Current Dev State

static/js/ketcher2/node_modules/istanbul/lib/assets/base.css

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+body, html {
+  margin:0; padding: 0;
+  height: 100%;
+}
+body {
+    font-family: Helvetica Neue, Helvetica, Arial;
+    font-size: 14px;
+    color:#333;
+}
+.small { font-size: 12px; }
+*, *:after, *:before {
+  -webkit-box-sizing:border-box;
+     -moz-box-sizing:border-box;
+          box-sizing:border-box;
+  }
+h1 { font-size: 20px; margin: 0;}
+h2 { font-size: 14px; }
+pre {
+    font: 12px/1.4 Consolas, "Liberation Mono", Menlo, Courier, monospace;
+    margin: 0;
+    padding: 0;
+    -moz-tab-size: 2;
+    -o-tab-size:  2;
+    tab-size: 2;
+}
+a { color:#0074D9; text-decoration:none; }
+a:hover { text-decoration:underline; }
+.strong { font-weight: bold; }
+.space-top1 { padding: 10px 0 0 0; }
+.pad2y { padding: 20px 0; }
+.pad1y { padding: 10px 0; }
+.pad2x { padding: 0 20px; }
+.pad2 { padding: 20px; }
+.pad1 { padding: 10px; }
+.space-left2 { padding-left:55px; }
+.space-right2 { padding-right:20px; }
+.center { text-align:center; }
+.clearfix { display:block; }
+.clearfix:after {
+  content:'';
+  display:block;
+  height:0;
+  clear:both;
+  visibility:hidden;
+  }
+.fl { float: left; }
+@media only screen and (max-width:640px) {
+  .col3 { width:100%; max-width:100%; }
+  .hide-mobile { display:none!important; }
+}
+
+.quiet {
+  color: #7f7f7f;
+  color: rgba(0,0,0,0.5);
+}
+.quiet a { opacity: 0.7; }
+
+.fraction {
+  font-family: Consolas, 'Liberation Mono', Menlo, Courier, monospace;
+  font-size: 10px;
+  color: #555;
+  background: #E8E8E8;
+  padding: 4px 5px;
+  border-radius: 3px;
+  vertical-align: middle;
+}
+
+div.path a:link, div.path a:visited { color: #333; }
+table.coverage {
+  border-collapse: collapse;
+  margin: 10px 0 0 0;
+  padding: 0;
+}
+
+table.coverage td {
+  margin: 0;
+  padding: 0;
+  vertical-align: top;
+}
+table.coverage td.line-count {
+    text-align: right;
+    padding: 0 5px 0 20px;
+}
+table.coverage td.line-coverage {
+    text-align: right;
+    padding-right: 10px;
+    min-width:20px;
+}
+
+table.coverage td span.cline-any {
+    display: inline-block;
+    padding: 0 5px;
+    width: 100%;
+}
+.missing-if-branch {
+    display: inline-block;
+    margin-right: 5px;
+    border-radius: 3px;
+    position: relative;
+    padding: 0 4px;
+    background: #333;
+    color: yellow;
+}
+
+.skip-if-branch {
+    display: none;
+    margin-right: 10px;
+    position: relative;
+    padding: 0 4px;
+    background: #ccc;
+    color: white;
+}
+.missing-if-branch .typ, .skip-if-branch .typ {
+    color: inherit !important;
+}
+.coverage-summary {
+  border-collapse: collapse;
+  width: 100%;
+}
+.coverage-summary tr { border-bottom: 1px solid #bbb; }
+.keyline-all { border: 1px solid #ddd; }
+.coverage-summary td, .coverage-summary th { padding: 10px; }
+.coverage-summary tbody { border: 1px solid #bbb; }
+.coverage-summary td { border-right: 1px solid #bbb; }
+.coverage-summary td:last-child { border-right: none; }
+.coverage-summary th {
+  text-align: left;
+  font-weight: normal;
+  white-space: nowrap;
+}
+.coverage-summary th.file { border-right: none !important; }
+.coverage-summary th.pct { }
+.coverage-summary th.pic,
+.coverage-summary th.abs,
+.coverage-summary td.pct,
+.coverage-summary td.abs { text-align: right; }
+.coverage-summary td.file { white-space: nowrap;  }
+.coverage-summary td.pic { min-width: 120px !important;  }
+.coverage-summary tfoot td { }
+
+.coverage-summary .sorter {
+    height: 10px;
+    width: 7px;
+    display: inline-block;
+    margin-left: 0.5em;
+    background: url(sort-arrow-sprite.png) no-repeat scroll 0 0 transparent;
+}
+.coverage-summary .sorted .sorter {
+    background-position: 0 -20px;
+}
+.coverage-summary .sorted-desc .sorter {
+    background-position: 0 -10px;
+}
+.status-line {  height: 10px; }
+/* dark red */
+.red.solid, .status-line.low, .low .cover-fill { background:#C21F39 }
+.low .chart { border:1px solid #C21F39 }
+/* medium red */
+.cstat-no, .fstat-no, .cbranch-no, .cbranch-no { background:#F6C6CE }
+/* light red */
+.low, .cline-no { background:#FCE1E5 }
+/* light green */
+.high, .cline-yes { background:rgb(230,245,208) }
+/* medium green */
+.cstat-yes { background:rgb(161,215,106) }
+/* dark green */
+.status-line.high, .high .cover-fill { background:rgb(77,146,33) }
+.high .chart { border:1px solid rgb(77,146,33) }
+/* dark yellow (gold) */
+.medium .chart { border:1px solid #f9cd0b; }
+.status-line.medium, .medium .cover-fill { background: #f9cd0b; }
+/* light yellow */
+.medium { background: #fff4c2; }
+/* light gray */
+span.cline-neutral { background: #eaeaea; }
+
+.cbranch-no { background:  yellow !important; color: #111; }
+
+.cstat-skip { background: #ddd; color: #111; }
+.fstat-skip { background: #ddd; color: #111 !important; }
+.cbranch-skip { background: #ddd !important; color: #111; }
+
+
+.cover-fill, .cover-empty {
+  display:inline-block;
+  height: 12px;
+}
+.chart {
+  line-height: 0;
+}
+.cover-empty {
+    background: white;
+}
+.cover-full {
+    border-right: none !important;
+}
+pre.prettyprint {
+    border: none !important;
+    padding: 0 !important;
+    margin: 0 !important;
+}
+.com { color: #999 !important; }
+.ignore-none { color: #999; font-weight: normal; }
+
+.wrapper {
+  min-height: 100%;
+  height: auto !important;
+  height: 100%;
+  margin: 0 auto -48px;
+}
+.footer, .push {
+  height: 48px;
+}

static/js/ketcher2/node_modules/istanbul/lib/assets/sorter.js

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+var addSorting = (function () {
+    "use strict";
+    var cols,
+        currentSort = {
+            index: 0,
+            desc: false
+        };
+
+    // returns the summary table element
+    function getTable() { return document.querySelector('.coverage-summary'); }
+    // returns the thead element of the summary table
+    function getTableHeader() { return getTable().querySelector('thead tr'); }
+    // returns the tbody element of the summary table
+    function getTableBody() { return getTable().querySelector('tbody'); }
+    // returns the th element for nth column
+    function getNthColumn(n) { return getTableHeader().querySelectorAll('th')[n]; }
+
+    // loads all columns
+    function loadColumns() {
+        var colNodes = getTableHeader().querySelectorAll('th'),
+            colNode,
+            cols = [],
+            col,
+            i;
+
+        for (i = 0; i < colNodes.length; i += 1) {
+            colNode = colNodes[i];
+            col = {
+                key: colNode.getAttribute('data-col'),
+                sortable: !colNode.getAttribute('data-nosort'),
+                type: colNode.getAttribute('data-type') || 'string'
+            };
+            cols.push(col);
+            if (col.sortable) {
+                col.defaultDescSort = col.type === 'number';
+                colNode.innerHTML = colNode.innerHTML + '<span class="sorter"></span>';
+            }
+        }
+        return cols;
+    }
+    // attaches a data attribute to every tr element with an object
+    // of data values keyed by column name
+    function loadRowData(tableRow) {
+        var tableCols = tableRow.querySelectorAll('td'),
+            colNode,
+            col,
+            data = {},
+            i,
+            val;
+        for (i = 0; i < tableCols.length; i += 1) {
+            colNode = tableCols[i];
+            col = cols[i];
+            val = colNode.getAttribute('data-value');
+            if (col.type === 'number') {
+                val = Number(val);
+            }
+            data[col.key] = val;
+        }
+        return data;
+    }
+    // loads all row data
+    function loadData() {
+        var rows = getTableBody().querySelectorAll('tr'),
+            i;
+
+        for (i = 0; i < rows.length; i += 1) {
+            rows[i].data = loadRowData(rows[i]);
+        }
+    }
+    // sorts the table using the data for the ith column
+    function sortByIndex(index, desc) {
+        var key = cols[index].key,
+            sorter = function (a, b) {
+                a = a.data[key];
+                b = b.data[key];
+                return a < b ? -1 : a > b ? 1 : 0;
+            },
+            finalSorter = sorter,
+            tableBody = document.querySelector('.coverage-summary tbody'),
+            rowNodes = tableBody.querySelectorAll('tr'),
+            rows = [],
+            i;
+
+        if (desc) {
+            finalSorter = function (a, b) {
+                return -1 * sorter(a, b);
+            };
+        }
+
+        for (i = 0; i < rowNodes.length; i += 1) {
+            rows.push(rowNodes[i]);
+            tableBody.removeChild(rowNodes[i]);
+        }
+
+        rows.sort(finalSorter);
+
+        for (i = 0; i < rows.length; i += 1) {
+            tableBody.appendChild(rows[i]);
+        }
+    }
+    // removes sort indicators for current column being sorted
+    function removeSortIndicators() {
+        var col = getNthColumn(currentSort.index),
+            cls = col.className;
+
+        cls = cls.replace(/ sorted$/, '').replace(/ sorted-desc$/, '');
+        col.className = cls;
+    }
+    // adds sort indicators for current column being sorted
+    function addSortIndicators() {
+        getNthColumn(currentSort.index).className += currentSort.desc ? ' sorted-desc' : ' sorted';
+    }
+    // adds event listeners for all sorter widgets
+    function enableUI() {
+        var i,
+            el,
+            ithSorter = function ithSorter(i) {
+                var col = cols[i];
+
+                return function () {
+                    var desc = col.defaultDescSort;
+
+                    if (currentSort.index === i) {
+                        desc = !currentSort.desc;
+                    }
+                    sortByIndex(i, desc);
+                    removeSortIndicators();
+                    currentSort.index = i;
+                    currentSort.desc = desc;
+                    addSortIndicators();
+                };
+            };
+        for (i =0 ; i < cols.length; i += 1) {
+            if (cols[i].sortable) {
+                // add the click event handler on the th so users
+                // dont have to click on those tiny arrows
+                el = getNthColumn(i).querySelector('.sorter').parentElement;
+                if (el.addEventListener) {
+                    el.addEventListener('click', ithSorter(i));
+                } else {
+                    el.attachEvent('onclick', ithSorter(i));
+                }
+            }
+        }
+    }
+    // adds sorting functionality to the UI
+    return function () {
+        if (!getTable()) {
+            return;
+        }
+        cols = loadColumns();
+        loadData(cols);
+        addSortIndicators();
+        enableUI();
+    };
+})();
+
+window.addEventListener('load', addSorting);

static/js/ketcher2/node_modules/istanbul/lib/assets/vendor/prettify.css

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+.pln{color:#000}@media screen{.str{color:#080}.kwd{color:#008}.com{color:#800}.typ{color:#606}.lit{color:#066}.pun,.opn,.clo{color:#660}.tag{color:#008}.atn{color:#606}.atv{color:#080}.dec,.var{color:#606}.fun{color:red}}@media print,projection{.str{color:#060}.kwd{color:#006;font-weight:bold}.com{color:#600;font-style:italic}.typ{color:#404;font-weight:bold}.lit{color:#044}.pun,.opn,.clo{color:#440}.tag{color:#006;font-weight:bold}.atn{color:#404}.atv{color:#060}}pre.prettyprint{padding:2px;border:1px solid #888}ol.linenums{margin-top:0;margin-bottom:0}li.L0,li.L1,li.L2,li.L3,li.L5,li.L6,li.L7,li.L8{list-style-type:none}li.L1,li.L3,li.L5,li.L7,li.L9{background:#eee}

static/js/ketcher2/node_modules/istanbul/lib/cli.js

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+#!/usr/bin/env node
+
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+
+var async = require('async'),
+    Command = require('./command'),
+    inputError = require('./util/input-error'),
+    exitProcess = process.exit; //hold a reference to original process.exit so that we are not affected even when a test changes it
+
+require('./register-plugins');
+
+function findCommandPosition(args) {
+    var i;
+
+    for (i = 0; i < args.length; i += 1) {
+        if (args[i].charAt(0) !== '-') {
+            return i;
+        }
+    }
+
+    return -1;
+}
+
+function exit(ex, code) {
+  // flush output for Node.js Windows pipe bug
+  // https://github.com/joyent/node/issues/6247 is just one bug example
+  // https://github.com/visionmedia/mocha/issues/333 has a good discussion
+  var streams = [process.stdout, process.stderr];
+  async.forEach(streams, function (stream, done) {
+    // submit a write request and wait until it's written
+    stream.write('', done);
+  }, function () {
+    if (ex) {
+        if (typeof ex === 'string') {
+            console.error(ex);
+            exitProcess(1);
+        } else {
+            throw ex; // turn it into an uncaught exception
+        }
+    } else {
+        exitProcess(code);
+    }
+  });
+}
+
+function errHandler (ex) {
+    if (!ex) { return; }
+    if (!ex.inputError) {
+        // exit with exception stack trace
+        exit(ex);
+    } else {
+        //don't print nasty traces but still exit(1)
+        console.error(ex.message);
+        console.error('Try "istanbul help" for usage');
+        exit(null, 1);
+    }
+}
+
+function runCommand(args, callback) {
+    var pos = findCommandPosition(args),
+        command,
+        commandArgs,
+        commandObject;
+
+    if (pos < 0) {
+        return callback(inputError.create('Need a command to run'));
+    }
+
+    commandArgs = args.slice(0, pos);
+    command = args[pos];
+    commandArgs.push.apply(commandArgs, args.slice(pos + 1));
+
+    try {
+        commandObject = Command.create(command);
+    } catch (ex) {
+        errHandler(inputError.create(ex.message));
+        return;
+    }
+    commandObject.run(commandArgs, errHandler);
+}
+
+function runToCompletion(args) {
+    runCommand(args, errHandler);
+}
+
+/* istanbul ignore if: untestable */
+if (require.main === module) {
+    var args = Array.prototype.slice.call(process.argv, 2);
+    runToCompletion(args);
+}
+
+module.exports = {
+    runToCompletion: runToCompletion
+};
+

static/js/ketcher2/node_modules/istanbul/lib/collector.js

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+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+"use strict";
+var MemoryStore = require('./store/memory'),
+    utils = require('./object-utils');
+
+/**
+ * a mechanism to merge multiple coverage objects into one. Handles the use case
+ * of overlapping coverage information for the same files in multiple coverage
+ * objects and does not double-count in this situation. For example, if
+ * you pass the same coverage object multiple times, the final merged object will be
+ * no different that any of the objects passed in (except for execution counts).
+ *
+ * The `Collector` is built for scale to handle thousands of coverage objects.
+ * By default, all processing is done in memory since the common use-case is of
+ * one or a few coverage objects. You can work around memory
+ * issues by passing in a `Store` implementation that stores temporary computations
+ * on disk (the `tmp` store, for example).
+ *
+ * The `getFinalCoverage` method returns an object with merged coverage information
+ * and is provided as a convenience for implementors working with coverage information
+ * that can fit into memory. Reporters, in the interest of generality, should *not* use this method for
+ * creating reports.
+ *
+ * Usage
+ * -----
+ *
+ *      var collector = new require('istanbul').Collector();
+ *
+ *      files.forEach(function (f) {
+ *          //each coverage object can have overlapping information about multiple files
+ *          collector.add(JSON.parse(fs.readFileSync(f, 'utf8')));
+ *      });
+ *
+ *      collector.files().forEach(function(file) {
+ *          var fileCoverage = collector.fileCoverageFor(file);
+ *          console.log('Coverage for ' + file + ' is:' + JSON.stringify(fileCoverage));
+ *      });
+ *
+ *      // convenience method: do not use this when dealing with a large number of files
+ *      var finalCoverage = collector.getFinalCoverage();
+ *
+ * @class Collector
+ * @module main
+ * @constructor
+ * @param {Object} options Optional. Configuration options.
+ * @param {Store} options.store - an implementation of `Store` to use for temporary
+ *      calculations.
+ */
+function Collector(options) {
+    options = options || {};
+    this.store = options.store || new MemoryStore();
+}
+
+Collector.prototype = {
+    /**
+     * adds a coverage object to the collector.
+     *
+     * @method add
+     * @param {Object} coverage the coverage object.
+     * @param {String} testName Optional. The name of the test used to produce the object.
+     *      This is currently not used.
+     */
+    add: function (coverage /*, testName */) {
+        var store = this.store;
+        Object.keys(coverage).forEach(function (key) {
+            var fileCoverage = coverage[key];
+            if (store.hasKey(key)) {
+                store.setObject(key, utils.mergeFileCoverage(fileCoverage, store.getObject(key)));
+            } else {
+                store.setObject(key, fileCoverage);
+            }
+        });
+    },
+    /**
+     * returns a list of unique file paths for which coverage information has been added.
+     * @method files
+     * @return {Array} an array of file paths for which coverage information is present.
+     */
+    files: function () {
+        return this.store.keys();
+    },
+    /**
+     * return file coverage information for a single file
+     * @method fileCoverageFor
+     * @param {String} fileName the path for the file for which coverage information is
+     *      required. Must be one of the values returned in the `files()` method.
+     * @return {Object} the coverage information for the specified file.
+     */
+    fileCoverageFor: function (fileName) {
+        var ret = this.store.getObject(fileName);
+        utils.addDerivedInfoForFile(ret);
+        return ret;
+    },
+    /**
+     * returns file coverage information for all files. This has the same format as
+     * any of the objects passed in to the `add` method. The number of keys in this
+     * object will be a superset of all keys found in the objects passed to `add()`
+     * @method getFinalCoverage
+     * @return {Object} the merged coverage information
+     */
+    getFinalCoverage: function () {
+        var ret = {},
+            that = this;
+        this.files().forEach(function (file) {
+            ret[file] = that.fileCoverageFor(file);
+        });
+        return ret;
+    },
+    /**
+     * disposes this collector and reclaims temporary resources used in the
+     * computation. Calls `dispose()` on the underlying store.
+     * @method dispose
+     */
+    dispose: function () {
+        this.store.dispose();
+    }
+};
+
+module.exports = Collector;

