- expose sbml ids

copasi · Apr 29, 2024 · 69a8472 · 69a8472
1 parent bb4aed7
commit 69a8472
Show file tree

Hide file tree

Showing 2 changed files with 41 additions and 0 deletions.
diff --git a/js/copasi.d.ts b/js/copasi.d.ts
@@ -75,16 +75,23 @@ export default class COPASI {
     simulateEx2D(startTime : number, endTime : number, numPoints : number) : number[][];
     simulateYaml(yamlProcessingOptions : string|object) : SimResult;
     simulateYaml2D(yamlProcessingOptions : string|object) : SimResult;
+    getValue(nameOrId: string): number;
+    setValue(nameOrId: string, value: number): void;
     readonly floatingSpeciesConcentrations : number[];
     readonly ratesOfChange : number[];
     readonly floatingSpeciesNames : string[];
+    readonly floatingSpeciesIds : string[];
     readonly boundarySpeciesConcentrations : number[];
     readonly boundarySpeciesNames : string[];
+    readonly boundarySpeciesIds : string[];
     readonly reactionNames : string[];
+    readonly reactionIds : string[];
     readonly reactionRates : number[];
     readonly compartmentNames : string[];
+    readonly compartmentIds : string[];
     readonly compartmentSizes : number[];
     readonly globalParameterNames : string[];
+    readonly globalParameterIds : string[];
     readonly globalParameterValues : number[];
     readonly localParameterNames : string[];
     readonly localParameterValues : number[];

diff --git a/js/copasi.js b/js/copasi.js
@@ -40,6 +40,8 @@ class COPASI {
         this.oneStep = Module.oneStep;
         this.initCps = Module.initCps;
         this.destroy = Module.destroy;
+        this.getValue = Module.getValue;
+        this.setValue = Module.setValue;
 
         // init runtime
         this.initCps();
@@ -210,6 +212,13 @@ class COPASI {
         return this._vectorToArray(this.Module.getFloatingSpeciesNames());
     }
 
+    /**
+     * @property {string[]} floatingSpeciesIds returns floating species ids
+     */
+    get floatingSpeciesIds() {
+        return this._vectorToArray(this.Module.getFloatingSpeciesIds());
+    }
+
     /**
      * @property {number[]} boundarySpeciesConcentrations returns boundary species concentrations
      */
@@ -224,13 +233,26 @@ class COPASI {
         return this._vectorToArray(this.Module.getBoundarySpeciesNames());
     }
 
+    /**
+     * @property {string[]} boundarySpeciesIds returns boundary species ids
+     */
+    get boundarySpeciesIds() {
+        return this._vectorToArray(this.Module.getBoundarySpeciesIds());
+    }
+
     /**
      * @property {string[]} reactionNames returns reaction names
      */
     get reactionNames() {
         return this._vectorToArray(this.Module.getReactionNames());
     }
 
+    /**
+     * @property {string[]} reactionIds returns reaction ids
+     */
+    get reactionIds() {
+        return this._vectorToArray(this.Module.getReactionIds());
+    }
     /**
      * @property {number[]} reactionRates returns reaction rates
      */
@@ -245,6 +267,12 @@ class COPASI {
         return this._vectorToArray(this.Module.getCompartmentNames());
     }
 
+    /**
+     * @property {string[]} compartmentIds returns compartment ids
+     */
+    get compartmentIds() {
+        return this._vectorToArray(this.Module.getCompartmentIds());
+    }
     /**
      * @property {number[]} compartmentSizes returns compartment sizes
      */
@@ -259,6 +287,12 @@ class COPASI {
         return this._vectorToArray(this.Module.getGlobalParameterNames());
     }
 
+    /**
+     * @property {string[]} globalParameterIds returns global parameter ids
+     */
+    get globalParameterIds() {
+        return this._vectorToArray(this.Module.getGlobalParameterIds());
+    }
     /**
      * @property {number[]} globalParameterValues returns global parameter values
      */