUnits();
    // if in an L3 model a user used volume as an id of a UnitDefinition
    // but they declared the volume units of teh model to be something 
    // else then the UD with id volume is nothing to do with the 
    // L2 interpretation of volume
    // so replace that UD and all references to it 
    if (volume != "volume")
    {
      UnitDefinition * existingUD = removeUnitDefinition("volume");
      if (existingUD != NULL)
      {
        std::string newSubsName = "volumeFromOriginal";
        existingUD->setId(newSubsName);
        SBase* obj;
        for (n = 0; n < num; n++)
        {
          obj = (SBase*)(elements->get(n));
          obj->renameUnitSIdRefs("volume", newSubsName);
        }
        addUnitDefinition(existingUD);
      }
    }
    UnitDefinition * ud = getUnitDefinition(volume) != NULL ? 
                          getUnitDefinition(volume)->clone() : NULL;
    if (ud != NULL)
    {
      ud->setId("volume");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(volume.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("volume");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetAreaUnits())
  {
    std::string area = getAreaUnits();
    // if in an L3 model a user used area as an id of a UnitDefinition
    // but they declared the area units of teh model to be something 
    // else then the UD with id area is nothing to do with the 
    // L2 interpretation of area
    // so replace that UD and all references to it 
    if (area != "area")
    {
      UnitDefinition * existingUD = removeUnitDefinition("area");
      if (existingUD != NULL)
      {
        std::string newSubsName = "areaFromOriginal";
        existingUD->setId(newSubsName);
        SBase* obj;
        for (n = 0; n < num; n++)
        {
          obj = (SBase*)(elements->get(n));
          obj->renameUnitSIdRefs("area", newSubsName);
        }
        addUnitDefinition(existingUD);
      }
    }
    UnitDefinition * ud = getUnitDefinition(area) != NULL ? 
                          getUnitDefinition(area)->clone() : NULL;
    if (ud != NULL)
    {
      ud->setId("area");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(area.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("area");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetLengthUnits())
  {
    std::string length = getLengthUnits();
    // if in an L3 model a user used length as an id of a UnitDefinition
    // but they declared the length units of teh model to be something 
    // else then the UD with id length is nothing to do with the 
    // L2 interpretation of length
    // so replace that UD and all references to it 
    if (length != "length")
    {
      UnitDefinition * existingUD = removeUnitDefinition("length");
      if (existingUD != NULL)
      {
        std::string newSubsName = "lengthFromOriginal";
        existingUD->setId(newSubsName);
        SBase* obj;
        for (n = 0; n < num; n++)
        {
          obj = (SBase*)(elements->get(n));
          obj->renameUnitSIdRefs("length", newSubsName);
        }
        addUnitDefinition(existingUD);
      }
    }
    UnitDefinition * ud = getUnitDefinition(length) != NULL ? 
                          getUnitDefinition(length)->clone() : NULL;
    if (ud != NULL)
    {
      ud->setId("length");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(length.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("length");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetSubstanceUnits())
  {
    std::string substance = getSubstanceUnits();
    // if in an L3 model a user used substance as an id of a UnitDefinition
    // but they declared the substance units of teh model to be something 
    // else then the UD with id substance is nothing to do with the 
    // L2 interpretation of substance
    // so replace that UD and all references to it 
    if (substance != "substance")
    {
      UnitDefinition * existingUD = removeUnitDefinition("substance");
      if (existingUD != NULL)
      {
        std::string newSubsName = "substanceFromOriginal";
        existingUD->setId(newSubsName);
        SBase* obj;
        for (n = 0; n < num; n++)
        {
          obj = (SBase*)(elements->get(n));
          obj->renameUnitSIdRefs("substance", newSubsName);
        }
        addUnitDefinition(existingUD);
      }
    }
    UnitDefinition * ud = getUnitDefinition(substance) != NULL ? 
                          getUnitDefinition(substance)->clone() : NULL;
    if (ud != NULL)
    {
      ud->setId("substance");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(substance.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("substance");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetTimeUnits())
  {
    std::string time = getTimeUnits();
    // if in an L3 model a user used time as an id of a UnitDefinition
    // but they declared the time units of teh model to be something 
    // else then the UD with id time is nothing to do with the 
    // L2 interpretation of time
    // so replace that UD and all references to it 
    if (time != "time")
    {
      UnitDefinition * existingUD = removeUnitDefinition("time");
      if (existingUD != NULL)
      {
        std::string newSubsName = "timeFromOriginal";
        existingUD->setId(newSubsName);
        SBase* obj;
        for (n = 0; n < num; n++)
        {
          obj = (SBase*)(elements->get(n));
          obj->renameUnitSIdRefs("time", newSubsName);
        }
        addUnitDefinition(existingUD);
      }
    }
    UnitDefinition * ud = getUnitDefinition(time) != NULL ? 
                          getUnitDefinition(time)->clone() : NULL;
    if (ud != NULL)
    {
      ud->setId("time");
    }
    else
    {
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("time");
      Unit *u = ud->createUnit();
      u->initDefaults();
      u->setKind(UnitKind_forName(time.c_str()));
    }
    addUnitDefinition(ud);
  }
}
Ejemplo n.º 2
0
void
Model::dealWithModelUnits()
{
  if (isSetVolumeUnits())
  {
    std::string volume = getVolumeUnits();
    UnitDefinition * ud = removeUnitDefinition(volume);
    if (ud != NULL)
    {
      ud->setId("volume");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(volume.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("volume");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetAreaUnits())
  {
    std::string area = getAreaUnits();
    UnitDefinition * ud = removeUnitDefinition(area);
    if (ud != NULL)
    {
      ud->setId("area");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(area.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("area");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetLengthUnits())
  {
    std::string length = getLengthUnits();
    UnitDefinition * ud = removeUnitDefinition(length);
    if (ud != NULL)
    {
      ud->setId("length");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(length.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("length");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetSubstanceUnits())
  {
    std::string substance = getSubstanceUnits();
    UnitDefinition * ud = removeUnitDefinition(substance);
    if (ud != NULL)
    {
      ud->setId("substance");
    }
    else
    {
      Unit *u = new Unit(getSBMLNamespaces());
      u->initDefaults();
      u->setKind(UnitKind_forName(substance.c_str()));
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("substance");
      ud->addUnit(u);
    }
    addUnitDefinition(ud);
  }
  if (isSetTimeUnits())
  {
    std::string time = getTimeUnits();
    UnitDefinition * ud = removeUnitDefinition(time);
    if (ud != NULL)
    {
      ud->setId("time");
    }
    else
    {
      ud = new UnitDefinition(getSBMLNamespaces());
      ud->setId("time");
      Unit *u = ud->createUnit();
      u->initDefaults();
      u->setKind(UnitKind_forName(time.c_str()));
    }
    addUnitDefinition(ud);
  }
}