static/js/ketcher2/node_modules/istanbul/lib/command/check-coverage.js

@@ -0,0 +1,195 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var nopt = require('nopt'),
+    path = require('path'),
+    fs = require('fs'),
+    Collector = require('../collector'),
+    formatOption = require('../util/help-formatter').formatOption,
+    util = require('util'),
+    utils = require('../object-utils'),
+    filesFor = require('../util/file-matcher').filesFor,
+    Command = require('./index'),
+    configuration = require('../config');
+
+function isAbsolute(file) {
+    if (path.isAbsolute) {
+        return path.isAbsolute(file);
+    }
+
+    return path.resolve(file) === path.normalize(file);
+}
+
+function CheckCoverageCommand() {
+    Command.call(this);
+}
+
+function removeFiles(covObj, root, files) {
+    var filesObj = {},
+        obj = {};
+
+    // Create lookup table.
+    files.forEach(function (file) {
+        filesObj[file] = true;
+    });
+
+    Object.keys(covObj).forEach(function (key) {
+        // Exclude keys will always be relative, but covObj keys can be absolute or relative
+        var excludeKey = isAbsolute(key) ? path.relative(root, key) : key;
+        // Also normalize for files that start with `./`, etc.
+        excludeKey = path.normalize(excludeKey);
+        if (filesObj[excludeKey] !== true) {
+            obj[key] = covObj[key];
+        }
+    });
+
+    return obj;
+}
+
+CheckCoverageCommand.TYPE = 'check-coverage';
+util.inherits(CheckCoverageCommand, Command);
+
+Command.mix(CheckCoverageCommand, {
+    synopsis: function () {
+        return "checks overall/per-file coverage against thresholds from coverage JSON files. Exits 1 if thresholds are not met, 0 otherwise";
+    },
+
+    usage: function () {
+        console.error('\nUsage: ' + this.toolName() + ' ' + this.type() + ' <options> [<include-pattern>]\n\nOptions are:\n\n' +
+            [
+                formatOption('--statements <threshold>', 'global statement coverage threshold'),
+                formatOption('--functions <threshold>', 'global function coverage threshold'),
+                formatOption('--branches <threshold>', 'global branch coverage threshold'),
+                formatOption('--lines <threshold>', 'global line coverage threshold')
+            ].join('\n\n') + '\n');
+
+        console.error('\n\n');
+
+        console.error('Thresholds, when specified as a positive number are taken to be the minimum percentage required.');
+        console.error('When a threshold is specified as a negative number it represents the maximum number of uncovered entities allowed.\n');
+        console.error('For example, --statements 90 implies minimum statement coverage is 90%.');
+        console.error('             --statements -10 implies that no more than 10 uncovered statements are allowed\n');
+        console.error('Per-file thresholds can be specified via a configuration file.\n');
+        console.error('<include-pattern> is a glob pattern that can be used to select one or more coverage files ' +
+            'for merge. This defaults to "**/coverage*.json"');
+
+        console.error('\n');
+    },
+
+    run: function (args, callback) {
+
+        var template = {
+                config: path,
+                root: path,
+                statements: Number,
+                lines: Number,
+                branches: Number,
+                functions: Number,
+                verbose: Boolean
+            },
+            opts = nopt(template, { v : '--verbose' }, args, 0),
+            // Translate to config opts.
+            config = configuration.loadFile(opts.config, {
+                verbose: opts.verbose,
+                check: {
+                    global: {
+                        statements: opts.statements,
+                        lines: opts.lines,
+                        branches: opts.branches,
+                        functions: opts.functions
+                    }
+                }
+            }),
+            includePattern = '**/coverage*.json',
+            root,
+            collector = new Collector(),
+            errors = [];
+
+        if (opts.argv.remain.length > 0) {
+            includePattern = opts.argv.remain[0];
+        }
+
+        root = opts.root || process.cwd();
+        filesFor({
+            root: root,
+            includes: [ includePattern ]
+        }, function (err, files) {
+            if (err) { throw err; }
+            if (files.length === 0) {
+               return callback('ERROR: No coverage files found.');
+            }
+            files.forEach(function (file) {
+                var coverageObject = JSON.parse(fs.readFileSync(file, 'utf8'));
+                collector.add(coverageObject);
+            });
+            var thresholds = {
+                global: {
+                    statements: config.check.global.statements || 0,
+                    branches: config.check.global.branches || 0,
+                    lines: config.check.global.lines || 0,
+                    functions: config.check.global.functions || 0,
+                    excludes: config.check.global.excludes || []
+                },
+                each: {
+                    statements: config.check.each.statements || 0,
+                    branches: config.check.each.branches || 0,
+                    lines: config.check.each.lines || 0,
+                    functions: config.check.each.functions || 0,
+                    excludes: config.check.each.excludes || []
+                }
+            },
+                rawCoverage = collector.getFinalCoverage(),
+                globalResults = utils.summarizeCoverage(removeFiles(rawCoverage, root, thresholds.global.excludes)),
+                eachResults = removeFiles(rawCoverage, root, thresholds.each.excludes);
+
+            // Summarize per-file results and mutate original results.
+            Object.keys(eachResults).forEach(function (key) {
+                eachResults[key] = utils.summarizeFileCoverage(eachResults[key]);
+            });
+
+            if (config.verbose) {
+                console.log('Compare actuals against thresholds');
+                console.log(JSON.stringify({ global: globalResults, each: eachResults, thresholds: thresholds }, undefined, 4));
+            }
+
+            function check(name, thresholds, actuals) {
+                [
+                    "statements",
+                    "branches",
+                    "lines",
+                    "functions"
+                ].forEach(function (key) {
+                    var actual = actuals[key].pct,
+                        actualUncovered = actuals[key].total - actuals[key].covered,
+                        threshold = thresholds[key];
+
+                    if (threshold < 0) {
+                        if (threshold * -1 < actualUncovered) {
+                            errors.push('ERROR: Uncovered count for ' + key + ' (' + actualUncovered +
+                                ') exceeds ' + name + ' threshold (' + -1 * threshold + ')');
+                        }
+                    } else {
+                        if (actual < threshold) {
+                            errors.push('ERROR: Coverage for ' + key + ' (' + actual +
+                                '%) does not meet ' + name + ' threshold (' + threshold + '%)');
+                        }
+                    }
+                });
+            }
+
+            check("global", thresholds.global, globalResults);
+
+            Object.keys(eachResults).forEach(function (key) {
+                check("per-file" + " (" + key + ") ", thresholds.each, eachResults[key]);
+            });
+
+            return callback(errors.length === 0 ? null : errors.join("\n"));
+        });
+    }
+});
+
+module.exports = CheckCoverageCommand;
+
+

static/js/ketcher2/node_modules/istanbul/lib/command/common/run-with-cover.js

@@ -0,0 +1,261 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+var Module = require('module'),
+    path = require('path'),
+    fs = require('fs'),
+    nopt = require('nopt'),
+    which = require('which'),
+    mkdirp = require('mkdirp'),
+    existsSync = fs.existsSync || path.existsSync,
+    inputError = require('../../util/input-error'),
+    matcherFor = require('../../util/file-matcher').matcherFor,
+    Instrumenter = require('../../instrumenter'),
+    Collector = require('../../collector'),
+    formatOption = require('../../util/help-formatter').formatOption,
+    hook = require('../../hook'),
+    Reporter = require('../../reporter'),
+    resolve = require('resolve'),
+    configuration = require('../../config');
+
+function usage(arg0, command) {
+
+    console.error('\nUsage: ' + arg0 + ' ' + command + ' [<options>] <executable-js-file-or-command> [-- <arguments-to-jsfile>]\n\nOptions are:\n\n'
+        + [
+            formatOption('--config <path-to-config>', 'the configuration file to use, defaults to .istanbul.yml'),
+            formatOption('--root <path> ', 'the root path to look for files to instrument, defaults to .'),
+            formatOption('-x <exclude-pattern> [-x <exclude-pattern>]', 'one or more glob patterns e.g. "**/vendor/**"'),
+            formatOption('-i <include-pattern> [-i <include-pattern>]', 'one or more glob patterns e.g. "**/*.js"'),
+            formatOption('--[no-]default-excludes', 'apply default excludes [ **/node_modules/**, **/test/**, **/tests/** ], defaults to true'),
+            formatOption('--hook-run-in-context', 'hook vm.runInThisContext in addition to require (supports RequireJS), defaults to false'),
+            formatOption('--post-require-hook <file> | <module>', 'JS module that exports a function for post-require processing'),
+            formatOption('--report <format> [--report <format>] ', 'report format, defaults to lcov (= lcov.info + HTML)'),
+            formatOption('--dir <report-dir>', 'report directory, defaults to ./coverage'),
+            formatOption('--print <type>', 'type of report to print to console, one of summary (default), detail, both or none'),
+            formatOption('--verbose, -v', 'verbose mode'),
+            formatOption('--[no-]preserve-comments', 'remove / preserve comments in the output, defaults to false'),
+            formatOption('--include-all-sources', 'instrument all unused sources after running tests, defaults to false'),
+            formatOption('--[no-]include-pid', 'include PID in output coverage filename')
+        ].join('\n\n') + '\n');
+    console.error('\n');
+}
+
+function run(args, commandName, enableHooks, callback) {
+
+    var template = {
+            config: path,
+            root: path,
+            x: [ Array, String ],
+            report: [Array, String ],
+            dir: path,
+            verbose: Boolean,
+            yui: Boolean,
+            'default-excludes': Boolean,
+            print: String,
+            'self-test': Boolean,
+            'hook-run-in-context': Boolean,
+            'post-require-hook': String,
+            'preserve-comments': Boolean,
+            'include-all-sources': Boolean,
+            'preload-sources': Boolean,
+            i: [ Array, String ],
+            'include-pid': Boolean
+        },
+        opts = nopt(template, { v : '--verbose' }, args, 0),
+        overrides = {
+            verbose: opts.verbose,
+            instrumentation: {
+                root: opts.root,
+                'default-excludes': opts['default-excludes'],
+                excludes: opts.x,
+                'include-all-sources': opts['include-all-sources'],
+                'preload-sources': opts['preload-sources'],
+                'include-pid': opts['include-pid']
+            },
+            reporting: {
+                reports: opts.report,
+                print: opts.print,
+                dir: opts.dir
+            },
+            hooks: {
+                'hook-run-in-context': opts['hook-run-in-context'],
+                'post-require-hook': opts['post-require-hook'],
+                'handle-sigint': opts['handle-sigint']
+            }
+        },
+        config = configuration.loadFile(opts.config, overrides),
+        verbose = config.verbose,
+        cmdAndArgs = opts.argv.remain,
+        preserveComments = opts['preserve-comments'],
+        includePid = opts['include-pid'],
+        cmd,
+        cmdArgs,
+        reportingDir,
+        reporter = new Reporter(config),
+        runFn,
+        excludes;
+
+    if (cmdAndArgs.length === 0) {
+        return callback(inputError.create('Need a filename argument for the ' + commandName + ' command!'));
+    }
+
+    cmd = cmdAndArgs.shift();
+    cmdArgs = cmdAndArgs;
+
+    if (!existsSync(cmd)) {
+        try {
+            cmd = which.sync(cmd);
+        } catch (ex) {
+            return callback(inputError.create('Unable to resolve file [' + cmd + ']'));
+        }
+    } else {
+        cmd = path.resolve(cmd);
+    }
+
+    runFn = function () {
+        process.argv = ["node", cmd].concat(cmdArgs);
+        if (verbose) {
+            console.log('Running: ' + process.argv.join(' '));
+        }
+        process.env.running_under_istanbul=1;
+        Module.runMain(cmd, null, true);
+    };
+
+    excludes = config.instrumentation.excludes(true);
+
+    if (enableHooks) {
+        reportingDir = path.resolve(config.reporting.dir());
+        mkdirp.sync(reportingDir); //ensure we fail early if we cannot do this
+        reporter.dir = reportingDir;
+        reporter.addAll(config.reporting.reports());
+        if (config.reporting.print() !== 'none') {
+            switch (config.reporting.print()) {
+            case 'detail':
+                reporter.add('text');
+                break;
+            case 'both':
+                reporter.add('text');
+                reporter.add('text-summary');
+                break;
+            default:
+                reporter.add('text-summary');
+                break;
+            }
+        }
+
+        excludes.push(path.relative(process.cwd(), path.join(reportingDir, '**', '*')));
+        matcherFor({
+            root: config.instrumentation.root() || process.cwd(),
+            includes: opts.i || config.instrumentation.extensions().map(function (ext) {
+                return '**/*' + ext;
+            }),
+            excludes: excludes
+        },
+            function (err, matchFn) {
+                if (err) { return callback(err); }
+
+                var coverageVar = '$$cov_' + new Date().getTime() + '$$',
+                    instrumenter = new Instrumenter({ coverageVariable: coverageVar , preserveComments: preserveComments}),
+                    transformer = instrumenter.instrumentSync.bind(instrumenter),
+                    hookOpts = { verbose: verbose, extensions: config.instrumentation.extensions() },
+                    postRequireHook = config.hooks.postRequireHook(),
+                    postLoadHookFile;
+
+                if (postRequireHook) {
+                    postLoadHookFile = path.resolve(postRequireHook);
+                } else if (opts.yui) { //EXPERIMENTAL code: do not rely on this in anyway until the docs say it is allowed
+                    postLoadHookFile = path.resolve(__dirname, '../../util/yui-load-hook');
+                }
+
+                if (postRequireHook) {
+                    if (!existsSync(postLoadHookFile)) { //assume it is a module name and resolve it
+                        try {
+                            postLoadHookFile = resolve.sync(postRequireHook, { basedir: process.cwd() });
+                        } catch (ex) {
+                            if (verbose) { console.error('Unable to resolve [' + postRequireHook + '] as a node module'); }
+                            callback(ex);
+                            return;
+                        }
+                    }
+                }
+                if (postLoadHookFile) {
+                    if (verbose) { console.error('Use post-load-hook: ' + postLoadHookFile); }
+                    hookOpts.postLoadHook = require(postLoadHookFile)(matchFn, transformer, verbose);
+                }
+
+                if (opts['self-test']) {
+                    hook.unloadRequireCache(matchFn);
+                }
+                // runInThisContext is used by RequireJS [issue #23]
+                if (config.hooks.hookRunInContext()) {
+                    hook.hookRunInThisContext(matchFn, transformer, hookOpts);
+                }
+                hook.hookRequire(matchFn, transformer, hookOpts);
+
+                //initialize the global variable to stop mocha from complaining about leaks
+                global[coverageVar] = {};
+
+                // enable passing --handle-sigint to write reports on SIGINT.
+                // This allows a user to manually kill a process while
+                // still getting the istanbul report.
+                if (config.hooks.handleSigint()) {
+                    process.once('SIGINT', process.exit);
+                }
+
+                process.once('exit', function () {
+                    var pidExt = includePid ? ('-' + process.pid) : '',
+                        file = path.resolve(reportingDir, 'coverage' + pidExt + '.json'),
+                        collector,
+                        cov;
+                    if (typeof global[coverageVar] === 'undefined' || Object.keys(global[coverageVar]).length === 0) {
+                        console.error('No coverage information was collected, exit without writing coverage information');
+                        return;
+                    } else {
+                        cov = global[coverageVar];
+                    }
+                    //important: there is no event loop at this point
+                    //everything that happens in this exit handler MUST be synchronous
+                    if (config.instrumentation.includeAllSources()) {
+                        // Files that are not touched by code ran by the test runner is manually instrumented, to
+                        // illustrate the missing coverage.
+                        matchFn.files.forEach(function (file) {
+                            if (!cov[file]) {
+                                transformer(fs.readFileSync(file, 'utf-8'), file);
+
+                                // When instrumenting the code, istanbul will give each FunctionDeclaration a value of 1 in coverState.s,
+                                // presumably to compensate for function hoisting. We need to reset this, as the function was not hoisted,
+                                // as it was never loaded.
+                                Object.keys(instrumenter.coverState.s).forEach(function (key) {
+                                    instrumenter.coverState.s[key] = 0;
+                                });
+
+                                cov[file] = instrumenter.coverState;
+                            }
+                        });
+                    }
+                    mkdirp.sync(reportingDir); //yes, do this again since some test runners could clean the dir initially created
+                    if (config.reporting.print() !== 'none') {
+                        console.error('=============================================================================');
+                        console.error('Writing coverage object [' + file + ']');
+                    }
+                    fs.writeFileSync(file, JSON.stringify(cov), 'utf8');
+                    collector = new Collector();
+                    collector.add(cov);
+                    if (config.reporting.print() !== 'none') {
+                        console.error('Writing coverage reports at [' + reportingDir + ']');
+                        console.error('=============================================================================');
+                    }
+                    reporter.write(collector, true, callback);
+                });
+                runFn();
+            });
+    } else {
+        runFn();
+    }
+}
+
+module.exports = {
+    run: run,
+    usage: usage
+};

static/js/ketcher2/node_modules/istanbul/lib/command/cover.js

@@ -0,0 +1,33 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var runWithCover = require('./common/run-with-cover'),
+    util = require('util'),
+    Command = require('./index');
+
+function CoverCommand() {
+    Command.call(this);
+}
+
+CoverCommand.TYPE = 'cover';
+util.inherits(CoverCommand, Command);
+
+Command.mix(CoverCommand, {
+    synopsis: function () {
+        return "transparently adds coverage information to a node command. Saves coverage.json and reports at the end of execution";
+    },
+
+    usage: function () {
+        runWithCover.usage(this.toolName(), this.type());
+    },
+
+    run: function (args, callback) {
+        runWithCover.run(args, this.type(), true, callback);
+    }
+});
+
+
+module.exports = CoverCommand;
+

static/js/ketcher2/node_modules/istanbul/lib/command/help.js

@@ -0,0 +1,102 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var Command = require('./index.js'),
+    util = require('util'),
+    formatOption = require('../util/help-formatter').formatOption,
+    VERSION = require('../../index').VERSION,
+    configuration = require('../config'),
+    yaml = require('js-yaml'),
+    formatPara = require('../util/help-formatter').formatPara;
+
+function showConfigHelp(toolName) {
+
+    console.error('\nConfiguring ' + toolName);
+    console.error('====================');
+    console.error('\n' +
+        formatPara(toolName + ' can be configured globally using a .istanbul.yml YAML file ' +
+            'at the root of your source tree. Every command also accepts a --config=<config-file> argument to ' +
+            'customize its location per command. The alternate config file can be in YAML, JSON or node.js ' +
+            '(exporting the config object).'));
+    console.error('\n' +
+        formatPara('The config file currently has four sections for instrumentation, reporting, hooks, ' +
+            'and checking. Note that certain commands (like `cover`) use information from multiple sections.'));
+    console.error('\n' +
+        formatPara('Keys in the config file usually correspond to command line parameters with the same name. ' +
+            'The verbose option for every command shows you the exact configuration used. See the api ' +
+            'docs for an explanation of each key.'));
+
+    console.error('\n' +
+        formatPara('You only need to specify the keys that you want to override. Your overrides will be merged ' +
+            'with the default config.'));
+    console.error('\nThe default configuration is as follows:\n');
+    console.error(yaml.safeDump(configuration.defaultConfig(), { indent: 4, flowLevel: 3 }));
+    console.error('\n' +
+        formatPara('The `watermarks` section does not have a command line equivalent. It allows you to set up ' +
+            'low and high watermark percentages for reporting. These are honored by all reporters that colorize ' +
+            'their output based on low/ medium/ high coverage.'));
+    console.error('\n' +
+        formatPara('The `reportConfig` section allows you to configure each report format independently ' +
+            'and has no command-line equivalent either.'));
+    console.error('\n' +
+        formatPara('The `check` section configures minimum threshold enforcement for coverage results. ' +
+            '`global` applies to all files together and `each` on a per-file basis. A list of files can ' +
+            'be excluded from enforcement relative to root via the `exclude` property.'));
+    console.error('');
+}
+
+function HelpCommand() {
+    Command.call(this);
+}
+
+HelpCommand.TYPE = 'help';
+util.inherits(HelpCommand, Command);
+
+Command.mix(HelpCommand, {
+    synopsis: function () {
+        return "shows help";
+    },
+
+    usage: function () {
+
+        console.error('\nUsage: ' + this.toolName() + ' ' + this.type() + ' config | <command>\n');
+        console.error('`config` provides help with istanbul configuration\n');
+        console.error('Available commands are:\n');
+
+        var commandObj;
+        Command.getCommandList().forEach(function (cmd) {
+            commandObj = Command.create(cmd);
+            console.error(formatOption(cmd, commandObj.synopsis()));
+            console.error("\n");
+        });
+        console.error("Command names can be abbreviated as long as the abbreviation is unambiguous");
+        console.error(this.toolName() + ' version:' + VERSION);
+        console.error("\n");
+    },
+    run: function (args, callback) {
+        var command;
+        if (args.length === 0) {
+            this.usage();
+        } else {
+            if (args[0] === 'config') {
+                showConfigHelp(this.toolName());
+            } else {
+                try {
+                    command = Command.create(args[0]);
+                    command.usage('istanbul', Command.resolveCommandName(args[0]));
+                } catch (ex) {
+                    console.error('Invalid command: ' + args[0]);
+                    this.usage();
+                }
+            }
+        }
+        return callback();
+    }
+});
+
+
+module.exports = HelpCommand;
+
+

static/js/ketcher2/node_modules/istanbul/lib/command/index.js

@@ -0,0 +1,33 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var Factory = require('../util/factory'),
+    factory = new Factory('command', __dirname, true);
+
+function Command() {}
+// add register, create, mix, loadAll, getCommandList, resolveCommandName to the Command object
+factory.bindClassMethods(Command);
+
+Command.prototype = {
+    toolName: function () {
+        return require('../util/meta').NAME;
+    },
+
+    type: function () {
+        return this.constructor.TYPE;
+    },
+    synopsis: /* istanbul ignore next: base method */ function () {
+        return "the developer has not written a one-line summary of the " + this.type() + " command";
+    },
+    usage: /* istanbul ignore next: base method */ function () {
+        console.error("the developer has not provided a usage for the " + this.type() + " command");
+    },
+    run: /* istanbul ignore next: abstract method */ function (args, callback) {
+        return callback(new Error("run: must be overridden for the " + this.type() + " command"));
+    }
+};
+
+module.exports = Command;
+

