slv-utils

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"Number of scan parameters ", "rawValue": [ "53 " ], "parsedValue": [ { "type": "number", "value": 53 } ] }, { "key": "ABsolute Fitting ", "rawValue": [ "1 " ], "parsedValue": [ { "type": "number", "value": 1 } ] }, { "key": "Variables for FileOutput ", "rawValue": [ "S1 X[3] X[4] X[5] X[6] X[7] v1 #### " ], "parsedValue": [ { "type": "strings", "value": [ "S1", "", "X[3]", "", "X[4]", "", "X[5]", "", "X[6]", "", "X[7]", "", "v1", "", "", "", "####" ] } ] }, { "key": "Variables for FileOutputOn ", "rawValue": [ " #### " ], "parsedValue": [ { "type": "strings", "value": [ "####" ] } ] }, { "key": "(Internal) Temporary Print Option ", "rawValue": [ "0 " ], "parsedValue": [ { "type": "number", "value": 0 } ] }, { "key": "LeastFitting ", "rawValue": [ "1 " ], "parsedValue": [ { "type": "number", "value": 1 } ] }, { "key": "Output File Name ", "rawValue": [ "output2.txt " ], "parsedValue": [ [ { "type": "string", "value": "output2" }, { "type": "strings", "value": [ ".txt" ] } ] ] }, { "key": "Experimental Data File Name ", "rawValue": [ "pw.dat " ], "parsedValue": [ [ { "type": "string", "value": "pw" }, { "type": "strings", "value": [ ".dat" ] } ] ] }, { "key": "\nRight Hand Sides && \nInitial Values && \nComments Or Selkov DB record", "rawValue": [ "\n//! Pools \nP=-S+Pool[1];// for P \n//! Volume of compartments \n//! Compound administration \n//! Rate laws \n//!!v1 \n/*{ \n class:\"reaction\", \n id:\"v1\", \n variableRef:\"v1\", \n reactants:[ \n {species:\"S\",stoichiometry:-1}, \n {species:\"P\",stoichiometry:1} \n ] \n}*/ \n/*{ \n class: \"variable\", \n id:\"v1\", \n kind: \"Rule\", \n path: \"/start\", \n name:\"v1\", \n notes:\"Hill equation\", \n units:\"uM/min\" \n}*/ \nv1=Vmax*S^h/(Km^h+S^h); \n//! Differential equations \n//for S \nF[1]=-v1; \n//for P \nF[2]=v1; \n//! Explicit functions ", "\n//! Data comments \n//! Compound administration \n//! Compound action on target \n//! Auxiliary parameters \n//! Compartment volumes \n//! Initial concentrations \n/*{ \n class: \"species\", \n id:\"S\", \n name:\"substrate\", \n notes:\"concentration of substrate\" \n}*/ \n/*{ \n class: \"variable\", \n id:\"S\", \n kind: \"Dynamic\", \n path: \"/start\", \n name:\"S\", \n notes:\"dynamic variable, decrease by time\", \n units:\"uM\" \n}*/ \nS=0.01; \n/*{ \n class: \"species\", \n id:\"P\", \n name:\"product\", \n notes:\"concentration of product of reaction\" \n}*/ \n/*{ \n class: \"variable\", \n id:\"P\", \n kind: \"Dynamic\", \n path: \"/start\", \n name:\"P\", \n notes:\"dynamic variable, increase by time\", \n units:\"uM\" \n}*/ \nP=0; \n//! Kinetic parameters \n/*{ \n class: \"variable\", \n id:\"Vmax\", \n kind: \"Static\", \n path: \"/start\", \n name:\"Vmax\", \n notes:\"value was supposed\", \n units:\"uM/min\" \n}*/ \nVmax=10;//v1 \n/*{ \n class: \"variable\", \n id:\"Km\", \n kind: \"Static\", \n path: \"/start\", \n name:\"Km\", \n notes:\"value was supposed\", \n units:\"uM\" \n}*/ \nKm=0.5; \n/*{ \n class: \"variable\", \n id:\"h\", \n kind: \"Static\", \n path: \"/start\", \n name:\"h\", \n notes:\"Hill coefficient; taken from [ref]\", \n units:\"UL\" \n}*/ \nh=3.2; \n//! Buffered concentrations \n//! Parameters for fitting \n//! Pools initial \n//Pool[1]=P+S; ", "\n//! Annotation of model variables \n//! Literature cited \n//! 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