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CelloModeling removed unnecessary code
This commit is contained in:
Pedro Fontanarrosa 2019-04-26 09:52:47 -06:00
parent 412c01c44a
commit 507aa6f3f7
3 changed files with 68 additions and 23 deletions
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42
dataModels/src/main/java/edu/utah/ece/async/ibiosim/dataModels/biomodel/parser/BioModel.java
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@ -2019,6 +2019,21 @@ public class BioModel extends CoreObservable{
return r;
}
/**
* Creates the cello SD production reactions.
*
* @author Pedro Fontanarrosa
* @param mRNA the m RNA
* @param reactionID the reaction ID
* @param TU the tu
* @param kSDdegrad the k S ddegrad
* @param onPort the on port
* @param dimensions the dimensions
* @param targetModel the target model
* @param promoters the promoters
* @param promoterInteractions the promoter interactions
* @return the reaction
*/
//TODO PEDRO createCelloSDProductionReaction
public Reaction createCelloSDProductionReactions(Species mRNA, String reactionID, String TU, String kSDdegrad, boolean onPort, String[] dimensions, BioModel targetModel, Set <String> promoters, HashMap<String, HashMap <String, String>> promoterInteractions) {
@ -2135,6 +2150,23 @@ public class BioModel extends CoreObservable{
return r;
}
/**
* Creates the cello TF production reactions.
*
* @author Pedro Fontanarrosa
* @param mRNA the m RNA
* @param rxnID the rxn ID
* @param products the products
* @param celloParameters the cello parameters
* @param kTFdegrad the k T fdegrad
* @param ko the ko
* @param kb the kb
* @param KoStr the ko str
* @param KaoStr the kao str
* @param onPort the on port
* @param dimensions the dimensions
* @return the reaction
*/
//TODO PEDRO createCelloTFProductionReaction
public Reaction createCelloTFProductionReactions(Species mRNA, String rxnID, List<Participation> products, HashMap<String, List<String>> celloParameters, String kTFdegrad, String ko,
String kb, String KoStr, String KaoStr, boolean onPort, String[] dimensions) {
@ -2264,6 +2296,16 @@ public class BioModel extends CoreObservable{
return reaction;
}
/**
* Creates the cello production kinetic law.
*
* @author Pedro Fontanarrosa
* @param reaction the reaction
* @param celloParameters the cello parameters
* @param promoterInteractions the promoter interactions
* @param promoters the promoters
* @return the string
*/
//TODO PEDRO createCelloProductionKineticLaw
public static String createCelloProductionKineticLaw(Reaction reaction, HashMap<String, List<String>> celloParameters, HashMap<String, HashMap <String, String>> promoterInteractions, Set<String> promoters) {
String kineticLaw = "";