static/js/ketcher2/node_modules/istanbul/lib/command/instrument.js

@@ -0,0 +1,265 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    mkdirp = require('mkdirp'),
+    once = require('once'),
+    async = require('async'),
+    fs = require('fs'),
+    filesFor = require('../util/file-matcher').filesFor,
+    nopt = require('nopt'),
+    Instrumenter = require('../instrumenter'),
+    inputError = require('../util/input-error'),
+    formatOption = require('../util/help-formatter').formatOption,
+    util = require('util'),
+    Command = require('./index'),
+    Collector = require('../collector'),
+    configuration = require('../config'),
+    verbose;
+
+
+/*
+ * Chunk file size to use when reading non JavaScript files in memory
+ * and copying them over when using complete-copy flag.
+ */
+var READ_FILE_CHUNK_SIZE = 64 * 1024;
+
+function BaselineCollector(instrumenter) {
+    this.instrumenter = instrumenter;
+    this.collector = new Collector();
+    this.instrument = instrumenter.instrument.bind(this.instrumenter);
+
+    var origInstrumentSync = instrumenter.instrumentSync;
+    this.instrumentSync = function () {
+        var args = Array.prototype.slice.call(arguments),
+            ret = origInstrumentSync.apply(this.instrumenter, args),
+            baseline = this.instrumenter.lastFileCoverage(),
+            coverage = {};
+        coverage[baseline.path] = baseline;
+        this.collector.add(coverage);
+        return ret;
+    };
+    //monkey patch the instrumenter to call our version instead
+    instrumenter.instrumentSync = this.instrumentSync.bind(this);
+}
+
+BaselineCollector.prototype = {
+    getCoverage: function () {
+        return this.collector.getFinalCoverage();
+    }
+};
+
+
+function processFiles(instrumenter, inputDir, outputDir, relativeNames, extensions) {
+    var processor = function (name, callback) {
+            var inputFile = path.resolve(inputDir, name),
+                outputFile = path.resolve(outputDir, name),
+                inputFileExtenstion = path.extname(inputFile),
+                isJavaScriptFile = extensions.indexOf(inputFileExtenstion) > -1,
+                oDir = path.dirname(outputFile),
+                readStream, writeStream;
+
+            callback = once(callback);
+            mkdirp.sync(oDir);
+
+            if (fs.statSync(inputFile).isDirectory()) {
+                return callback(null, name);
+            }
+
+            if (isJavaScriptFile) {
+                fs.readFile(inputFile, 'utf8', function (err, data) {
+                    if (err) { return callback(err, name); }
+                    instrumenter.instrument(data, inputFile, function (iErr, instrumented) {
+                        if (iErr) { return callback(iErr, name); }
+                        fs.writeFile(outputFile, instrumented, 'utf8', function (err) {
+                            return callback(err, name);
+                        });
+                    });
+                });
+            }
+            else {
+                // non JavaScript file, copy it as is
+                readStream = fs.createReadStream(inputFile, {'bufferSize': READ_FILE_CHUNK_SIZE});
+                writeStream = fs.createWriteStream(outputFile);
+
+                readStream.on('error', callback);
+                writeStream.on('error', callback);
+
+                readStream.pipe(writeStream);
+                readStream.on('end', function() {
+                    callback(null, name);
+                });
+            }
+        },
+        q = async.queue(processor, 10),
+        errors = [],
+        count = 0,
+        startTime = new Date().getTime();
+
+    q.push(relativeNames, function (err, name) {
+        var inputFile, outputFile;
+        if (err) {
+            errors.push({ file: name, error: err.message || err.toString() });
+            inputFile = path.resolve(inputDir, name);
+            outputFile = path.resolve(outputDir, name);
+            fs.writeFileSync(outputFile, fs.readFileSync(inputFile));
+        }
+        if (verbose) {
+            console.log('Processed: ' + name);
+        } else {
+            if (count % 100 === 0) { process.stdout.write('.'); }
+        }
+        count += 1;
+    });
+
+    q.drain = function () {
+        var endTime = new Date().getTime();
+        console.log('\nProcessed [' + count + '] files in ' + Math.floor((endTime - startTime) / 1000) + ' secs');
+        if (errors.length > 0) {
+            console.log('The following ' + errors.length + ' file(s) had errors and were copied as-is');
+            console.log(errors);
+        }
+    };
+}
+
+
+function InstrumentCommand() {
+    Command.call(this);
+}
+
+InstrumentCommand.TYPE = 'instrument';
+util.inherits(InstrumentCommand, Command);
+
+Command.mix(InstrumentCommand, {
+    synopsis: function synopsis() {
+        return "instruments a file or a directory tree and writes the instrumented code to the desired output location";
+    },
+
+    usage: function () {
+        console.error('\nUsage: ' + this.toolName() + ' ' + this.type() + ' <options> <file-or-directory>\n\nOptions are:\n\n' +
+            [
+                formatOption('--config <path-to-config>', 'the configuration file to use, defaults to .istanbul.yml'),
+                formatOption('--output <file-or-dir>', 'The output file or directory. This is required when the input is a directory, ' +
+                    'defaults to standard output when input is a file'),
+                formatOption('-x <exclude-pattern> [-x <exclude-pattern>]', 'one or more glob patterns (e.g. "**/vendor/**" to ignore all files ' +
+                    'under a vendor directory). Also see the --default-excludes option'),
+                formatOption('--variable <global-coverage-variable-name>', 'change the variable name of the global coverage variable from the ' +
+                    'default value of `__coverage__` to something else'),
+                formatOption('--embed-source', 'embed source code into the coverage object, defaults to false'),
+                formatOption('--[no-]compact', 'produce [non]compact output, defaults to compact'),
+                formatOption('--[no-]preserve-comments', 'remove / preserve comments in the output, defaults to false'),
+                formatOption('--[no-]complete-copy', 'also copy non-javascript files to the ouput directory as is, defaults to false'),
+                formatOption('--save-baseline', 'produce a baseline coverage.json file out of all files instrumented'),
+                formatOption('--baseline-file <file>', 'filename of baseline file, defaults to coverage/coverage-baseline.json'),
+                formatOption('--es-modules', 'source code uses es import/export module syntax')
+            ].join('\n\n') + '\n');
+        console.error('\n');
+    },
+
+    run: function (args, callback) {
+
+        var template = {
+                config: path,
+                output: path,
+                x: [Array, String],
+                variable: String,
+                compact: Boolean,
+                'complete-copy': Boolean,
+                verbose: Boolean,
+                'save-baseline': Boolean,
+                'baseline-file': path,
+                'embed-source': Boolean,
+                'preserve-comments': Boolean,
+                'es-modules': Boolean
+            },
+            opts = nopt(template, { v : '--verbose' }, args, 0),
+            overrides = {
+                verbose: opts.verbose,
+                instrumentation: {
+                    variable: opts.variable,
+                    compact: opts.compact,
+                    'embed-source': opts['embed-source'],
+                    'preserve-comments': opts['preserve-comments'],
+                    excludes: opts.x,
+                    'complete-copy': opts['complete-copy'],
+                    'save-baseline': opts['save-baseline'],
+                    'baseline-file': opts['baseline-file'],
+                    'es-modules': opts['es-modules']
+                }
+            },
+            config = configuration.loadFile(opts.config, overrides),
+            iOpts = config.instrumentation,
+            cmdArgs = opts.argv.remain,
+            file,
+            stats,
+            stream,
+            includes,
+            instrumenter,
+            needBaseline = iOpts.saveBaseline(),
+            baselineFile = path.resolve(iOpts.baselineFile()),
+            output = opts.output;
+
+        verbose = config.verbose;
+        if (cmdArgs.length !== 1) {
+            return callback(inputError.create('Need exactly one filename/ dirname argument for the instrument command!'));
+        }
+
+        if (iOpts.completeCopy()) {
+            includes = ['**/*'];
+        }
+        else {
+            includes = iOpts.extensions().map(function(ext) {
+                return '**/*' + ext;
+            });
+        }
+
+        instrumenter = new Instrumenter({
+            coverageVariable: iOpts.variable(),
+            embedSource: iOpts.embedSource(),
+            noCompact: !iOpts.compact(),
+            preserveComments: iOpts.preserveComments(),
+            esModules: iOpts.esModules()
+        });
+
+        if (needBaseline) {
+            mkdirp.sync(path.dirname(baselineFile));
+            instrumenter = new BaselineCollector(instrumenter);
+            process.on('exit', function () {
+                console.log('Saving baseline coverage at: ' + baselineFile);
+                fs.writeFileSync(baselineFile, JSON.stringify(instrumenter.getCoverage()), 'utf8');
+            });
+        }
+
+        file = path.resolve(cmdArgs[0]);
+        stats = fs.statSync(file);
+        if (stats.isDirectory()) {
+            if (!output) { return callback(inputError.create('Need an output directory [-o <dir>] when input is a directory!')); }
+            if (output === file) { return callback(inputError.create('Cannot instrument into the same directory/ file as input!')); }
+            mkdirp.sync(output);
+            filesFor({
+                root: file,
+                includes: includes,
+                excludes: opts.x || iOpts.excludes(false), // backwards-compat, *sigh*
+                relative: true
+            }, function (err, files) {
+                if (err) { return callback(err); }
+                processFiles(instrumenter, file, output, files, iOpts.extensions());
+            });
+        } else {
+            if (output) {
+                stream = fs.createWriteStream(output);
+            } else {
+                stream = process.stdout;
+            }
+            stream.write(instrumenter.instrumentSync(fs.readFileSync(file, 'utf8'), file));
+            if (stream !== process.stdout) {
+                stream.end();
+            }
+        }
+    }
+});
+
+module.exports = InstrumentCommand;
+

static/js/ketcher2/node_modules/istanbul/lib/command/report.js

@@ -0,0 +1,123 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var nopt = require('nopt'),
+    Report = require('../report'),
+    Reporter = require('../reporter'),
+    path = require('path'),
+    fs = require('fs'),
+    Collector = require('../collector'),
+    helpFormatter = require('../util/help-formatter'),
+    formatOption = helpFormatter.formatOption,
+    formatPara = helpFormatter.formatPara,
+    filesFor = require('../util/file-matcher').filesFor,
+    util = require('util'),
+    Command = require('./index'),
+    configuration = require('../config');
+
+function ReportCommand() {
+    Command.call(this);
+}
+
+ReportCommand.TYPE = 'report';
+util.inherits(ReportCommand, Command);
+
+function printDeprecationMessage(pat, fmt) {
+    console.error('**********************************************************************');
+    console.error('DEPRECATION WARNING! You are probably using the old format of the report command');
+    console.error('This will stop working soon, see `istanbul help report` for the new command format');
+    console.error('Assuming you meant: istanbul report --include=' + pat + ' ' + fmt);
+    console.error('**********************************************************************');
+}
+
+Command.mix(ReportCommand, {
+    synopsis: function () {
+        return "writes reports for coverage JSON objects produced in a previous run";
+    },
+
+    usage: function () {
+        console.error('\nUsage: ' + this.toolName() + ' ' + this.type() + ' <options> [ <format> ... ]\n\nOptions are:\n\n' +
+            [
+                formatOption('--config <path-to-config>', 'the configuration file to use, defaults to .istanbul.yml'),
+                formatOption('--root <input-directory>', 'The input root directory for finding coverage files'),
+                formatOption('--dir <report-directory>', 'The output directory where files will be written. This defaults to ./coverage/'),
+                formatOption('--include <glob>', 'The glob pattern to select one or more coverage files, defaults to **/coverage*.json'),
+                formatOption('--verbose, -v', 'verbose mode')
+            ].join('\n\n'));
+
+        console.error('\n');
+        console.error('<format> is one of ');
+        Report.getReportList().forEach(function (name) {
+           console.error(formatOption(name, Report.create(name).synopsis()));
+        });
+        console.error("");
+        console.error(formatPara([
+            'Default format is lcov unless otherwise specified in the config file.',
+            'In addition you can tweak the file names for various reports using the config file.',
+            'Type `istanbul help config` to see what can be tweaked.'
+        ].join(' ')));
+        console.error('\n');
+    },
+
+    run: function (args, callback) {
+
+        var template = {
+                config: path,
+                root: path,
+                dir: path,
+                include: String,
+                verbose: Boolean
+            },
+            opts = nopt(template, { v : '--verbose' }, args, 0),
+            includePattern = opts.include || '**/coverage*.json',
+            root,
+            collector = new Collector(),
+            config = configuration.loadFile(opts.config, {
+                verbose: opts.verbose,
+                reporting: {
+                    dir: opts.dir
+                }
+            }),
+            formats = opts.argv.remain,
+            reporter = new Reporter(config);
+
+        // Start: backward compatible processing
+        if (formats.length === 2 &&
+                Report.getReportList().indexOf(formats[1]) < 0) {
+            includePattern = formats[1];
+            formats = [ formats[0] ];
+            printDeprecationMessage(includePattern, formats[0]);
+        }
+        // End: backward compatible processing
+
+        if (formats.length === 0) {
+            formats = config.reporting.reports();
+        }
+        if (formats.length === 0) {
+            formats = [ 'lcov' ];
+        }
+        reporter.addAll(formats);
+
+        root = opts.root || process.cwd();
+        filesFor({
+            root: root,
+            includes: [ includePattern ]
+        }, function (err, files) {
+            if (err) { throw err; }
+            files.forEach(function (file) {
+                var coverageObject =  JSON.parse(fs.readFileSync(file, 'utf8'));
+                collector.add(coverageObject);
+            });
+            reporter.write(collector, false, function (err) {
+                console.log('Done');
+                return callback(err);
+            });
+        });
+    }
+});
+
+module.exports = ReportCommand;
+
+

static/js/ketcher2/node_modules/istanbul/lib/command/test.js

@@ -0,0 +1,31 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var runWithCover = require('./common/run-with-cover'),
+    util = require('util'),
+    Command = require('./index');
+
+function TestCommand() {
+    Command.call(this);
+}
+
+TestCommand.TYPE = 'test';
+util.inherits(TestCommand, Command);
+
+Command.mix(TestCommand, {
+    synopsis: function () {
+        return "cover a node command only when npm_config_coverage is set. Use in an `npm test` script for conditional coverage";
+    },
+
+    usage: function () {
+        runWithCover.usage(this.toolName(), this.type());
+    },
+
+    run: function (args, callback) {
+        runWithCover.run(args, this.type(), !!process.env.npm_config_coverage, callback);
+    }
+});
+
+module.exports = TestCommand;

