https://ivaprime.com/static/js/session.js

1/**
2 * Session class.
3 */
4const Session = new class {
5    constructor() {
6        // Dictionary of imported plasmid files
7        this.plasmids = {};
8  
9        // Currently active plasmid file
10        this.activePlasmidIndex = null;
11  
12        // Index of plasmid from where the subcloning originates
13        this.subcloningOriginPlasmidIndex = null;
14        // Span of subcloning target in origin plasmid
15        this.subcloningOriginSpan = null;
16    };
17  
18    
19    /**
20     * Get the next available index for a new plasmid.
21     * 
22     * @returns - Index.
23     */
24    nextFreeIndex() {
25      const entriesList = Object.keys(this.plasmids);
26
27      // There are no plasmids yet, return 0
28      if (entriesList.length == 0) {
29        return 0;
30      }
31
32      // Get the last plasmid in the list and return its index + 1
33      return parseInt(entriesList[entriesList.length - 1]) + 1;
34    };
35  
36  
37    /**
38     * Add a new plasmid to the session.
39     * 
40     * @param {Object} newPlasmid - Plasmid to be added.
41     */
42    addPlasmid(newPlasmid) {
43      // Check if index was given
44      const currIndex = newPlasmid.index;
45      // Add plasmid object to session
46      this.plasmids[currIndex] = newPlasmid;
47      
48      // Create a new tab
49      PlasmidTabs.new(currIndex, newPlasmid.name + newPlasmid.extension);
50    };
51  
52  
53    /**
54     * Return active plasmid object
55     * 
56     * @returns {Plasmid} - Active plasmid
57     */
58    activePlasmid() {
59      return this.plasmids[this.activePlasmidIndex];
60    };
61
62  
63    /**
64     * Returns plasmid by index.
65     * 
66     * @param {int} index - Index of plasmid to be retrieved.
67     * @returns - Plasmid matching specified index.
68     */
69    getPlasmid(index) {
70      return this.plasmids[index];
71    };
72
73
74    markForSubcloning(span=null) {
75        if (span === null) span = Session.activePlasmid().getSelectionIndices();
76        this.subcloningOriginPlasmidIndex = Session.activePlasmidIndex;
77        this.subcloningOriginSpan = span;
78
79        if (this.subcloningOriginSpan[1] - this.subcloningOriginSpan[0] < 400) {
80            Alerts.warning(
81                "Short subcloning target",
82                "Attempting to subclone fragments shorter than 400 bp may result in lower efficiency or the subcloning may fail all together.",
83                10
84            );
85        };
86
87        PlasmidViewer.highlightSubcloningTarget();
88    };
89
90
91    removeMarkForSubcloning() {
92        this.subcloningOriginPlasmidIndex = null;
93        this.subcloningOriginSpan = null;
94
95        PlasmidViewer.highlightSubcloningTarget();
96    };
97
98
99    isSubcloningRegionMarked() {
100        return this.subcloningOriginPlasmidIndex != null && this.subcloningOriginSpan != null;
101    };
102};