/*!
\brief This function build a new EnzymeReaction based on the given EnzymeReactionProprieties
\param props The proprities class
\return This function return a new EnzymeReaction or null if props is null.
*/
public static IReaction buildEnzymeReactionFromProps(EnzymeReactionProprieties props)
{
if (props == null)
return null;
EnzymeReaction reaction = new EnzymeReaction();
reaction.setName(props.name);
reaction.setSubstrate(props.substrate);
reaction.setEnzyme(props.enzyme);
reaction.setKcat(props.Kcat);
reaction.setEffector(props.effector);
reaction.setAlpha(props.alpha);
reaction.setBeta(props.beta);
reaction.setKm(props.Km);
reaction.setKi(props.Ki);
reaction.setEnergyCost(props.energyCost);
Product newProd;
foreach (Product p in props.products)
{
newProd = new Product(p);
reaction.addProduct(newProd);
}
return reaction;
}
/*!
* \brief This function build a new EnzymeReaction based on the given EnzymeReactionProperties
* \param props The proprities class
* \return This function return a new EnzymeReaction or null if props is null.
*/
public static IReaction buildEnzymeReactionFromProps(EnzymeReactionProperties props)
{
if (props == null)
{
return(null);
}
EnzymeReaction reaction = new EnzymeReaction();
reaction.setName(props.name);
reaction.setSubstrate(props.substrate);
reaction.setEnzyme(props.enzyme);
reaction.setKcat(props.Kcat);
reaction.setEffector(props.effector);
reaction.setAlpha(props.alpha);
reaction.setBeta(props.beta);
reaction.setKm(props.Km);
reaction.setKi(props.Ki);
reaction.setEnergyCost(props.energyCost);
Product newProd;
foreach (Product p in props.products)
{
newProd = new Product(p);
reaction.addProduct(newProd);
}
return(reaction);
}
//! Copy constructor
public EnzymeReaction(EnzymeReaction r) : base(r)
{
_substrate = r._substrate;
_enzyme = r._enzyme;
_Kcat = r._Kcat;
_effector = r._effector;
_alpha = r._alpha;
_beta = r._beta;
_Km = r._Km;
_Ki = r._Ki;
}
//! Copy constructor
public EnzymeReaction(EnzymeReaction r) : base(r)
{
_substrate = r._substrate;
_enzyme = r._enzyme;
_Kcat = r._Kcat;
_effector = r._effector;
_alpha = r._alpha;
_beta = r._beta;
_Km = r._Km;
_Ki = r._Ki;
}
/*!
\brief Load all enzymatic reactions from an xml node
\param node The xml node
\param reactions The list of reactions
\return Return true if succed, false otherwise
*/
public bool loadEnzymeReactions(XmlNode node, LinkedList<IReaction> reactions)
{
XmlNodeList EReactionsList = node.SelectNodes("enzyme");
bool b = true;
foreach (XmlNode EReaction in EReactionsList)
{
EnzymeReaction er = new EnzymeReaction();
foreach (XmlNode attr in EReaction)
{
switch (attr.Name)
{
case "name":
b = b && loadEnzymeString(attr.InnerText, er.setName);
break;
case "substrate":
b = b && loadEnzymeString(attr.InnerText, er.setSubstrate);
break;
case "enzyme":
b = b && loadEnzymeString(attr.InnerText, er.setEnzyme);
break;
case "Kcat":
b = b && loadEnzymeFloat(attr.InnerText, er.setKcat);
break;
case "effector":
b = b && loadEnzymeString(attr.InnerText, er.setEffector);
break;
case "alpha":
b = b && loadEnzymeFloat(attr.InnerText, er.setAlpha);
break;
case "EnergyCost":
b = b && loadEnzymeFloat(attr.InnerText, er.setEnergyCost);
break;
case "beta":
b = b && loadEnzymeFloat(attr.InnerText, er.setBeta);
break;
case "Km":
b = b && loadEnzymeFloat(attr.InnerText, er.setKm);
break;
case "Ki":
b = b && loadEnzymeFloat(attr.InnerText, er.setKi);
break;
case "Products":
b = b && loadEnzymeReactionProducts(attr, er);
break;
}
}
reactions.AddLast(er);
}
return b;
}
private bool loadEnzymeReactionProducts(XmlNode node, EnzymeReaction er)
{
foreach (XmlNode attr in node)
{
if (attr.Name == "name")
{
if (String.IsNullOrEmpty(attr.InnerText))
Debug.Log("Warning : Empty name field in Enzyme Reaction definition");
Product prod = new Product();
prod.setName(node.InnerText);
er.addProduct(prod);
}
}
return true;
}
/* !
* \brief Checks that two reactions have the same EnzymeReaction field values.
* \param reaction The reaction that will be compared to 'this'.
*/
protected override bool PartialEquals(IReaction reaction)
{
EnzymeReaction enzyme = reaction as EnzymeReaction;
return((enzyme != null) &&
base.PartialEquals(reaction) &&
(_substrate == enzyme._substrate) &&
(_enzyme == enzyme._enzyme) &&
(_Kcat == enzyme._Kcat) &&
(_effector == enzyme._effector) &&
(_alpha == enzyme._alpha) &&
(_beta == enzyme._beta) &&
(_Km == enzyme._Km) &&
(_Ki == enzyme._Ki));
}