static/js/ketcher2/node_modules/istanbul/lib/config.js

@@ -0,0 +1,491 @@
+/*
+ Copyright (c) 2013, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+var path = require('path'),
+    fs = require('fs'),
+    existsSync = fs.existsSync || path.existsSync,
+    CAMEL_PATTERN = /([a-z])([A-Z])/g,
+    YML_PATTERN = /\.ya?ml$/,
+    yaml = require('js-yaml'),
+    defaults = require('./report/common/defaults');
+
+function defaultConfig(includeBackCompatAttrs) {
+    var ret = {
+        verbose: false,
+        instrumentation: {
+            root: '.',
+            extensions: ['.js'],
+            'default-excludes': true,
+            excludes: [],
+            'embed-source': false,
+            variable: '__coverage__',
+            compact: true,
+            'preserve-comments': false,
+            'complete-copy': false,
+            'save-baseline': false,
+            'baseline-file': './coverage/coverage-baseline.json',
+            'include-all-sources': false,
+            'include-pid': false,
+            'es-modules': false
+        },
+        reporting: {
+            print: 'summary',
+            reports: [ 'lcov' ],
+            dir: './coverage'
+        },
+        hooks: {
+            'hook-run-in-context': false,
+            'post-require-hook': null,
+            'handle-sigint': false
+        },
+        check: {
+            global: {
+                statements: 0,
+                lines: 0,
+                branches: 0,
+                functions: 0,
+                excludes: [] // Currently list of files (root + path). For future, extend to patterns.
+            },
+            each: {
+                statements: 0,
+                lines: 0,
+                branches: 0,
+                functions: 0,
+                excludes: []
+            }
+        }
+    };
+    ret.reporting.watermarks = defaults.watermarks();
+    ret.reporting['report-config'] = defaults.defaultReportConfig();
+
+    if (includeBackCompatAttrs) {
+        ret.instrumentation['preload-sources'] = false;
+    }
+
+    return ret;
+}
+
+function dasherize(word) {
+    return word.replace(CAMEL_PATTERN, function (match, lch, uch) {
+        return lch + '-' + uch.toLowerCase();
+    });
+}
+function isScalar(v) {
+    if (v === null) { return true; }
+    return v !== undefined && !Array.isArray(v) && typeof v !== 'object';
+}
+
+function isObject(v) {
+    return typeof v === 'object' && v !== null && !Array.isArray(v);
+}
+
+function mergeObjects(explicit, template) {
+
+    var ret = {};
+
+    Object.keys(template).forEach(function (k) {
+        var v1 = template[k],
+            v2 = explicit[k];
+
+        if (Array.isArray(v1)) {
+            ret[k] = Array.isArray(v2) && v2.length > 0 ? v2 : v1;
+        } else if (isObject(v1)) {
+            v2 = isObject(v2) ? v2 : {};
+            ret[k] = mergeObjects(v2, v1);
+        } else {
+            ret[k] = isScalar(v2) ? v2 : v1;
+        }
+    });
+    return ret;
+}
+
+function mergeDefaults(explicit, implicit) {
+    return mergeObjects(explicit || {}, implicit);
+}
+
+function addMethods() {
+    var args = Array.prototype.slice.call(arguments),
+        cons = args.shift();
+
+    args.forEach(function (arg) {
+        var method = arg,
+            property = dasherize(arg);
+        cons.prototype[method] = function () {
+            return this.config[property];
+        };
+    });
+}
+
+/**
+ * Object that returns instrumentation options
+ * @class InstrumentOptions
+ * @module config
+ * @constructor
+ * @param config the instrumentation part of the config object
+ */
+function InstrumentOptions(config) {
+    if (config['preload-sources']) {
+        console.error('The preload-sources option is deprecated, please use include-all-sources instead.');
+        config['include-all-sources'] = config['preload-sources'];
+    }
+    this.config = config;
+}
+
+/**
+ * returns if default excludes should be turned on. Used by the `cover` command.
+ * @method defaultExcludes
+ * @return {Boolean} true if default excludes should be turned on
+ */
+/**
+ * returns if non-JS files should be copied during instrumentation. Used by the
+ * `instrument` command.
+ * @method completeCopy
+ * @return {Boolean} true if non-JS files should be copied
+ */
+/**
+ * returns if the source should be embedded in the instrumented code. Used by the
+ * `instrument` command.
+ * @method embedSource
+ * @return {Boolean} true if the source should be embedded in the instrumented code
+ */
+/**
+ * the coverage variable name to use. Used by the `instrument` command.
+ * @method variable
+ * @return {String} the coverage variable name to use
+ */
+/**
+ * returns if the output should be compact JS. Used by the `instrument` command.
+ * @method compact
+ * @return {Boolean} true if the output should be compact
+ */
+/**
+ * returns if comments should be preserved in the generated JS. Used by the
+ * `cover` and `instrument` commands.
+ * @method preserveComments
+ * @return {Boolean} true if comments should be preserved in the generated JS
+ */
+/**
+ * returns if a zero-coverage baseline file should be written as part of
+ * instrumentation. This allows reporting to display numbers for files that have
+ * no tests. Used by the  `instrument` command.
+ * @method saveBaseline
+ * @return {Boolean} true if a baseline coverage file should be written.
+ */
+/**
+ * Sets the baseline coverage filename. Used by the  `instrument` command.
+ * @method baselineFile
+ * @return {String} the name of the baseline coverage file.
+ */
+/**
+ * returns if comments the JS to instrument contains es6 Module syntax.
+ * @method esModules
+ * @return {Boolean} true if code contains es6 import/export statements.
+ */
+/**
+ * returns if the coverage filename should include the PID. Used by the  `instrument` command.
+ * @method includePid
+ * @return {Boolean} true to include pid in coverage filename.
+ */
+
+
+addMethods(InstrumentOptions,
+    'extensions', 'defaultExcludes', 'completeCopy',
+    'embedSource', 'variable', 'compact', 'preserveComments',
+    'saveBaseline', 'baselineFile', 'esModules',
+    'includeAllSources', 'includePid');
+
+/**
+ * returns the root directory used by istanbul which is typically the root of the
+ * source tree. Used by the `cover` and `report` commands.
+ * @method root
+ * @return {String} the root directory used by istanbul.
+ */
+InstrumentOptions.prototype.root = function () { return path.resolve(this.config.root); };
+/**
+ * returns an array of glob patterns that should be excluded for instrumentation.
+ * Used by the `instrument` and `cover` commands.
+ * @method excludes
+ * @return {Array} an array of glob patterns that should be excluded for
+ *  instrumentation.
+ */
+InstrumentOptions.prototype.excludes = function (excludeTests) {
+    var defs;
+    if (this.defaultExcludes()) {
+        defs = [ '**/node_modules/**' ];
+        if (excludeTests) {
+            defs = defs.concat(['**/test/**', '**/tests/**']);
+        }
+        return defs.concat(this.config.excludes);
+    }
+    return this.config.excludes;
+};
+
+/**
+ * Object that returns reporting options
+ * @class ReportingOptions
+ * @module config
+ * @constructor
+ * @param config the reporting part of the config object
+ */
+function ReportingOptions(config) {
+    this.config = config;
+}
+
+/**
+ * returns the kind of information to be printed on the console. May be one
+ * of `summary`, `detail`, `both` or `none`. Used by the
+ * `cover` command.
+ * @method print
+ * @return {String} the kind of information to print to the console at the end
+ * of the `cover` command execution.
+ */
+/**
+ * returns a list of reports that should be generated at the end of a run. Used
+ * by the `cover` and `report` commands.
+ * @method reports
+ * @return {Array} an array of reports that should be produced
+ */
+/**
+ * returns the directory under which reports should be generated. Used by the
+ * `cover` and `report` commands.
+ *
+ * @method dir
+ * @return {String} the directory under which reports should be generated.
+ */
+/**
+ * returns an object that has keys that are report format names and values that are objects
+ * containing detailed configuration for each format. Running `istanbul help config`
+ * will give you all the keys per report format that can be overridden.
+ * Used by the `cover` and `report` commands.
+ * @method reportConfig
+ * @return {Object} detailed report configuration per report format.
+ */
+addMethods(ReportingOptions, 'print', 'reports', 'dir', 'reportConfig');
+
+function isInvalidMark(v, key) {
+    var prefix = 'Watermark for [' + key + '] :';
+
+    if (v.length !== 2) {
+        return prefix + 'must be an array of length 2';
+    }
+    v[0] = Number(v[0]);
+    v[1] = Number(v[1]);
+
+    if (isNaN(v[0]) || isNaN(v[1])) {
+        return prefix + 'must have valid numbers';
+    }
+    if (v[0] < 0 || v[1] < 0) {
+        return prefix + 'must be positive numbers';
+    }
+    if (v[1] > 100) {
+        return prefix + 'cannot exceed 100';
+    }
+    if (v[1] <= v[0]) {
+        return prefix + 'low must be less than high';
+    }
+    return null;
+}
+
+/**
+ * returns the low and high watermarks to be used to designate whether coverage
+ * is `low`, `medium` or `high`. Statements, functions, branches and lines can
+ * have independent watermarks. These are respected by all reports
+ * that color for low, medium and high coverage. See the default configuration for exact syntax
+ * using `istanbul help config`. Used by the `cover` and `report` commands.
+ *
+ * @method watermarks
+ * @return {Object} an object containing low and high watermarks for statements,
+ *  branches, functions and lines.
+ */
+ReportingOptions.prototype.watermarks = function () {
+    var v = this.config.watermarks,
+        defs = defaults.watermarks(),
+        ret = {};
+
+    Object.keys(defs).forEach(function (k) {
+        var mark = v[k], //it will already be a non-zero length array because of the way the merge works
+            message = isInvalidMark(mark, k);
+        if (message) {
+            console.error(message);
+            ret[k] = defs[k];
+        } else {
+            ret[k] = mark;
+        }
+    });
+    return ret;
+};
+
+/**
+ * Object that returns hook options. Note that istanbul does not provide an
+ * option to hook `require`. This is always done by the `cover` command.
+ * @class HookOptions
+ * @module config
+ * @constructor
+ * @param config the hooks part of the config object
+ */
+function HookOptions(config) {
+    this.config = config;
+}
+
+/**
+ * returns if `vm.runInThisContext` needs to be hooked, in addition to the standard
+ * `require` hooks added by istanbul. This should be true for code that uses
+ * RequireJS for example. Used by the `cover` command.
+ * @method hookRunInContext
+ * @return {Boolean} true if `vm.runInThisContext` needs to be hooked for coverage
+ */
+/**
+ * returns a path to JS file or a dependent module that should be used for
+ * post-processing files after they have been required. See the `yui-istanbul` module for
+ * an example of a post-require hook. This particular hook modifies the yui loader when
+ * that file is required to add istanbul interceptors. Use by the `cover` command
+ *
+ * @method postRequireHook
+ * @return {String} a path to a JS file or the name of a node module that needs
+ * to be used as a `require` post-processor
+ */
+/**
+ * returns if istanbul needs to add a SIGINT (control-c, usually) handler to
+ * save coverage information. Useful for getting code coverage out of processes
+ * that run forever and need a SIGINT to terminate.
+ * @method handleSigint
+ * @return {Boolean} true if SIGINT needs to be hooked to write coverage information
+ */
+
+addMethods(HookOptions, 'hookRunInContext', 'postRequireHook', 'handleSigint');
+
+/**
+ * represents the istanbul configuration and provides sub-objects that can
+ * return instrumentation, reporting and hook options respectively.
+ * Usage
+ * -----
+ *
+ *      var configObj = require('istanbul').config.loadFile();
+ *
+ *      console.log(configObj.reporting.reports());
+ *
+ * @class Configuration
+ * @module config
+ * @param {Object} obj  the base object to use as the configuration
+ * @param {Object} overrides optional - override attributes that are merged into
+ *  the base config
+ * @constructor
+ */
+function Configuration(obj, overrides) {
+
+    var config = mergeDefaults(obj, defaultConfig(true));
+    if (isObject(overrides)) {
+        config = mergeDefaults(overrides, config);
+    }
+    if (config.verbose) {
+        console.error('Using configuration');
+        console.error('-------------------');
+        console.error(yaml.safeDump(config, { indent: 4, flowLevel: 3 }));
+        console.error('-------------------\n');
+    }
+    this.verbose = config.verbose;
+    this.instrumentation = new InstrumentOptions(config.instrumentation);
+    this.reporting = new ReportingOptions(config.reporting);
+    this.hooks = new HookOptions(config.hooks);
+    this.check = config.check; // Pass raw config sub-object.
+}
+
+/**
+ * true if verbose logging is required
+ * @property verbose
+ * @type Boolean
+ */
+/**
+ * instrumentation options
+ * @property instrumentation
+ * @type InstrumentOptions
+ */
+/**
+ * reporting options
+ * @property reporting
+ * @type ReportingOptions
+ */
+/**
+ * hook options
+ * @property hooks
+ * @type HookOptions
+ */
+
+
+function loadFile(file, overrides) {
+    var defaultConfigFile = path.resolve('.istanbul.yml'),
+        configObject;
+
+    if (file) {
+        if (!existsSync(file)) {
+            throw new Error('Invalid configuration file specified:' + file);
+        }
+    } else {
+        if (existsSync(defaultConfigFile)) {
+            file = defaultConfigFile;
+        }
+    }
+
+    if (file) {
+        if (overrides && overrides.verbose === true) {
+            console.error('Loading config: ' + file);
+        }
+        configObject = file.match(YML_PATTERN) ?
+            yaml.safeLoad(fs.readFileSync(file, 'utf8'), { filename: file }) :
+            require(path.resolve(file));
+    }
+
+    return new Configuration(configObject, overrides);
+}
+
+function loadObject(obj, overrides) {
+    return new Configuration(obj, overrides);
+}
+
+/**
+ * methods to load the configuration object.
+ * Usage
+ * -----
+ *
+ *      var config = require('istanbul').config,
+ *          configObj = config.loadFile();
+ *
+ *      console.log(configObj.reporting.reports());
+ *
+ * @class Config
+ * @module main
+ * @static
+ */
+module.exports = {
+    /**
+     * loads the specified configuration file with optional overrides. Throws
+     * when a file is specified and it is not found.
+     * @method loadFile
+     * @static
+     * @param {String} file the file to load. If falsy, the default config file, if present, is loaded.
+     *  If not a default config is used.
+     * @param {Object} overrides - an object with override keys that are merged into the
+     *  config object loaded
+     * @return {Configuration} the config object with overrides applied
+     */
+    loadFile: loadFile,
+    /**
+     * loads the specified configuration object with optional overrides.
+     * @method loadObject
+     * @static
+     * @param {Object} obj the object to use as the base configuration.
+     * @param {Object} overrides - an object with override keys that are merged into the
+     *  config object
+     * @return {Configuration} the config object with overrides applied
+     */
+    loadObject: loadObject,
+    /**
+     * returns the default configuration object. Note that this is a plain object
+     * and not a `Configuration` instance.
+     * @method defaultConfig
+     * @static
+     * @return {Object} an object that represents the default config
+     */
+    defaultConfig: defaultConfig
+};

static/js/ketcher2/node_modules/istanbul/lib/hook.js

@@ -0,0 +1,198 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+/**
+ * provides a mechanism to transform code in the scope of `require` or `vm.createScript`.
+ * This mechanism is general and relies on a user-supplied `matcher` function that determines when transformations should be
+ * performed and a user-supplied `transformer` function that performs the actual transform.
+ * Instrumenting code for coverage is one specific example of useful hooking.
+ *
+ * Note that both the `matcher` and `transformer` must execute synchronously.
+ *
+ * For the common case of matching filesystem paths based on inclusion/ exclusion patterns, use the `matcherFor`
+ * function in the istanbul API to get a matcher.
+ *
+ * It is up to the transformer to perform processing with side-effects, such as caching, storing the original
+ * source code to disk in case of dynamically generated scripts etc. The `Store` class can help you with this.
+ *
+ * Usage
+ * -----
+ *
+ *      var hook = require('istanbul').hook,
+ *          myMatcher = function (file) { return file.match(/foo/); },
+ *          myTransformer = function (code, file) { return 'console.log("' + file + '");' + code; };
+ *
+ *      hook.hookRequire(myMatcher, myTransformer);
+ *
+ *      var foo = require('foo'); //will now print foo's module path to console
+ *
+ * @class Hook
+ * @module main
+ */
+var path = require('path'),
+    fs = require('fs'),
+    Module = require('module'),
+    vm = require('vm'),
+    originalLoaders = {},
+    originalCreateScript = vm.createScript,
+    originalRunInThisContext = vm.runInThisContext;
+
+function transformFn(matcher, transformer, verbose) {
+
+    return function (code, filename) {
+        var shouldHook = typeof filename === 'string' && matcher(path.resolve(filename)),
+            transformed,
+            changed = false;
+
+        if (shouldHook) {
+            if (verbose) {
+                console.error('Module load hook: transform [' + filename + ']');
+            }
+            try {
+                transformed = transformer(code, filename);
+                changed = true;
+            } catch (ex) {
+                console.error('Transformation error; return original code');
+                console.error(ex);
+                transformed = code;
+            }
+        } else {
+            transformed = code;
+        }
+        return { code: transformed, changed: changed };
+    };
+}
+
+function unloadRequireCache(matcher) {
+    if (matcher && typeof require !== 'undefined' && require && require.cache) {
+        Object.keys(require.cache).forEach(function (filename) {
+            if (matcher(filename)) {
+                delete require.cache[filename];
+            }
+        });
+    }
+}
+/**
+ * hooks `require` to return transformed code to the node module loader.
+ * Exceptions in the transform result in the original code being used instead.
+ * @method hookRequire
+ * @static
+ * @param matcher {Function(filePath)} a function that is called with the absolute path to the file being
+ *  `require`-d. Should return a truthy value when transformations need to be applied to the code, a falsy value otherwise
+ * @param transformer {Function(code, filePath)} a function called with the original code and the associated path of the file
+ *  from where the code was loaded. Should return the transformed code.
+ * @param options {Object} options Optional.
+ * @param {Boolean} [options.verbose] write a line to standard error every time the transformer is called
+ * @param {Function} [options.postLoadHook] a function that is called with the name of the file being
+ *  required. This is called after the require is processed irrespective of whether it was transformed.
+ */
+function hookRequire(matcher, transformer, options) {
+    options = options || {};
+    var extensions,
+        fn = transformFn(matcher, transformer, options.verbose),
+        postLoadHook = options.postLoadHook &&
+            typeof options.postLoadHook === 'function' ? options.postLoadHook : null;
+
+    extensions = options.extensions || ['.js'];
+
+    extensions.forEach(function(ext){
+        if (!(ext in originalLoaders)) {
+            originalLoaders[ext] = Module._extensions[ext] || Module._extensions['.js'];
+        }
+        Module._extensions[ext] = function (module, filename) {
+            var ret = fn(fs.readFileSync(filename, 'utf8'), filename);
+            if (ret.changed) {
+                module._compile(ret.code, filename);
+            } else {
+                originalLoaders[ext](module, filename);
+            }
+            if (postLoadHook) {
+                postLoadHook(filename);
+            }
+        };
+    });
+}
+/**
+ * unhook `require` to restore it to its original state.
+ * @method unhookRequire
+ * @static
+ */
+function unhookRequire() {
+    Object.keys(originalLoaders).forEach(function(ext) {
+        Module._extensions[ext] = originalLoaders[ext];
+    });
+}
+/**
+ * hooks `vm.createScript` to return transformed code out of which a `Script` object will be created.
+ * Exceptions in the transform result in the original code being used instead.
+ * @method hookCreateScript
+ * @static
+ * @param matcher {Function(filePath)} a function that is called with the filename passed to `vm.createScript`
+ *  Should return a truthy value when transformations need to be applied to the code, a falsy value otherwise
+ * @param transformer {Function(code, filePath)} a function called with the original code and the filename passed to
+ *  `vm.createScript`. Should return the transformed code.
+ * @param options {Object} options Optional.
+ * @param {Boolean} [options.verbose] write a line to standard error every time the transformer is called
+ */
+function hookCreateScript(matcher, transformer, opts) {
+    opts = opts || {};
+    var fn = transformFn(matcher, transformer, opts.verbose);
+    vm.createScript = function (code, file) {
+        var ret = fn(code, file);
+        return originalCreateScript(ret.code, file);
+    };
+}
+
+/**
+ * unhooks vm.createScript, restoring it to its original state.
+ * @method unhookCreateScript
+ * @static
+ */
+function unhookCreateScript() {
+    vm.createScript = originalCreateScript;
+}
+
+
+/**
+ * hooks `vm.runInThisContext` to return transformed code.
+ * @method hookRunInThisContext
+ * @static
+ * @param matcher {Function(filePath)} a function that is called with the filename passed to `vm.createScript`
+ *  Should return a truthy value when transformations need to be applied to the code, a falsy value otherwise
+ * @param transformer {Function(code, filePath)} a function called with the original code and the filename passed to
+ *  `vm.createScript`. Should return the transformed code.
+ * @param options {Object} options Optional.
+ * @param {Boolean} [options.verbose] write a line to standard error every time the transformer is called
+ */
+function hookRunInThisContext(matcher, transformer, opts) {
+    opts = opts || {};
+    var fn = transformFn(matcher, transformer, opts.verbose);
+    vm.runInThisContext = function (code, file) {
+        var ret = fn(code, file);
+        return originalRunInThisContext(ret.code, file);
+    };
+}
+
+/**
+ * unhooks vm.runInThisContext, restoring it to its original state.
+ * @method unhookRunInThisContext
+ * @static
+ */
+function unhookRunInThisContext() {
+    vm.runInThisContext = originalRunInThisContext;
+}
+
+
+module.exports = {
+    hookRequire: hookRequire,
+    unhookRequire: unhookRequire,
+    hookCreateScript: hookCreateScript,
+    unhookCreateScript: unhookCreateScript,
+    hookRunInThisContext : hookRunInThisContext,
+    unhookRunInThisContext : unhookRunInThisContext,
+    unloadRequireCache: unloadRequireCache
+};
+
+

static/js/ketcher2/node_modules/istanbul/lib/object-utils.js

@@ -0,0 +1,425 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+/**
+ * utility methods to process coverage objects. A coverage object has the following
+ * format.
+ *
+ *      {
+ *          "/path/to/file1.js": { file1 coverage },
+ *          "/path/to/file2.js": { file2 coverage }
+ *      }
+ *
+ *  The internals of the file coverage object are intentionally not documented since
+ *  it is not a public interface.
+ *
+ *  *Note:* When a method of this module has the word `File` in it, it will accept
+ *  one of the sub-objects of the main coverage object as an argument. Other
+ *  methods accept the higher level coverage object with multiple keys.
+ *
+ * Works on `node` as well as the browser.
+ *
+ * Usage on nodejs
+ * ---------------
+ *
+ *      var objectUtils = require('istanbul').utils;
+ *
+ * Usage in a browser
+ * ------------------
+ *
+ * Load this file using a `script` tag or other means. This will set `window.coverageUtils`
+ * to this module's exports.
+ *
+ * @class ObjectUtils
+ * @module main
+ * @static
+ */
+(function (isNode) {
+    /**
+     * adds line coverage information to a file coverage object, reverse-engineering
+     * it from statement coverage. The object passed in is updated in place.
+     *
+     * Note that if line coverage information is already present in the object,
+     * it is not recomputed.
+     *
+     * @method addDerivedInfoForFile
+     * @static
+     * @param {Object} fileCoverage the coverage object for a single file
+     */
+    function addDerivedInfoForFile(fileCoverage) {
+        var statementMap = fileCoverage.statementMap,
+            statements = fileCoverage.s,
+            lineMap;
+
+        if (!fileCoverage.l) {
+            fileCoverage.l = lineMap = {};
+            Object.keys(statements).forEach(function (st) {
+                var line = statementMap[st].start.line,
+                    count = statements[st],
+                    prevVal = lineMap[line];
+                if (count === 0 && statementMap[st].skip) { count = 1; }
+                if (typeof prevVal === 'undefined' || prevVal < count) {
+                    lineMap[line] = count;
+                }
+            });
+        }
+    }
+    /**
+     * adds line coverage information to all file coverage objects.
+     *
+     * @method addDerivedInfo
+     * @static
+     * @param {Object} coverage the coverage object
+     */
+    function addDerivedInfo(coverage) {
+        Object.keys(coverage).forEach(function (k) {
+            addDerivedInfoForFile(coverage[k]);
+        });
+    }
+    /**
+     * removes line coverage information from all file coverage objects
+     * @method removeDerivedInfo
+     * @static
+     * @param {Object} coverage the coverage object
+     */
+    function removeDerivedInfo(coverage) {
+        Object.keys(coverage).forEach(function (k) {
+            delete coverage[k].l;
+        });
+    }
+
+    function percent(covered, total) {
+        var tmp;
+        if (total > 0) {
+            tmp = 1000 * 100 * covered / total + 5;
+            return Math.floor(tmp / 10) / 100;
+        } else {
+            return 100.00;
+        }
+    }
+
+    function computeSimpleTotals(fileCoverage, property, mapProperty) {
+        var stats = fileCoverage[property],
+            map = mapProperty ? fileCoverage[mapProperty] : null,
+            ret = { total: 0, covered: 0, skipped: 0 };
+
+        Object.keys(stats).forEach(function (key) {
+            var covered = !!stats[key],
+                skipped = map && map[key].skip;
+            ret.total += 1;
+            if (covered || skipped) {
+                ret.covered += 1;
+            }
+            if (!covered && skipped) {
+                ret.skipped += 1;
+            }
+        });
+        ret.pct = percent(ret.covered, ret.total);
+        return ret;
+    }
+
+    function computeBranchTotals(fileCoverage) {
+        var stats = fileCoverage.b,
+            branchMap = fileCoverage.branchMap,
+            ret = { total: 0, covered: 0, skipped: 0 };
+
+        Object.keys(stats).forEach(function (key) {
+            var branches = stats[key],
+                map = branchMap[key],
+                covered,
+                skipped,
+                i;
+            for (i = 0; i < branches.length; i += 1) {
+                covered = branches[i] > 0;
+                skipped = map.locations && map.locations[i] && map.locations[i].skip;
+                if (covered || skipped) {
+                    ret.covered += 1;
+                }
+                if (!covered && skipped) {
+                    ret.skipped += 1;
+                }
+            }
+            ret.total += branches.length;
+        });
+        ret.pct = percent(ret.covered, ret.total);
+        return ret;
+    }
+    /**
+     * returns a blank summary metrics object. A metrics object has the following
+     * format.
+     *
+     *      {
+     *          lines: lineMetrics,
+     *          statements: statementMetrics,
+     *          functions: functionMetrics,
+     *          branches: branchMetrics
+     *          linesCovered: lineCoveredCount
+     *      }
+     *
+     *  Each individual metric object looks as follows:
+     *
+     *      {
+     *          total: n,
+     *          covered: m,
+     *          pct: percent
+     *      }
+     *
+     * @method blankSummary
+     * @static
+     * @return {Object} a blank metrics object
+     */
+    function blankSummary() {
+        return {
+            lines: {
+                total: 0,
+                covered: 0,
+                skipped: 0,
+                pct: 'Unknown'
+            },
+            statements: {
+                total: 0,
+                covered: 0,
+                skipped: 0,
+                pct: 'Unknown'
+            },
+            functions: {
+                total: 0,
+                covered: 0,
+                skipped: 0,
+                pct: 'Unknown'
+            },
+            branches: {
+                total: 0,
+                covered: 0,
+                skipped: 0,
+                pct: 'Unknown'
+            },
+            linesCovered: {}
+        };
+    }
+    /**
+     * returns the summary metrics given the coverage object for a single file. See `blankSummary()`
+     * to understand the format of the returned object.
+     *
+     * @method summarizeFileCoverage
+     * @static
+     * @param {Object} fileCoverage the coverage object for a single file.
+     * @return {Object} the summary metrics for the file
+     */
+    function summarizeFileCoverage(fileCoverage) {
+        var ret = blankSummary();
+        addDerivedInfoForFile(fileCoverage);
+        ret.lines = computeSimpleTotals(fileCoverage, 'l');
+        ret.functions = computeSimpleTotals(fileCoverage, 'f', 'fnMap');
+        ret.statements = computeSimpleTotals(fileCoverage, 's', 'statementMap');
+        ret.branches = computeBranchTotals(fileCoverage);
+        ret.linesCovered = fileCoverage.l;
+        return ret;
+    }
+    /**
+     * merges two instances of file coverage objects *for the same file*
+     * such that the execution counts are correct.
+     *
+     * @method mergeFileCoverage
+     * @static
+     * @param {Object} first the first file coverage object for a given file
+     * @param {Object} second the second file coverage object for the same file
+     * @return {Object} an object that is a result of merging the two. Note that
+     *      the input objects are not changed in any way.
+     */
+    function mergeFileCoverage(first, second) {
+        var ret = JSON.parse(JSON.stringify(first)),
+            i;
+
+        delete ret.l; //remove derived info
+
+        Object.keys(second.s).forEach(function (k) {
+            ret.s[k] += second.s[k];
+        });
+        Object.keys(second.f).forEach(function (k) {
+            ret.f[k] += second.f[k];
+        });
+        Object.keys(second.b).forEach(function (k) {
+            var retArray = ret.b[k],
+                secondArray = second.b[k];
+            for (i = 0; i < retArray.length; i += 1) {
+                retArray[i] += secondArray[i];
+            }
+        });
+
+        return ret;
+    }
+    /**
+     * merges multiple summary metrics objects by summing up the `totals` and
+     * `covered` fields and recomputing the percentages. This function is generic
+     * and can accept any number of arguments.
+     *
+     * @method mergeSummaryObjects
+     * @static
+     * @param {Object} summary... multiple summary metrics objects
+     * @return {Object} the merged summary metrics
+     */
+    function mergeSummaryObjects() {
+        var ret = blankSummary(),
+            args = Array.prototype.slice.call(arguments),
+            keys = ['lines', 'statements', 'branches', 'functions'],
+            increment = function (obj) {
+                if (obj) {
+                    keys.forEach(function (key) {
+                        ret[key].total += obj[key].total;
+                        ret[key].covered += obj[key].covered;
+                        ret[key].skipped += obj[key].skipped;
+                    });
+
+                    // keep track of all lines we have coverage for.
+                    Object.keys(obj.linesCovered).forEach(function (key) {
+                        if (!ret.linesCovered[key]) {
+                            ret.linesCovered[key] = obj.linesCovered[key];
+                        } else {
+                            ret.linesCovered[key] += obj.linesCovered[key];
+                        }
+                    });
+                }
+            };
+        args.forEach(function (arg) {
+            increment(arg);
+        });
+        keys.forEach(function (key) {
+            ret[key].pct = percent(ret[key].covered, ret[key].total);
+        });
+
+        return ret;
+    }
+    /**
+     * returns the coverage summary for a single coverage object. This is
+     * wrapper over `summarizeFileCoverage` and `mergeSummaryObjects` for
+     * the common case of a single coverage object
+     * @method summarizeCoverage
+     * @static
+     * @param {Object} coverage  the coverage object
+     * @return {Object} summary coverage metrics across all files in the coverage object
+     */
+    function summarizeCoverage(coverage) {
+        var fileSummary = [];
+        Object.keys(coverage).forEach(function (key) {
+            fileSummary.push(summarizeFileCoverage(coverage[key]));
+        });
+        return mergeSummaryObjects.apply(null, fileSummary);
+    }
+
+    /**
+     * makes the coverage object generated by this library yuitest_coverage compatible.
+     * Note that this transformation is lossy since the returned object will not have
+     * statement and branch coverage.
+     *
+     * @method toYUICoverage
+     * @static
+     * @param {Object} coverage The `istanbul` coverage object
+     * @return {Object} a coverage object in `yuitest_coverage` format.
+     */
+    function toYUICoverage(coverage) {
+        var ret = {};
+
+        addDerivedInfo(coverage);
+
+        Object.keys(coverage).forEach(function (k) {
+            var fileCoverage = coverage[k],
+                lines = fileCoverage.l,
+                functions = fileCoverage.f,
+                fnMap = fileCoverage.fnMap,
+                o;
+
+            o = ret[k] = {
+                lines: {},
+                calledLines: 0,
+                coveredLines: 0,
+                functions: {},
+                calledFunctions: 0,
+                coveredFunctions: 0
+            };
+            Object.keys(lines).forEach(function (k) {
+                o.lines[k] = lines[k];
+                o.coveredLines += 1;
+                if (lines[k] > 0) {
+                    o.calledLines += 1;
+                }
+            });
+            Object.keys(functions).forEach(function (k) {
+                var name = fnMap[k].name + ':' + fnMap[k].line;
+                o.functions[name] = functions[k];
+                o.coveredFunctions += 1;
+                if (functions[k] > 0) {
+                    o.calledFunctions += 1;
+                }
+            });
+        });
+        return ret;
+    }
+
+    /**
+     * Creates new file coverage object with incremented hits count
+     * on skipped statements, branches and functions
+     *
+     * @method incrementIgnoredTotals
+     * @static
+     * @param {Object} cov File coverage object
+     * @return {Object} New file coverage object
+     */
+    function incrementIgnoredTotals(cov) {
+        //TODO: This may be slow in the browser and may break in older browsers
+        //      Look into using a library that works in Node and the browser
+        var fileCoverage = JSON.parse(JSON.stringify(cov));
+
+        [
+            {mapKey: 'statementMap', hitsKey: 's'},
+            {mapKey: 'branchMap', hitsKey: 'b'},
+            {mapKey: 'fnMap', hitsKey: 'f'}
+        ].forEach(function (keys) {
+            Object.keys(fileCoverage[keys.mapKey])
+                .forEach(function (key) {
+                    var map = fileCoverage[keys.mapKey][key];
+                    var hits = fileCoverage[keys.hitsKey];
+
+                    if (keys.mapKey === 'branchMap') {
+                        var locations = map.locations;
+
+                        locations.forEach(function (location, index) {
+                            if (hits[key][index] === 0 && location.skip) {
+                                hits[key][index] = 1;
+                            }
+                        });
+
+                        return;
+                    }
+
+                    if (hits[key] === 0 && map.skip) {
+                        hits[key] = 1;
+                    }
+                });
+            });
+
+        return fileCoverage;
+    }
+
+    var exportables = {
+        addDerivedInfo: addDerivedInfo,
+        addDerivedInfoForFile: addDerivedInfoForFile,
+        removeDerivedInfo: removeDerivedInfo,
+        blankSummary: blankSummary,
+        summarizeFileCoverage: summarizeFileCoverage,
+        summarizeCoverage: summarizeCoverage,
+        mergeFileCoverage: mergeFileCoverage,
+        mergeSummaryObjects: mergeSummaryObjects,
+        toYUICoverage: toYUICoverage,
+        incrementIgnoredTotals: incrementIgnoredTotals
+    };
+
+    /* istanbul ignore else: windows */
+    if (isNode) {
+        module.exports = exportables;
+    } else {
+        window.coverageUtils = exportables;
+    }
+}(typeof module !== 'undefined' && typeof module.exports !== 'undefined' && typeof exports !== 'undefined'));

static/js/ketcher2/node_modules/istanbul/lib/register-plugins.js

@@ -0,0 +1,15 @@
+
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+var Store = require('./store'),
+    Report = require('./report'),
+    Command = require('./command');
+
+Store.loadAll();
+Report.loadAll();
+Command.loadAll();
+
+
+

static/js/ketcher2/node_modules/istanbul/lib/report/clover.js

@@ -0,0 +1,227 @@
+var path = require('path'),
+    util = require('util'),
+    Report = require('./index'),
+    FileWriter = require('../util/file-writer'),
+    TreeSummarizer = require('../util/tree-summarizer'),
+    utils = require('../object-utils');
+
+/**
+ * a `Report` implementation that produces a clover-style XML file.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('clover');
+ *
+ * @class CloverReport
+ * @module report
+ * @extends Report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to the clover.xml will be written
+ * @param {String} [opts.file] the file name, defaulted to config attribute or 'clover.xml'
+ */
+function CloverReport(opts) {
+    Report.call(this);
+    opts = opts || {};
+    this.projectRoot = process.cwd();
+    this.dir = opts.dir || this.projectRoot;
+    this.file = opts.file || this.getDefaultConfig().file;
+    this.opts = opts;
+}
+
+CloverReport.TYPE = 'clover';
+util.inherits(CloverReport, Report);
+
+function asJavaPackage(node) {
+    return node.displayShortName().
+        replace(/\//g, '.').
+        replace(/\\/g, '.').
+        replace(/\.$/, '');
+}
+
+function asClassName(node) {
+    /*jslint regexp: true */
+    return node.fullPath().replace(/.*[\\\/]/, '');
+}
+
+function quote(thing) {
+    return '"' + thing + '"';
+}
+
+function attr(n, v) {
+    return ' ' + n + '=' + quote(v) + ' ';
+}
+
+function branchCoverageByLine(fileCoverage) {
+    var branchMap = fileCoverage.branchMap,
+        branches = fileCoverage.b,
+        ret = {};
+    Object.keys(branchMap).forEach(function (k) {
+        var line = branchMap[k].line,
+            branchData = branches[k];
+        ret[line] = ret[line] || [];
+        ret[line].push.apply(ret[line], branchData);
+    });
+    Object.keys(ret).forEach(function (k) {
+        var dataArray = ret[k],
+            covered = dataArray.filter(function (item) { return item > 0; }),
+            coverage = covered.length / dataArray.length * 100;
+        ret[k] = { covered: covered.length, total: dataArray.length, coverage: coverage };
+    });
+    return ret;
+}
+
+function addClassStats(node, fileCoverage, writer) {
+    fileCoverage = utils.incrementIgnoredTotals(fileCoverage);
+
+    var metrics = node.metrics,
+        branchByLine = branchCoverageByLine(fileCoverage),
+        fnMap,
+        lines;
+
+    writer.println('\t\t\t<file' +
+        attr('name', asClassName(node)) +
+        attr('path', node.fullPath()) +
+        '>');
+
+    writer.println('\t\t\t\t<metrics' +
+        attr('statements', metrics.lines.total) +
+        attr('coveredstatements', metrics.lines.covered) +
+        attr('conditionals', metrics.branches.total) +
+        attr('coveredconditionals', metrics.branches.covered) +
+        attr('methods', metrics.functions.total) +
+        attr('coveredmethods', metrics.functions.covered) +
+        '/>');
+
+    fnMap = fileCoverage.fnMap;
+    lines = fileCoverage.l;
+    Object.keys(lines).forEach(function (k) {
+        var str = '\t\t\t\t<line' +
+            attr('num', k) +
+            attr('count', lines[k]),
+            branchDetail = branchByLine[k];
+
+        if (!branchDetail) {
+            str += ' type="stmt" ';
+        } else {
+                str += ' type="cond" ' +
+                attr('truecount', branchDetail.covered) +
+                attr('falsecount', (branchDetail.total - branchDetail.covered));
+        }
+        writer.println(str + '/>');
+    });
+
+    writer.println('\t\t\t</file>');
+}
+
+function walk(node, collector, writer, level, projectRoot) {
+    var metrics,
+        totalFiles = 0,
+        totalPackages = 0,
+        totalLines = 0,
+        tempLines = 0;
+    if (level === 0) {
+        metrics = node.metrics;
+        writer.println('<?xml version="1.0" encoding="UTF-8"?>');
+        writer.println('<coverage' +
+            attr('generated', Date.now()) +
+            'clover="3.2.0">');
+
+        writer.println('\t<project' +
+            attr('timestamp', Date.now()) +
+            attr('name', 'All Files') +
+            '>');
+
+        node.children.filter(function (child) { return child.kind === 'dir'; }).
+            forEach(function (child) {
+                totalPackages += 1;
+                child.children.filter(function (child) { return child.kind !== 'dir'; }).
+                    forEach(function (child) {
+                        Object.keys(collector.fileCoverageFor(child.fullPath()).l).forEach(function (k){
+                            tempLines = k;
+                        });
+                        totalLines += Number(tempLines);
+                        totalFiles += 1;
+                });
+        });
+
+        writer.println('\t\t<metrics' +
+            attr('statements', metrics.lines.total) +
+            attr('coveredstatements', metrics.lines.covered) +
+            attr('conditionals', metrics.branches.total) +
+            attr('coveredconditionals', metrics.branches.covered) +
+            attr('methods', metrics.functions.total) +
+            attr('coveredmethods', metrics.functions.covered) +
+            attr('elements', metrics.lines.total + metrics.branches.total + metrics.functions.total) +
+            attr('coveredelements', metrics.lines.covered + metrics.branches.covered + metrics.functions.covered) +
+            attr('complexity', 0) +
+            attr('packages', totalPackages) +
+            attr('files', totalFiles) +
+            attr('classes', totalFiles) +
+            attr('loc', totalLines) +
+            attr('ncloc', totalLines) +
+            '/>');
+    }
+    if (node.packageMetrics) {
+        metrics = node.packageMetrics;
+        writer.println('\t\t<package' +
+            attr('name', asJavaPackage(node)) +
+            '>');
+
+        writer.println('\t\t\t<metrics' +
+            attr('statements', metrics.lines.total) +
+            attr('coveredstatements', metrics.lines.covered) +
+            attr('conditionals', metrics.branches.total) +
+            attr('coveredconditionals', metrics.branches.covered) +
+            attr('methods', metrics.functions.total) +
+            attr('coveredmethods', metrics.functions.covered) +
+            '/>');
+
+        node.children.filter(function (child) { return child.kind !== 'dir'; }).
+            forEach(function (child) {
+                addClassStats(child, collector.fileCoverageFor(child.fullPath()), writer);
+            });
+        writer.println('\t\t</package>');
+    }
+    node.children.filter(function (child) { return child.kind === 'dir'; }).
+        forEach(function (child) {
+            walk(child, collector, writer, level + 1, projectRoot);
+        });
+
+    if (level === 0) {
+        writer.println('\t</project>');
+        writer.println('</coverage>');
+    }
+}
+
+Report.mix(CloverReport, {
+    synopsis: function () {
+        return 'XML coverage report that can be consumed by the clover tool';
+    },
+    getDefaultConfig: function () {
+        return { file: 'clover.xml' };
+    },
+    writeReport: function (collector, sync) {
+        var summarizer = new TreeSummarizer(),
+            outputFile = path.join(this.dir, this.file),
+            writer = this.opts.writer || new FileWriter(sync),
+            projectRoot = this.projectRoot,
+            that = this,
+            tree,
+            root;
+
+        collector.files().forEach(function (key) {
+            summarizer.addFileCoverageSummary(key, utils.summarizeFileCoverage(collector.fileCoverageFor(key)));
+        });
+        tree = summarizer.getTreeSummary();
+        root = tree.root;
+        writer.on('done', function () { that.emit('done'); });
+        writer.writeFile(outputFile, function (contentWriter) {
+            walk(root, collector, contentWriter, 0, projectRoot);
+            writer.done();
+        });
+    }
+});
+
+module.exports = CloverReport;

static/js/ketcher2/node_modules/istanbul/lib/report/cobertura.js

@@ -0,0 +1,221 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    util = require('util'),
+    Report = require('./index'),
+    FileWriter = require('../util/file-writer'),
+    TreeSummarizer = require('../util/tree-summarizer'),
+    utils = require('../object-utils');
+
+/**
+ * a `Report` implementation that produces a cobertura-style XML file that conforms to the
+ * http://cobertura.sourceforge.net/xml/coverage-04.dtd DTD.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('cobertura');
+ *
+ * @class CoberturaReport
+ * @module report
+ * @extends Report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to the cobertura-coverage.xml will be written
+ */
+function CoberturaReport(opts) {
+    Report.call(this);
+    opts = opts || {};
+    this.projectRoot = process.cwd();
+    this.dir = opts.dir || this.projectRoot;
+    this.file = opts.file || this.getDefaultConfig().file;
+    this.opts = opts;
+}
+
+CoberturaReport.TYPE = 'cobertura';
+util.inherits(CoberturaReport, Report);
+
+function asJavaPackage(node) {
+    return node.displayShortName().
+        replace(/\//g, '.').
+        replace(/\\/g, '.').
+        replace(/\.$/, '');
+}
+
+function asClassName(node) {
+    /*jslint regexp: true */
+    return node.fullPath().replace(/.*[\\\/]/, '');
+}
+
+function quote(thing) {
+    return '"' + thing + '"';
+}
+
+function attr(n, v) {
+    return ' ' + n + '=' + quote(v) + ' ';
+}
+
+function branchCoverageByLine(fileCoverage) {
+    var branchMap = fileCoverage.branchMap,
+        branches = fileCoverage.b,
+        ret = {};
+    Object.keys(branchMap).forEach(function (k) {
+        var line = branchMap[k].line,
+            branchData = branches[k];
+        ret[line] = ret[line] || [];
+        ret[line].push.apply(ret[line], branchData);
+    });
+    Object.keys(ret).forEach(function (k) {
+        var dataArray = ret[k],
+            covered = dataArray.filter(function (item) { return item > 0; }),
+            coverage = covered.length / dataArray.length * 100;
+        ret[k] = { covered: covered.length, total: dataArray.length, coverage: coverage };
+    });
+    return ret;
+}
+
+function addClassStats(node, fileCoverage, writer, projectRoot) {
+    fileCoverage = utils.incrementIgnoredTotals(fileCoverage);
+
+    var metrics = node.metrics,
+        branchByLine = branchCoverageByLine(fileCoverage),
+        fnMap,
+        lines;
+
+    writer.println('\t\t<class' +
+        attr('name', asClassName(node)) +
+        attr('filename', path.relative(projectRoot, node.fullPath())) +
+        attr('line-rate', metrics.lines.pct / 100.0) +
+        attr('branch-rate', metrics.branches.pct / 100.0) +
+        '>');
+
+    writer.println('\t\t<methods>');
+    fnMap = fileCoverage.fnMap;
+    Object.keys(fnMap).forEach(function (k) {
+        var name = fnMap[k].name,
+            hits = fileCoverage.f[k];
+
+        writer.println(
+            '\t\t\t<method' +
+            attr('name', name) +
+            attr('hits', hits) +
+            attr('signature', '()V') + //fake out a no-args void return
+            '>'
+        );
+
+        //Add the function definition line and hits so that jenkins cobertura plugin records method hits
+        writer.println(
+            '\t\t\t\t<lines>' +
+             '<line' +
+            attr('number', fnMap[k].line) +
+            attr('hits', fileCoverage.f[k]) +
+            '/>' +
+            '</lines>'
+        );
+
+        writer.println('\t\t\t</method>');
+
+    });
+    writer.println('\t\t</methods>');
+
+    writer.println('\t\t<lines>');
+    lines = fileCoverage.l;
+    Object.keys(lines).forEach(function (k) {
+        var str = '\t\t\t<line' +
+            attr('number', k) +
+            attr('hits', lines[k]),
+            branchDetail = branchByLine[k];
+
+        if (!branchDetail) {
+            str += attr('branch', false);
+        } else {
+            str += attr('branch', true) +
+                attr('condition-coverage', branchDetail.coverage +
+                    '% (' + branchDetail.covered + '/' + branchDetail.total + ')');
+        }
+        writer.println(str + '/>');
+    });
+    writer.println('\t\t</lines>');
+
+    writer.println('\t\t</class>');
+}
+
+function walk(node, collector, writer, level, projectRoot) {
+    var metrics;
+    if (level === 0) {
+        metrics = node.metrics;
+        writer.println('<?xml version="1.0" ?>');
+        writer.println('<!DOCTYPE coverage SYSTEM "http://cobertura.sourceforge.net/xml/coverage-04.dtd">');
+        writer.println('<coverage' +
+            attr('lines-valid', metrics.lines.total) +
+            attr('lines-covered', metrics.lines.covered) +
+            attr('line-rate', metrics.lines.pct / 100.0) +
+            attr('branches-valid', metrics.branches.total) +
+            attr('branches-covered', metrics.branches.covered) +
+            attr('branch-rate', metrics.branches.pct / 100.0) +
+            attr('timestamp', Date.now()) +
+            'complexity="0" version="0.1">');
+        writer.println('<sources>');
+        writer.println('\t<source>' + projectRoot + '</source>');
+        writer.println('</sources>');
+        writer.println('<packages>');
+    }
+    if (node.packageMetrics) {
+        metrics = node.packageMetrics;
+        writer.println('\t<package' +
+            attr('name', asJavaPackage(node)) +
+            attr('line-rate', metrics.lines.pct / 100.0) +
+            attr('branch-rate', metrics.branches.pct / 100.0) +
+            '>');
+        writer.println('\t<classes>');
+        node.children.filter(function (child) { return child.kind !== 'dir'; }).
+            forEach(function (child) {
+                addClassStats(child, collector.fileCoverageFor(child.fullPath()), writer, projectRoot);
+            });
+        writer.println('\t</classes>');
+        writer.println('\t</package>');
+    }
+    node.children.filter(function (child) { return child.kind === 'dir'; }).
+        forEach(function (child) {
+            walk(child, collector, writer, level + 1, projectRoot);
+        });
+
+    if (level === 0) {
+        writer.println('</packages>');
+        writer.println('</coverage>');
+    }
+}
+
+Report.mix(CoberturaReport, {
+    synopsis: function () {
+        return 'XML coverage report that can be consumed by the cobertura tool';
+    },
+    getDefaultConfig: function () {
+        return { file: 'cobertura-coverage.xml' };
+    },
+    writeReport: function (collector, sync) {
+        var summarizer = new TreeSummarizer(),
+            outputFile = path.join(this.dir, this.file),
+            writer = this.opts.writer || new FileWriter(sync),
+            projectRoot = this.projectRoot,
+            that = this,
+            tree,
+            root;
+
+        collector.files().forEach(function (key) {
+            summarizer.addFileCoverageSummary(key, utils.summarizeFileCoverage(collector.fileCoverageFor(key)));
+        });
+        tree = summarizer.getTreeSummary();
+        root = tree.root;
+        writer.on('done', function () { that.emit('done'); });
+        writer.writeFile(outputFile, function (contentWriter) {
+            walk(root, collector, contentWriter, 0, projectRoot);
+            writer.done();
+        });
+    }
+});
+
+module.exports = CoberturaReport;

static/js/ketcher2/node_modules/istanbul/lib/report/common/defaults.js

@@ -0,0 +1,51 @@
+/*
+ Copyright (c) 2013, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var Report  = require('../index');
+var supportsColor = require('supports-color');
+
+module.exports = {
+    watermarks: function () {
+        return {
+            statements: [ 50, 80 ],
+            lines: [ 50, 80 ],
+            functions: [ 50, 80],
+            branches: [ 50, 80 ]
+        };
+    },
+
+    classFor: function (type, metrics, watermarks) {
+        var mark = watermarks[type],
+            value = metrics[type].pct;
+        return value >= mark[1] ? 'high' : value >= mark[0] ? 'medium' : 'low';
+    },
+
+    colorize: function (str, clazz) {
+        /* istanbul ignore if: untestable in batch mode */
+        var colors = {
+            low: '31;1',
+            medium: '33;1',
+            high: '32;1'
+        };
+        
+        if (supportsColor && colors[clazz]) {
+            return '\u001b[' + colors[clazz] + 'm' + str + '\u001b[0m';
+        }
+        return str;
+    },
+
+    defaultReportConfig: function () {
+        var cfg = {};
+        Report.getReportList().forEach(function (type) {
+            var rpt = Report.create(type),
+                c = rpt.getDefaultConfig();
+            if (c) {
+                cfg[type] = c;
+            }
+        });
+        return cfg;
+    }
+};
+

static/js/ketcher2/node_modules/istanbul/lib/report/html.js

@@ -0,0 +1,572 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+/*jshint maxlen: 300 */
+var handlebars = require('handlebars').create(),
+    defaults = require('./common/defaults'),
+    path = require('path'),
+    fs = require('fs'),
+    util = require('util'),
+    FileWriter = require('../util/file-writer'),
+    Report = require('./index'),
+    Store = require('../store'),
+    InsertionText = require('../util/insertion-text'),
+    TreeSummarizer = require('../util/tree-summarizer'),
+    utils = require('../object-utils'),
+    templateFor = function (name) { return handlebars.compile(fs.readFileSync(path.resolve(__dirname, 'templates', name + '.txt'), 'utf8')); },
+    headerTemplate = templateFor('head'),
+    footerTemplate = templateFor('foot'),
+    detailTemplate = handlebars.compile([
+        '<tr>',
+        '<td class="line-count quiet">{{#show_lines}}{{maxLines}}{{/show_lines}}</td>',
+        '<td class="line-coverage quiet">{{#show_line_execution_counts fileCoverage}}{{maxLines}}{{/show_line_execution_counts}}</td>',
+        '<td class="text"><pre class="prettyprint lang-js">{{#show_code structured}}{{/show_code}}</pre></td>',
+        '</tr>\n'
+    ].join('')),
+    summaryTableHeader = [
+        '<div class="pad1">',
+        '<table class="coverage-summary">',
+        '<thead>',
+        '<tr>',
+        '   <th data-col="file" data-fmt="html" data-html="true" class="file">File</th>',
+        '   <th data-col="pic" data-type="number" data-fmt="html" data-html="true" class="pic"></th>',
+        '   <th data-col="statements" data-type="number" data-fmt="pct" class="pct">Statements</th>',
+        '   <th data-col="statements_raw" data-type="number" data-fmt="html" class="abs"></th>',
+        '   <th data-col="branches" data-type="number" data-fmt="pct" class="pct">Branches</th>',
+        '   <th data-col="branches_raw" data-type="number" data-fmt="html" class="abs"></th>',
+        '   <th data-col="functions" data-type="number" data-fmt="pct" class="pct">Functions</th>',
+        '   <th data-col="functions_raw" data-type="number" data-fmt="html" class="abs"></th>',
+        '   <th data-col="lines" data-type="number" data-fmt="pct" class="pct">Lines</th>',
+        '   <th data-col="lines_raw" data-type="number" data-fmt="html" class="abs"></th>',
+        '</tr>',
+        '</thead>',
+        '<tbody>'
+    ].join('\n'),
+    summaryLineTemplate = handlebars.compile([
+        '<tr>',
+        '<td class="file {{reportClasses.statements}}" data-value="{{file}}"><a href="{{output}}">{{file}}</a></td>',
+        '<td data-value="{{metrics.statements.pct}}" class="pic {{reportClasses.statements}}"><div class="chart">{{#show_picture}}{{metrics.statements.pct}}{{/show_picture}}</div></td>',
+        '<td data-value="{{metrics.statements.pct}}" class="pct {{reportClasses.statements}}">{{metrics.statements.pct}}%</td>',
+        '<td data-value="{{metrics.statements.total}}" class="abs {{reportClasses.statements}}">{{metrics.statements.covered}}/{{metrics.statements.total}}</td>',
+        '<td data-value="{{metrics.branches.pct}}" class="pct {{reportClasses.branches}}">{{metrics.branches.pct}}%</td>',
+        '<td data-value="{{metrics.branches.total}}" class="abs {{reportClasses.branches}}">{{metrics.branches.covered}}/{{metrics.branches.total}}</td>',
+        '<td data-value="{{metrics.functions.pct}}" class="pct {{reportClasses.functions}}">{{metrics.functions.pct}}%</td>',
+        '<td data-value="{{metrics.functions.total}}" class="abs {{reportClasses.functions}}">{{metrics.functions.covered}}/{{metrics.functions.total}}</td>',
+        '<td data-value="{{metrics.lines.pct}}" class="pct {{reportClasses.lines}}">{{metrics.lines.pct}}%</td>',
+        '<td data-value="{{metrics.lines.total}}" class="abs {{reportClasses.lines}}">{{metrics.lines.covered}}/{{metrics.lines.total}}</td>',
+        '</tr>\n'
+    ].join('\n\t')),
+    summaryTableFooter = [
+        '</tbody>',
+        '</table>',
+        '</div>'
+    ].join('\n'),
+    lt = '\u0001',
+    gt = '\u0002',
+    RE_LT = /</g,
+    RE_GT = />/g,
+    RE_AMP = /&/g,
+    RE_lt = /\u0001/g,
+    RE_gt = /\u0002/g;
+
+handlebars.registerHelper('show_picture', function (opts) {
+    var num = Number(opts.fn(this)),
+        rest,
+        cls = '';
+    if (isFinite(num)) {
+        if (num === 100) {
+            cls = ' cover-full';
+        }
+        num = Math.floor(num);
+        rest = 100 - num;
+        return '<div class="cover-fill' + cls + '" style="width: ' + num + '%;"></div>' +
+            '<div class="cover-empty" style="width:' + rest + '%;"></div>';
+    } else {
+        return '';
+    }
+});
+
+handlebars.registerHelper('if_has_ignores', function (metrics, opts) {
+    return (metrics.statements.skipped +
+        metrics.functions.skipped +
+        metrics.branches.skipped) === 0 ? '' : opts.fn(this);
+});
+
+handlebars.registerHelper('show_ignores', function (metrics) {
+    var statements = metrics.statements.skipped,
+        functions = metrics.functions.skipped,
+        branches = metrics.branches.skipped,
+        result;
+
+    if (statements === 0 && functions === 0 && branches === 0) {
+        return '<span class="ignore-none">none</span>';
+    }
+
+    result = [];
+    if (statements >0) { result.push(statements === 1 ? '1 statement': statements + ' statements'); }
+    if (functions >0) { result.push(functions === 1 ? '1 function' : functions + ' functions'); }
+    if (branches >0) { result.push(branches === 1 ? '1 branch' : branches + ' branches'); }
+
+    return result.join(', ');
+});
+
+handlebars.registerHelper('show_lines', function (opts) {
+    var maxLines = Number(opts.fn(this)),
+        i,
+        array = [];
+
+    for (i = 0; i < maxLines; i += 1) {
+        array[i] = i + 1;
+    }
+    return array.join('\n');
+});
+
+handlebars.registerHelper('show_line_execution_counts', function (context, opts) {
+    var lines = context.l,
+        maxLines = Number(opts.fn(this)),
+        i,
+        lineNumber,
+        array = [],
+        covered,
+        value = '';
+
+    for (i = 0; i < maxLines; i += 1) {
+        lineNumber = i + 1;
+        value = '&nbsp;';
+        covered = 'neutral';
+        if (lines.hasOwnProperty(lineNumber)) {
+            if (lines[lineNumber] > 0) {
+                covered = 'yes';
+                value = lines[lineNumber] + '×';
+            } else {
+                covered = 'no';
+            }
+        }
+        array.push('<span class="cline-any cline-' + covered + '">' + value + '</span>');
+    }
+    return array.join('\n');
+});
+
+function customEscape(text) {
+    text = text.toString();
+    return text.replace(RE_AMP, '&amp;')
+        .replace(RE_LT, '&lt;')
+        .replace(RE_GT, '&gt;')
+        .replace(RE_lt, '<')
+        .replace(RE_gt, '>');
+}
+
+handlebars.registerHelper('show_code', function (context /*, opts */) {
+    var array = [];
+
+    context.forEach(function (item) {
+        array.push(customEscape(item.text) || '&nbsp;');
+    });
+    return array.join('\n');
+});
+
+function title(str) {
+    return ' title="' + str + '" ';
+}
+
+function annotateLines(fileCoverage, structuredText) {
+    var lineStats = fileCoverage.l;
+    if (!lineStats) { return; }
+    Object.keys(lineStats).forEach(function (lineNumber) {
+        var count = lineStats[lineNumber];
+        if (structuredText[lineNumber]) {
+          structuredText[lineNumber].covered = count > 0 ? 'yes' : 'no';
+        }
+    });
+    structuredText.forEach(function (item) {
+        if (item.covered === null) {
+            item.covered = 'neutral';
+        }
+    });
+}
+
+function annotateStatements(fileCoverage, structuredText) {
+    var statementStats = fileCoverage.s,
+        statementMeta = fileCoverage.statementMap;
+    Object.keys(statementStats).forEach(function (stName) {
+        var count = statementStats[stName],
+            meta = statementMeta[stName],
+            type = count > 0 ? 'yes' : 'no',
+            startCol = meta.start.column,
+            endCol = meta.end.column + 1,
+            startLine = meta.start.line,
+            endLine = meta.end.line,
+            openSpan = lt + 'span class="' + (meta.skip ? 'cstat-skip' : 'cstat-no') + '"' + title('statement not covered') + gt,
+            closeSpan = lt + '/span' + gt,
+            text;
+
+        if (type === 'no') {
+            if (endLine !== startLine) {
+                endLine = startLine;
+                endCol = structuredText[startLine].text.originalLength();
+            }
+            text = structuredText[startLine].text;
+            text.wrap(startCol,
+                openSpan,
+                startLine === endLine ? endCol : text.originalLength(),
+                closeSpan);
+        }
+    });
+}
+
+function annotateFunctions(fileCoverage, structuredText) {
+
+    var fnStats = fileCoverage.f,
+        fnMeta = fileCoverage.fnMap;
+    if (!fnStats) { return; }
+    Object.keys(fnStats).forEach(function (fName) {
+        var count = fnStats[fName],
+            meta = fnMeta[fName],
+            type = count > 0 ? 'yes' : 'no',
+            startCol = meta.loc.start.column,
+            endCol = meta.loc.end.column + 1,
+            startLine = meta.loc.start.line,
+            endLine = meta.loc.end.line,
+            openSpan = lt + 'span class="' + (meta.skip ? 'fstat-skip' : 'fstat-no') + '"' + title('function not covered') + gt,
+            closeSpan = lt + '/span' + gt,
+            text;
+
+        if (type === 'no') {
+            if (endLine !== startLine) {
+                endLine = startLine;
+                endCol = structuredText[startLine].text.originalLength();
+            }
+            text = structuredText[startLine].text;
+            text.wrap(startCol,
+                openSpan,
+                startLine === endLine ? endCol : text.originalLength(),
+                closeSpan);
+        }
+    });
+}
+
+function annotateBranches(fileCoverage, structuredText) {
+    var branchStats = fileCoverage.b,
+        branchMeta = fileCoverage.branchMap;
+    if (!branchStats) { return; }
+
+    Object.keys(branchStats).forEach(function (branchName) {
+        var branchArray = branchStats[branchName],
+            sumCount = branchArray.reduce(function (p, n) { return p + n; }, 0),
+            metaArray = branchMeta[branchName].locations,
+            i,
+            count,
+            meta,
+            type,
+            startCol,
+            endCol,
+            startLine,
+            endLine,
+            openSpan,
+            closeSpan,
+            text;
+
+        if (sumCount > 0) { //only highlight if partial branches are missing
+            for (i = 0; i < branchArray.length; i += 1) {
+                count = branchArray[i];
+                meta = metaArray[i];
+                type = count > 0 ? 'yes' : 'no';
+                startCol = meta.start.column;
+                endCol = meta.end.column + 1;
+                startLine = meta.start.line;
+                endLine = meta.end.line;
+                openSpan = lt + 'span class="branch-' + i + ' ' + (meta.skip ? 'cbranch-skip' : 'cbranch-no') + '"' + title('branch not covered') + gt;
+                closeSpan = lt + '/span' + gt;
+
+                if (count === 0) { //skip branches taken
+                    if (endLine !== startLine) {
+                        endLine = startLine;
+                        endCol = structuredText[startLine].text.originalLength();
+                    }
+                    text = structuredText[startLine].text;
+                    if (branchMeta[branchName].type === 'if') { // and 'if' is a special case since the else branch might not be visible, being non-existent
+                        text.insertAt(startCol, lt + 'span class="' + (meta.skip ? 'skip-if-branch' : 'missing-if-branch') + '"' +
+                            title((i === 0 ? 'if' : 'else') + ' path not taken') + gt +
+                            (i === 0 ? 'I' : 'E')  + lt + '/span' + gt, true, false);
+                    } else {
+                        text.wrap(startCol,
+                            openSpan,
+                            startLine === endLine ? endCol : text.originalLength(),
+                            closeSpan);
+                    }
+                }
+            }
+        }
+    });
+}
+
+function getReportClass(stats, watermark) {
+    var coveragePct = stats.pct,
+        identity  = 1;
+    if (coveragePct * identity === coveragePct) {
+        return coveragePct >= watermark[1] ? 'high' : coveragePct >= watermark[0] ? 'medium' : 'low';
+    } else {
+        return '';
+    }
+}
+
+function cleanPath(name) {
+    var SEP = path.sep || '/';
+    return (SEP !== '/') ? name.split(SEP).join('/') : name;
+}
+
+function isEmptySourceStore(sourceStore) {
+    if (!sourceStore) {
+        return true;
+    }
+
+    var cache = sourceStore.sourceCache;
+    return cache && !Object.keys(cache).length;
+}
+
+/**
+ * a `Report` implementation that produces HTML coverage reports.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('html');
+ *
+ *
+ * @class HtmlReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to generate reports. Defaults to `./html-report`
+ */
+function HtmlReport(opts) {
+    Report.call(this);
+    this.opts = opts || {};
+    this.opts.dir = this.opts.dir || path.resolve(process.cwd(), 'html-report');
+    this.opts.sourceStore = isEmptySourceStore(this.opts.sourceStore) ?
+        Store.create('fslookup') : this.opts.sourceStore;
+    this.opts.linkMapper = this.opts.linkMapper || this.standardLinkMapper();
+    this.opts.writer = this.opts.writer || null;
+    this.opts.templateData = { datetime: Date() };
+    this.opts.watermarks = this.opts.watermarks || defaults.watermarks();
+}
+
+HtmlReport.TYPE = 'html';
+util.inherits(HtmlReport, Report);
+
+Report.mix(HtmlReport, {
+
+    synopsis: function () {
+        return 'Navigable HTML coverage report for every file and directory';
+    },
+
+    getPathHtml: function (node, linkMapper) {
+        var parent = node.parent,
+            nodePath = [],
+            linkPath = [],
+            i;
+
+        while (parent) {
+            nodePath.push(parent);
+            parent = parent.parent;
+        }
+
+        for (i = 0; i < nodePath.length; i += 1) {
+            linkPath.push('<a href="' + linkMapper.ancestor(node, i + 1) + '">' +
+                (cleanPath(nodePath[i].relativeName) || 'all files') + '</a>');
+        }
+        linkPath.reverse();
+        return linkPath.length > 0 ? linkPath.join(' / ') + ' ' +
+            cleanPath(node.displayShortName()) : '/';
+    },
+
+    fillTemplate: function (node, templateData) {
+        var opts = this.opts,
+            linkMapper = opts.linkMapper;
+
+        templateData.entity = node.name || 'All files';
+        templateData.metrics = node.metrics;
+        templateData.reportClass = getReportClass(node.metrics.statements, opts.watermarks.statements);
+        templateData.pathHtml = this.getPathHtml(node, linkMapper);
+        templateData.base = {
+        	css: linkMapper.asset(node, 'base.css')
+        };
+        templateData.sorter = {
+            js: linkMapper.asset(node, 'sorter.js'),
+            image: linkMapper.asset(node, 'sort-arrow-sprite.png')
+        };
+        templateData.prettify = {
+            js: linkMapper.asset(node, 'prettify.js'),
+            css: linkMapper.asset(node, 'prettify.css')
+        };
+    },
+    writeDetailPage: function (writer, node, fileCoverage) {
+        var opts = this.opts,
+            sourceStore = opts.sourceStore,
+            templateData = opts.templateData,
+            sourceText = fileCoverage.code && Array.isArray(fileCoverage.code) ?
+                fileCoverage.code.join('\n') + '\n' : sourceStore.get(fileCoverage.path),
+            code = sourceText.split(/(?:\r?\n)|\r/),
+            count = 0,
+            structured = code.map(function (str) { count += 1; return { line: count, covered: null, text: new InsertionText(str, true) }; }),
+            context;
+
+        structured.unshift({ line: 0, covered: null, text: new InsertionText("") });
+
+        this.fillTemplate(node, templateData);
+        writer.write(headerTemplate(templateData));
+        writer.write('<pre><table class="coverage">\n');
+
+        annotateLines(fileCoverage, structured);
+        //note: order is important, since statements typically result in spanning the whole line and doing branches late
+        //causes mismatched tags
+        annotateBranches(fileCoverage, structured);
+        annotateFunctions(fileCoverage, structured);
+        annotateStatements(fileCoverage, structured);
+
+        structured.shift();
+        context = {
+            structured: structured,
+            maxLines: structured.length,
+            fileCoverage: fileCoverage
+        };
+        writer.write(detailTemplate(context));
+        writer.write('</table></pre>\n');
+        writer.write(footerTemplate(templateData));
+    },
+
+    writeIndexPage: function (writer, node) {
+        var linkMapper = this.opts.linkMapper,
+            templateData = this.opts.templateData,
+            children = Array.prototype.slice.apply(node.children),
+            watermarks = this.opts.watermarks;
+
+        children.sort(function (a, b) {
+            return a.name < b.name ? -1 : 1;
+        });
+
+        this.fillTemplate(node, templateData);
+        writer.write(headerTemplate(templateData));
+        writer.write(summaryTableHeader);
+        children.forEach(function (child) {
+            var metrics = child.metrics,
+                reportClasses = {
+                    statements: getReportClass(metrics.statements, watermarks.statements),
+                    lines: getReportClass(metrics.lines, watermarks.lines),
+                    functions: getReportClass(metrics.functions, watermarks.functions),
+                    branches: getReportClass(metrics.branches, watermarks.branches)
+                },
+                data = {
+                    metrics: metrics,
+                    reportClasses: reportClasses,
+                    file: cleanPath(child.displayShortName()),
+                    output: linkMapper.fromParent(child)
+                };
+            writer.write(summaryLineTemplate(data) + '\n');
+        });
+        writer.write(summaryTableFooter);
+        writer.write(footerTemplate(templateData));
+    },
+
+    writeFiles: function (writer, node, dir, collector) {
+        var that = this,
+            indexFile = path.resolve(dir, 'index.html'),
+            childFile;
+        if (this.opts.verbose) { console.error('Writing ' + indexFile); }
+        writer.writeFile(indexFile, function (contentWriter) {
+            that.writeIndexPage(contentWriter, node);
+        });
+        node.children.forEach(function (child) {
+            if (child.kind === 'dir') {
+                that.writeFiles(writer, child, path.resolve(dir, child.relativeName), collector);
+            } else {
+                childFile = path.resolve(dir, child.relativeName + '.html');
+                if (that.opts.verbose) { console.error('Writing ' + childFile); }
+                writer.writeFile(childFile, function (contentWriter) {
+                    that.writeDetailPage(contentWriter, child, collector.fileCoverageFor(child.fullPath()));
+                });
+            }
+        });
+    },
+
+    standardLinkMapper: function () {
+        return {
+            fromParent: function (node) {
+                var relativeName = cleanPath(node.relativeName);
+
+                return node.kind === 'dir' ? relativeName + 'index.html' : relativeName + '.html';
+            },
+            ancestorHref: function (node, num) {
+                var href = '',
+                    notDot = function(part) {
+                        return part !== '.';
+                    },
+                    separated,
+                    levels,
+                    i,
+                    j;
+
+                for (i = 0; i < num; i += 1) {
+                    separated = cleanPath(node.relativeName).split('/').filter(notDot);
+                    levels = separated.length - 1;
+                    for (j = 0; j < levels; j += 1) {
+                        href += '../';
+                    }
+                    node = node.parent;
+                }
+                return href;
+            },
+            ancestor: function (node, num) {
+                return this.ancestorHref(node, num) + 'index.html';
+            },
+            asset: function (node, name) {
+                var i = 0,
+                    parent = node.parent;
+                while (parent) { i += 1; parent = parent.parent; }
+                return this.ancestorHref(node, i) + name;
+            }
+        };
+    },
+
+    writeReport: function (collector, sync) {
+        var opts = this.opts,
+            dir = opts.dir,
+            summarizer = new TreeSummarizer(),
+            writer = opts.writer || new FileWriter(sync),
+            that = this,
+            tree,
+            copyAssets = function (subdir) {
+                var srcDir = path.resolve(__dirname, '..', 'assets', subdir);
+                fs.readdirSync(srcDir).forEach(function (f) {
+                    var resolvedSource = path.resolve(srcDir, f),
+                        resolvedDestination = path.resolve(dir, f),
+                        stat = fs.statSync(resolvedSource);
+
+                    if (stat.isFile()) {
+                        if (opts.verbose) {
+                            console.log('Write asset: ' + resolvedDestination);
+                        }
+                        writer.copyFile(resolvedSource, resolvedDestination);
+                    }
+                });
+            };
+
+        collector.files().forEach(function (key) {
+            summarizer.addFileCoverageSummary(key, utils.summarizeFileCoverage(collector.fileCoverageFor(key)));
+        });
+        tree = summarizer.getTreeSummary();
+        [ '.', 'vendor'].forEach(function (subdir) {
+            copyAssets(subdir);
+        });
+        writer.on('done', function () { that.emit('done'); });
+        //console.log(JSON.stringify(tree.root, undefined, 4));
+        this.writeFiles(writer, tree.root, dir, collector);
+        writer.done();
+    }
+});
+
+module.exports = HtmlReport;
+

static/js/ketcher2/node_modules/istanbul/lib/report/index.js

@@ -0,0 +1,104 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var util = require('util'),
+    EventEmitter = require('events').EventEmitter,
+    Factory = require('../util/factory'),
+    factory = new Factory('report', __dirname, false);
+/**
+ * An abstraction for producing coverage reports.
+ * This class is both the base class as well as a factory for `Report` implementations.
+ * All reports are event emitters and are expected to emit a `done` event when
+ * the report writing is complete.
+ *
+ * See also the `Reporter` class for easily producing multiple coverage reports
+ * with a single call.
+ *
+ * Usage
+ * -----
+ *
+ *      var Report = require('istanbul').Report,
+ *          report = Report.create('html'),
+ *          collector = new require('istanbul').Collector;
+ *
+ *      collector.add(coverageObject);
+ *      report.on('done', function () { console.log('done'); });
+ *      report.writeReport(collector);
+ *
+ * @class Report
+ * @module report
+ * @main report
+ * @constructor
+ * @protected
+ * @param {Object} options Optional. The options supported by a specific store implementation.
+ */
+function Report(/* options */) {
+    EventEmitter.call(this);
+}
+
+util.inherits(Report, EventEmitter);
+
+//add register, create, mix, loadAll, getReportList as class methods
+factory.bindClassMethods(Report);
+
+/**
+ * registers a new report implementation.
+ * @method register
+ * @static
+ * @param {Function} constructor the constructor function for the report. This function must have a
+ *  `TYPE` property of type String, that will be used in `Report.create()`
+ */
+/**
+ * returns a report implementation of the specified type.
+ * @method create
+ * @static
+ * @param {String} type the type of report to create
+ * @param {Object} opts Optional. Options specific to the report implementation
+ * @return {Report} a new store of the specified type
+ */
+/**
+ * returns the list of available reports as an array of strings
+ * @method getReportList
+ * @static
+ * @return an array of supported report formats
+ */
+
+var proto = {
+    /**
+     * returns a one-line summary of the report
+     * @method synopsis
+     * @return {String} a description of what the report is about
+     */
+    synopsis: function () {
+        throw new Error('synopsis must be overridden');
+    },
+    /**
+     * returns a config object that has override-able keys settable via config
+     * @method getDefaultConfig
+     * @return {Object|null} an object representing keys that can be overridden via
+     *  the istanbul configuration where the values are the defaults used when
+     *  not specified. A null return implies no config attributes
+     */
+    getDefaultConfig: function () {
+        return null;
+    },
+    /**
+     * writes the report for a set of coverage objects added to a collector.
+     * @method writeReport
+     * @param {Collector} collector the collector for getting the set of files and coverage
+     * @param {Boolean} sync true if reports must be written synchronously, false if they can be written using asynchronous means (e.g. stream.write)
+     */
+    writeReport: function (/* collector, sync */) {
+        throw new Error('writeReport: must be overridden');
+    }
+};
+
+Object.keys(proto).forEach(function (k) {
+    Report.prototype[k] = proto[k];
+});
+
+module.exports = Report;
+
+

static/js/ketcher2/node_modules/istanbul/lib/report/json-summary.js

@@ -0,0 +1,75 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    objectUtils = require('../object-utils'),
+    Writer = require('../util/file-writer'),
+    util = require('util'),
+    Report = require('./index');
+/**
+ * a `Report` implementation that produces a coverage JSON object with summary info only.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('json-summary');
+ *
+ *
+ * @class JsonSummaryReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to write the `coverage-summary.json` file. Defaults to `process.cwd()`
+ */
+function JsonSummaryReport(opts) {
+    this.opts = opts || {};
+    this.opts.dir = this.opts.dir || process.cwd();
+    this.opts.file = this.opts.file || this.getDefaultConfig().file;
+    this.opts.writer = this.opts.writer || null;
+}
+JsonSummaryReport.TYPE = 'json-summary';
+util.inherits(JsonSummaryReport, Report);
+
+Report.mix(JsonSummaryReport, {
+    synopsis: function () {
+        return 'prints a summary coverage object as JSON to a file';
+    },
+    getDefaultConfig: function () {
+        return {
+            file: 'coverage-summary.json'
+        };
+    },
+    writeReport: function (collector, sync) {
+        var outputFile = path.resolve(this.opts.dir, this.opts.file),
+            writer = this.opts.writer || new Writer(sync),
+            that = this;
+
+        var summaries = [],
+            finalSummary;
+        collector.files().forEach(function (file) {
+            summaries.push(objectUtils.summarizeFileCoverage(collector.fileCoverageFor(file)));
+        });
+        finalSummary = objectUtils.mergeSummaryObjects.apply(null, summaries);
+
+        writer.on('done', function () { that.emit('done'); });
+        writer.writeFile(outputFile, function (contentWriter) {
+            contentWriter.println("{");
+            contentWriter.write('"total":');
+            contentWriter.write(JSON.stringify(finalSummary));
+
+            collector.files().forEach(function (key) {
+                contentWriter.println(",");
+                contentWriter.write(JSON.stringify(key));
+                contentWriter.write(":");
+                contentWriter.write(JSON.stringify(objectUtils.summarizeFileCoverage(collector.fileCoverageFor(key))));
+            });
+            contentWriter.println("}");
+        });
+        writer.done();
+    }
+});
+
+module.exports = JsonSummaryReport;

static/js/ketcher2/node_modules/istanbul/lib/report/json.js

@@ -0,0 +1,69 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    Writer = require('../util/file-writer'),
+    util = require('util'),
+    Report = require('./index');
+/**
+ * a `Report` implementation that produces a coverage JSON object.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('json');
+ *
+ *
+ * @class JsonReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to write the `coverage-final.json` file. Defaults to `process.cwd()`
+ */
+function JsonReport(opts) {
+    this.opts = opts || {};
+    this.opts.dir = this.opts.dir || process.cwd();
+    this.opts.file = this.opts.file || this.getDefaultConfig().file;
+    this.opts.writer = this.opts.writer || null;
+}
+JsonReport.TYPE = 'json';
+util.inherits(JsonReport, Report);
+
+Report.mix(JsonReport, {
+    synopsis: function () {
+        return 'prints the coverage object as JSON to a file';
+    },
+    getDefaultConfig: function () {
+        return {
+            file: 'coverage-final.json'
+        };
+    },
+    writeReport: function (collector, sync) {
+        var outputFile = path.resolve(this.opts.dir, this.opts.file),
+            writer = this.opts.writer || new Writer(sync),
+            that = this;
+
+        writer.on('done', function () { that.emit('done'); });
+        writer.writeFile(outputFile, function (contentWriter) {
+            var first = true;
+            contentWriter.println("{");
+            collector.files().forEach(function (key) {
+                if (first) {
+                    first = false;
+                } else {
+                    contentWriter.println(",");
+                }
+                contentWriter.write(JSON.stringify(key));
+                contentWriter.write(":");
+                contentWriter.write(JSON.stringify(collector.fileCoverageFor(key)));
+            });
+            contentWriter.println("}");
+        });
+        writer.done();
+    }
+});
+
+module.exports = JsonReport;

static/js/ketcher2/node_modules/istanbul/lib/report/lcov.js

@@ -0,0 +1,65 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    util = require('util'),
+    mkdirp = require('mkdirp'),
+    Report = require('./index'),
+    LcovOnlyReport = require('./lcovonly'),
+    HtmlReport = require('./html');
+
+/**
+ * a `Report` implementation that produces an LCOV coverage file and an associated HTML report from coverage objects.
+ * The name and behavior of this report is designed to ease migration for projects that currently use `yuitest_coverage`
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('lcov');
+ *
+ *
+ * @class LcovReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to the `lcov.info` file.
+ *  HTML files are written in a subdirectory called `lcov-report`. Defaults to `process.cwd()`
+ */
+function LcovReport(opts) {
+    Report.call(this);
+    opts = opts || {};
+    var baseDir = path.resolve(opts.dir || process.cwd()),
+        htmlDir = path.resolve(baseDir, 'lcov-report');
+
+    mkdirp.sync(baseDir);
+    this.lcov = new LcovOnlyReport({ dir: baseDir, watermarks: opts.watermarks });
+    this.html = new HtmlReport({ dir: htmlDir, watermarks: opts.watermarks, sourceStore: opts.sourceStore});
+}
+
+LcovReport.TYPE = 'lcov';
+util.inherits(LcovReport, Report);
+
+Report.mix(LcovReport, {
+    synopsis: function () {
+        return 'combined lcovonly and html report that generates an lcov.info file as well as HTML';
+    },
+    writeReport: function (collector, sync) {
+        var handler = this.handleDone.bind(this);
+        this.inProgress = 2;
+        this.lcov.on('done', handler);
+        this.html.on('done', handler);
+        this.lcov.writeReport(collector, sync);
+        this.html.writeReport(collector, sync);
+    },
+    handleDone: function () {
+        this.inProgress -= 1;
+        if (this.inProgress === 0) {
+            this.emit('done');
+        }
+    }
+});
+
+module.exports = LcovReport;

static/js/ketcher2/node_modules/istanbul/lib/report/lcovonly.js

@@ -0,0 +1,103 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    Writer = require('../util/file-writer'),
+    util = require('util'),
+    Report = require('./index'),
+    utils = require('../object-utils');
+/**
+ * a `Report` implementation that produces an LCOV coverage file from coverage objects.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('lcovonly');
+ *
+ *
+ * @class LcovOnlyReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to the `lcov.info` file. Defaults to `process.cwd()`
+ */
+function LcovOnlyReport(opts) {
+    this.opts = opts || {};
+    this.opts.dir = this.opts.dir || process.cwd();
+    this.opts.file = this.opts.file || this.getDefaultConfig().file;
+    this.opts.writer = this.opts.writer || null;
+}
+LcovOnlyReport.TYPE = 'lcovonly';
+util.inherits(LcovOnlyReport, Report);
+
+Report.mix(LcovOnlyReport, {
+    synopsis: function () {
+        return 'lcov coverage report that can be consumed by the lcov tool';
+    },
+    getDefaultConfig: function () {
+        return { file: 'lcov.info' };
+    },
+    writeFileCoverage: function (writer, fc) {
+        var functions = fc.f,
+            functionMap = fc.fnMap,
+            lines = fc.l,
+            branches = fc.b,
+            branchMap = fc.branchMap,
+            summary = utils.summarizeFileCoverage(fc);
+
+        writer.println('TN:'); //no test name
+        writer.println('SF:' + fc.path);
+
+        Object.keys(functions).forEach(function (key) {
+            var meta = functionMap[key];
+            writer.println('FN:' + [ meta.line, meta.name ].join(','));
+        });
+        writer.println('FNF:' + summary.functions.total);
+        writer.println('FNH:' + summary.functions.covered);
+
+        Object.keys(functions).forEach(function (key) {
+            var stats = functions[key],
+                meta = functionMap[key];
+            writer.println('FNDA:' + [ stats, meta.name ].join(','));
+        });
+
+        Object.keys(lines).forEach(function (key) {
+            var stat = lines[key];
+            writer.println('DA:' + [ key, stat ].join(','));
+        });
+        writer.println('LF:' + summary.lines.total);
+        writer.println('LH:' + summary.lines.covered);
+
+        Object.keys(branches).forEach(function (key) {
+            var branchArray = branches[key],
+                meta = branchMap[key],
+                line = meta.line,
+                i = 0;
+            branchArray.forEach(function (b) {
+                writer.println('BRDA:' + [line, key, i, b].join(','));
+                i += 1;
+            });
+        });
+        writer.println('BRF:' + summary.branches.total);
+        writer.println('BRH:' + summary.branches.covered);
+        writer.println('end_of_record');
+    },
+
+    writeReport: function (collector, sync) {
+        var outputFile = path.resolve(this.opts.dir, this.opts.file),
+            writer = this.opts.writer || new Writer(sync),
+            that = this;
+        writer.on('done', function () { that.emit('done'); });
+        writer.writeFile(outputFile, function (contentWriter) {
+            collector.files().forEach(function (key) {
+                that.writeFileCoverage(contentWriter, collector.fileCoverageFor(key));
+            });
+        });
+        writer.done();
+    }
+});
+
+module.exports = LcovOnlyReport;

static/js/ketcher2/node_modules/istanbul/lib/report/none.js

@@ -0,0 +1,41 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var util = require('util'),
+    Report = require('./index');
+
+/**
+ * a `Report` implementation that does nothing. Use to specify that no reporting
+ * is needed.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('none');
+ *
+ *
+ * @class NoneReport
+ * @extends Report
+ * @module report
+ * @constructor
+ */
+function NoneReport() {
+    Report.call(this);
+}
+
+NoneReport.TYPE = 'none';
+util.inherits(NoneReport, Report);
+
+Report.mix(NoneReport, {
+    synopsis: function () {
+        return 'Does nothing. Useful to override default behavior and suppress reporting entirely';
+    },
+    writeReport: function (/* collector, sync */) {
+        //noop
+        this.emit('done');
+    }
+});
+
+module.exports = NoneReport;

static/js/ketcher2/node_modules/istanbul/lib/report/teamcity.js

@@ -0,0 +1,92 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    util = require('util'),
+    mkdirp = require('mkdirp'),
+    fs = require('fs'),
+    utils = require('../object-utils'),
+    Report = require('./index');
+
+/**
+ * a `Report` implementation that produces system messages interpretable by TeamCity.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('teamcity');
+ *
+ * @class TeamcityReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to the text coverage report will be written, when writing to a file
+ * @param {String} [opts.file] the filename for the report. When omitted, the report is written to console
+ */
+function TeamcityReport(opts) {
+    Report.call(this);
+    opts = opts || {};
+    this.dir = opts.dir || process.cwd();
+    this.file = opts.file;
+    this.blockName = opts.blockName || this.getDefaultConfig().blockName;
+}
+
+TeamcityReport.TYPE = 'teamcity';
+util.inherits(TeamcityReport, Report);
+
+function lineForKey(value, teamcityVar) {
+    return '##teamcity[buildStatisticValue key=\'' + teamcityVar + '\' value=\'' + value + '\']';
+}
+
+Report.mix(TeamcityReport, {
+    synopsis: function () {
+        return 'report with system messages that can be interpreted with TeamCity';
+    },
+    getDefaultConfig: function () {
+        return { file: null , blockName: 'Code Coverage Summary'};
+    },
+    writeReport: function (collector /*, sync */) {
+        var summaries = [],
+            finalSummary,
+            lines = [],
+            text;
+
+        collector.files().forEach(function (file) {
+            summaries.push(utils.summarizeFileCoverage(collector.fileCoverageFor(file)));
+        });
+
+        finalSummary = utils.mergeSummaryObjects.apply(null, summaries);
+
+        lines.push('');
+        lines.push('##teamcity[blockOpened name=\''+ this.blockName +'\']');
+
+        //Statements Covered
+        lines.push(lineForKey(finalSummary.statements.pct, 'CodeCoverageB'));
+
+        //Methods Covered
+        lines.push(lineForKey(finalSummary.functions.covered, 'CodeCoverageAbsMCovered'));
+        lines.push(lineForKey(finalSummary.functions.total, 'CodeCoverageAbsMTotal'));
+        lines.push(lineForKey(finalSummary.functions.pct, 'CodeCoverageM'));
+
+        //Lines Covered
+        lines.push(lineForKey(finalSummary.lines.covered, 'CodeCoverageAbsLCovered'));
+        lines.push(lineForKey(finalSummary.lines.total, 'CodeCoverageAbsLTotal'));
+        lines.push(lineForKey(finalSummary.lines.pct, 'CodeCoverageL'));
+
+        lines.push('##teamcity[blockClosed name=\''+ this.blockName +'\']');
+
+        text = lines.join('\n');
+        if (this.file) {
+            mkdirp.sync(this.dir);
+            fs.writeFileSync(path.join(this.dir, this.file), text, 'utf8');
+        } else {
+            console.log(text);
+        }
+        this.emit('done');
+    }
+});
+
+module.exports = TeamcityReport;

static/js/ketcher2/node_modules/istanbul/lib/report/templates/foot.txt

@@ -0,0 +1,20 @@
+<div class='push'></div><!-- for sticky footer -->
+</div><!-- /wrapper -->
+<div class='footer quiet pad2 space-top1 center small'>
+  Code coverage
+  generated by <a href="http://istanbul-js.org/" target="_blank">istanbul</a> at {{datetime}}
+</div>
+</div>
+{{#if prettify}}
+<script src="{{prettify.js}}"></script>
+<script>
+window.onload = function () {
+        if (typeof prettyPrint === 'function') {
+            prettyPrint();
+        }
+};
+</script>
+{{/if}}
+<script src="{{sorter.js}}"></script>
+</body>
+</html>

static/js/ketcher2/node_modules/istanbul/lib/report/templates/head.txt

@@ -0,0 +1,60 @@
+<!doctype html>
+<html lang="en">
+<head>
+    <title>Code coverage report for {{entity}}</title>
+    <meta charset="utf-8" />
+{{#if prettify}}
+    <link rel="stylesheet" href="{{prettify.css}}" />
+{{/if}}
+    <link rel="stylesheet" href="{{base.css}}" />
+    <meta name="viewport" content="width=device-width, initial-scale=1">
+    <style type='text/css'>
+        .coverage-summary .sorter {
+            background-image: url({{sorter.image}});
+        }
+    </style>
+</head>
+<body>
+<div class='wrapper'>
+  <div class='pad1'>
+    <h1>
+      {{{pathHtml}}}
+    </h1>
+    <div class='clearfix'>
+      {{#with metrics.statements}}
+      <div class='fl pad1y space-right2'>
+        <span class="strong">{{pct}}% </span>
+        <span class="quiet">Statements</span>
+        <span class='fraction'>{{covered}}/{{total}}</span>
+      </div>
+      {{/with}}
+      {{#with metrics.branches}}
+      <div class='fl pad1y space-right2'>
+        <span class="strong">{{pct}}% </span>
+        <span class="quiet">Branches</span>
+        <span class='fraction'>{{covered}}/{{total}}</span>
+      </div>
+      {{/with}}
+      {{#with metrics.functions}}
+      <div class='fl pad1y space-right2'>
+        <span class="strong">{{pct}}% </span>
+        <span class="quiet">Functions</span>
+        <span class='fraction'>{{covered}}/{{total}}</span>
+      </div>
+      {{/with}}
+      {{#with metrics.lines}}
+      <div class='fl pad1y space-right2'>
+        <span class="strong">{{pct}}% </span>
+        <span class="quiet">Lines</span>
+        <span class='fraction'>{{covered}}/{{total}}</span>
+      </div>
+      {{/with}}
+      {{#if_has_ignores metrics}}
+      <div class='fl pad1y'>
+        <span class="strong">{{#show_ignores metrics}}{{/show_ignores}}</span>
+        <span class="quiet">Ignored</span>  &nbsp;&nbsp;&nbsp;&nbsp;
+      </div>
+      {{/if_has_ignores}}
+    </div>
+  </div>
+  <div class='status-line {{reportClass}}'></div>

static/js/ketcher2/node_modules/istanbul/lib/report/text-lcov.js

@@ -0,0 +1,50 @@
+var LcovOnly = require('./lcovonly'),
+  util = require('util');
+
+/**
+ * a `Report` implementation that produces an LCOV coverage and prints it
+ *  to standard out.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('text-lcov');
+ *
+ * @class TextLcov
+ * @module report
+ * @extends LcovOnly
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.log] the method used to log to console.
+ */
+function TextLcov(opts) {
+    var that = this;
+
+    LcovOnly.call(this);
+
+    this.opts = opts || {};
+    this.opts.log = this.opts.log || console.log;
+    this.opts.writer = {
+        println: function (ln) {
+            that.opts.log(ln);
+        }
+    };
+}
+
+TextLcov.TYPE = 'text-lcov';
+util.inherits(TextLcov, LcovOnly);
+
+LcovOnly.super_.mix(TextLcov, {
+    writeReport: function (collector) {
+        var that = this,
+            writer = this.opts.writer;
+
+        collector.files().forEach(function (key) {
+            that.writeFileCoverage(writer, collector.fileCoverageFor(key));
+        });
+
+        this.emit('done');
+    }
+});
+
+module.exports = TextLcov;

static/js/ketcher2/node_modules/istanbul/lib/report/text-summary.js

@@ -0,0 +1,93 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    util = require('util'),
+    mkdirp = require('mkdirp'),
+    defaults = require('./common/defaults'),
+    fs = require('fs'),
+    utils = require('../object-utils'),
+    Report = require('./index');
+
+/**
+ * a `Report` implementation that produces text output for overall coverage in summary format.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('text-summary');
+ *
+ * @class TextSummaryReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to the text coverage report will be written, when writing to a file
+ * @param {String} [opts.file] the filename for the report. When omitted, the report is written to console
+ */
+function TextSummaryReport(opts) {
+    Report.call(this);
+    opts = opts || {};
+    this.dir = opts.dir || process.cwd();
+    this.file = opts.file;
+    this.watermarks = opts.watermarks || defaults.watermarks();
+}
+
+TextSummaryReport.TYPE = 'text-summary';
+util.inherits(TextSummaryReport, Report);
+
+function lineForKey(summary, key, watermarks) {
+    var metrics = summary[key],
+        skipped,
+        result,
+        clazz = defaults.classFor(key, summary, watermarks);
+    key = key.substring(0, 1).toUpperCase() + key.substring(1);
+    if (key.length < 12) { key += '                   '.substring(0, 12 - key.length); }
+    result = [ key , ':', metrics.pct + '%', '(', metrics.covered + '/' + metrics.total, ')'].join(' ');
+    skipped = metrics.skipped;
+    if (skipped > 0) {
+        result += ', ' + skipped + ' ignored';
+    }
+    return defaults.colorize(result, clazz);
+}
+
+Report.mix(TextSummaryReport, {
+    synopsis: function () {
+        return 'text report that prints a coverage summary across all files, typically to console';
+    },
+    getDefaultConfig: function () {
+        return { file: null };
+    },
+    writeReport: function (collector /*, sync */) {
+        var summaries = [],
+            finalSummary,
+            lines = [],
+            watermarks = this.watermarks,
+            text;
+        collector.files().forEach(function (file) {
+            summaries.push(utils.summarizeFileCoverage(collector.fileCoverageFor(file)));
+        });
+        finalSummary = utils.mergeSummaryObjects.apply(null, summaries);
+        lines.push('');
+        lines.push('=============================== Coverage summary ===============================');
+        lines.push.apply(lines, [
+            lineForKey(finalSummary, 'statements', watermarks),
+            lineForKey(finalSummary, 'branches', watermarks),
+            lineForKey(finalSummary, 'functions', watermarks),
+            lineForKey(finalSummary, 'lines', watermarks)
+        ]);
+        lines.push('================================================================================');
+        text = lines.join('\n');
+        if (this.file) {
+            mkdirp.sync(this.dir);
+            fs.writeFileSync(path.join(this.dir, this.file), text, 'utf8');
+        } else {
+            console.log(text);
+        }
+        this.emit('done');
+    }
+});
+
+module.exports = TextSummaryReport;

static/js/ketcher2/node_modules/istanbul/lib/report/text.js

@@ -0,0 +1,234 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    mkdirp = require('mkdirp'),
+    util = require('util'),
+    fs = require('fs'),
+    defaults = require('./common/defaults'),
+    Report = require('./index'),
+    TreeSummarizer = require('../util/tree-summarizer'),
+    utils = require('../object-utils'),
+    PCT_COLS = 9,
+    MISSING_COL = 15,
+    TAB_SIZE = 1,
+    DELIM = ' |',
+    COL_DELIM = '-|';
+
+/**
+ * a `Report` implementation that produces text output in a detailed table.
+ *
+ * Usage
+ * -----
+ *
+ *      var report = require('istanbul').Report.create('text');
+ *
+ * @class TextReport
+ * @extends Report
+ * @module report
+ * @constructor
+ * @param {Object} opts optional
+ * @param {String} [opts.dir] the directory in which to the text coverage report will be written, when writing to a file
+ * @param {String} [opts.file] the filename for the report. When omitted, the report is written to console
+ * @param {Number} [opts.maxCols] the max column width of the report. By default, the width of the report is adjusted based on the length of the paths
+ *              to be reported.
+ */
+function TextReport(opts) {
+    Report.call(this);
+    opts = opts || {};
+    this.dir = opts.dir || process.cwd();
+    this.file = opts.file;
+    this.summary = opts.summary;
+    this.maxCols = opts.maxCols || 0;
+    this.watermarks = opts.watermarks || defaults.watermarks();
+}
+
+TextReport.TYPE = 'text';
+util.inherits(TextReport, Report);
+
+function padding(num, ch) {
+    var str = '',
+        i;
+    ch = ch || ' ';
+    for (i = 0; i < num; i += 1) {
+        str += ch;
+    }
+    return str;
+}
+
+function fill(str, width, right, tabs, clazz) {
+    tabs = tabs || 0;
+    str = String(str);
+
+    var leadingSpaces = tabs * TAB_SIZE,
+        remaining = width - leadingSpaces,
+        leader = padding(leadingSpaces),
+        fmtStr = '',
+        fillStr,
+        strlen = str.length;
+
+    if (remaining > 0) {
+        if (remaining >= strlen) {
+            fillStr = padding(remaining - strlen);
+            fmtStr = right ? fillStr + str : str + fillStr;
+        } else {
+            fmtStr = str.substring(strlen - remaining);
+            fmtStr = '... ' + fmtStr.substring(4);
+        }
+    }
+
+    fmtStr = defaults.colorize(fmtStr, clazz);
+    return leader + fmtStr;
+}
+
+function formatName(name, maxCols, level, clazz) {
+    return fill(name, maxCols, false, level, clazz);
+}
+
+function formatPct(pct, clazz, width) {
+    return fill(pct, width || PCT_COLS, true, 0, clazz);
+}
+
+function nodeName(node) {
+    return node.displayShortName() || 'All files';
+}
+
+function tableHeader(maxNameCols) {
+    var elements = [];
+    elements.push(formatName('File', maxNameCols, 0));
+    elements.push(formatPct('% Stmts'));
+    elements.push(formatPct('% Branch'));
+    elements.push(formatPct('% Funcs'));
+    elements.push(formatPct('% Lines'));
+    elements.push(formatPct('Uncovered Lines', undefined, MISSING_COL));
+    return elements.join(' |') + ' |';
+}
+
+function collectMissingLines(kind, linesCovered) {
+  var missingLines = [];
+
+  if (kind !== 'file') {
+      return [];
+  }
+
+  Object.keys(linesCovered).forEach(function (key) {
+      if (!linesCovered[key]) {
+          missingLines.push(key);
+      }
+  });
+
+  return missingLines;
+}
+
+function tableRow(node, maxNameCols, level, watermarks) {
+    var name = nodeName(node),
+        statements = node.metrics.statements.pct,
+        branches = node.metrics.branches.pct,
+        functions = node.metrics.functions.pct,
+        lines = node.metrics.lines.pct,
+        missingLines = collectMissingLines(node.kind, node.metrics.linesCovered),
+        elements = [];
+
+    elements.push(formatName(name, maxNameCols, level, defaults.classFor('statements', node.metrics, watermarks)));
+    elements.push(formatPct(statements, defaults.classFor('statements', node.metrics, watermarks)));
+    elements.push(formatPct(branches, defaults.classFor('branches', node.metrics, watermarks)));
+    elements.push(formatPct(functions, defaults.classFor('functions', node.metrics, watermarks)));
+    elements.push(formatPct(lines, defaults.classFor('lines', node.metrics, watermarks)));
+    elements.push(formatPct(missingLines.join(','), 'low', MISSING_COL));
+
+    return elements.join(DELIM) + DELIM;
+}
+
+function findNameWidth(node, level, last) {
+    last = last || 0;
+    level = level || 0;
+    var idealWidth = TAB_SIZE * level + nodeName(node).length;
+    if (idealWidth > last) {
+        last = idealWidth;
+    }
+    node.children.forEach(function (child) {
+        last = findNameWidth(child, level + 1, last);
+    });
+    return last;
+}
+
+function makeLine(nameWidth) {
+    var name = padding(nameWidth, '-'),
+        pct = padding(PCT_COLS, '-'),
+        elements = [];
+
+    elements.push(name);
+    elements.push(pct);
+    elements.push(pct);
+    elements.push(pct);
+    elements.push(pct);
+    elements.push(padding(MISSING_COL, '-'));
+    return elements.join(COL_DELIM) + COL_DELIM;
+}
+
+function walk(node, nameWidth, array, level, watermarks) {
+    var line;
+    if (level === 0) {
+        line = makeLine(nameWidth);
+        array.push(line);
+        array.push(tableHeader(nameWidth));
+        array.push(line);
+    } else {
+        array.push(tableRow(node, nameWidth, level, watermarks));
+    }
+    node.children.forEach(function (child) {
+        walk(child, nameWidth, array, level + 1, watermarks);
+    });
+    if (level === 0) {
+        array.push(line);
+        array.push(tableRow(node, nameWidth, level, watermarks));
+        array.push(line);
+    }
+}
+
+Report.mix(TextReport, {
+    synopsis: function () {
+        return 'text report that prints a coverage line for every file, typically to console';
+    },
+    getDefaultConfig: function () {
+        return { file: null, maxCols: 0 };
+    },
+    writeReport: function (collector /*, sync */) {
+        var summarizer = new TreeSummarizer(),
+            tree,
+            root,
+            nameWidth,
+            statsWidth = 4 * (PCT_COLS + 2) + MISSING_COL,
+            maxRemaining,
+            strings = [],
+            text;
+
+        collector.files().forEach(function (key) {
+            summarizer.addFileCoverageSummary(key, utils.summarizeFileCoverage(
+                collector.fileCoverageFor(key)
+            ));
+        });
+        tree = summarizer.getTreeSummary();
+        root = tree.root;
+        nameWidth = findNameWidth(root);
+        if (this.maxCols > 0) {
+            maxRemaining = this.maxCols - statsWidth - 2;
+            if (nameWidth > maxRemaining) {
+                nameWidth = maxRemaining;
+            }
+        }
+        walk(root, nameWidth, strings, 0, this.watermarks);
+        text = strings.join('\n') + '\n';
+        if (this.file) {
+            mkdirp.sync(this.dir);
+            fs.writeFileSync(path.join(this.dir, this.file), text, 'utf8');
+        } else {
+            console.log(text);
+        }
+        this.emit('done');
+    }
+});
+
+module.exports = TextReport;

static/js/ketcher2/node_modules/istanbul/lib/reporter.js

@@ -0,0 +1,111 @@
+/*
+ Copyright (c) 2014, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+var Report = require('./report'),
+    configuration = require('./config'),
+    inputError = require('./util/input-error');
+
+/**
+ * convenience mechanism to write one or more reports ensuring that config
+ * options are respected.
+ * Usage
+ * -----
+ *
+ *      var fs = require('fs'),
+ *          reporter = new require('istanbul').Reporter(),
+ *          collector = new require('istanbul').Collector(),
+ *          sync = true;
+ *
+ *      collector.add(JSON.parse(fs.readFileSync('coverage.json', 'utf8')));
+ *      reporter.add('lcovonly');
+ *      reporter.addAll(['clover', 'cobertura']);
+ *      reporter.write(collector, sync, function () { console.log('done'); });
+ *
+ * @class Reporter
+ * @param {Configuration} cfg  the config object, a falsy value will load the
+ *  default configuration instead
+ * @param {String} dir  the directory in which to write the reports, may be falsy
+ *  to use config or global defaults
+ * @constructor
+ * @module main
+ */
+function Reporter(cfg, dir) {
+    this.config = cfg || configuration.loadFile();
+    this.dir = dir || this.config.reporting.dir();
+    this.reports = {};
+}
+
+Reporter.prototype = {
+    /**
+     * adds a report to be generated. Must be one of the entries returned
+     * by `Report.getReportList()`
+     * @method add
+     * @param {String} fmt the format of the report to generate
+     */
+    add: function (fmt) {
+        if (this.reports[fmt]) { // already added
+            return;
+        }
+        var config = this.config,
+            rptConfig = config.reporting.reportConfig()[fmt] || {};
+        rptConfig.verbose = config.verbose;
+        rptConfig.dir = this.dir;
+        rptConfig.watermarks = config.reporting.watermarks();
+        try {
+            this.reports[fmt] = Report.create(fmt, rptConfig);
+        } catch (ex) {
+            throw inputError.create('Invalid report format [' + fmt + ']');
+        }
+    },
+    /**
+     * adds an array of report formats to be generated
+     * @method addAll
+     * @param {Array} fmts an array of report formats
+     */
+    addAll: function (fmts) {
+        var that = this;
+        fmts.forEach(function (f) {
+            that.add(f);
+        });
+    },
+    /**
+     * writes all reports added and calls the callback when done
+     * @method write
+     * @param {Collector} collector the collector having the coverage data
+     * @param {Boolean} sync true to write reports synchronously
+     * @param {Function} callback the callback to call when done. When `sync`
+     * is true, the callback will be called in the same process tick.
+     */
+    write: function (collector, sync, callback) {
+        var reports = this.reports,
+            verbose = this.config.verbose,
+            handler = this.handleDone.bind(this, callback);
+
+        this.inProgress = Object.keys(reports).length;
+
+        Object.keys(reports).forEach(function (name) {
+            var report = reports[name];
+            if (verbose) {
+                console.error('Write report: ' + name);
+            }
+            report.on('done', handler);
+            report.writeReport(collector, sync);
+        });
+    },
+    /*
+     * handles listening on all reports to be completed before calling the callback
+     * @method handleDone
+     * @private
+     * @param {Function} callback the callback to call when all reports are
+     * written
+     */
+    handleDone: function (callback) {
+        this.inProgress -= 1;
+        if (this.inProgress === 0) {
+            return callback();
+        }
+    }
+};
+
+module.exports = Reporter;

static/js/ketcher2/node_modules/istanbul/lib/store/fslookup.js

@@ -0,0 +1,61 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var util = require('util'),
+    fs = require('fs'),
+    Store = require('./index');
+
+/**
+ * a `Store` implementation that doesn't actually store anything. It assumes that keys
+ * are absolute file paths, and contents are contents of those files.
+ * Thus, `set` for this store is no-op, `get` returns the
+ * contents of the filename that the key represents, `hasKey` returns true if the key
+ * supplied is a valid file path and `keys` always returns an empty array.
+ *
+ * Usage
+ * -----
+ *
+ *      var store = require('istanbul').Store.create('fslookup');
+ *
+ *
+ * @class LookupStore
+ * @extends Store
+ * @module store
+ * @constructor
+ */
+function LookupStore(opts) {
+    Store.call(this, opts);
+}
+
+LookupStore.TYPE = 'fslookup';
+util.inherits(LookupStore, Store);
+
+Store.mix(LookupStore, {
+    keys: function () {
+        return [];
+    },
+    get: function (key) {
+        return fs.readFileSync(key, 'utf8');
+    },
+    hasKey: function (key) {
+        var stats;
+        try {
+            stats = fs.statSync(key);
+            return stats.isFile();
+        } catch (ex) {
+            return false;
+        }
+    },
+    set: function (key /*, contents */) {
+        if (!this.hasKey(key)) {
+            throw new Error('Attempt to set contents for non-existent file [' + key + '] on a fslookup store');
+        }
+        return key;
+    }
+});
+
+
+module.exports = LookupStore;
+

static/js/ketcher2/node_modules/istanbul/lib/store/index.js

@@ -0,0 +1,123 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var Factory = require('../util/factory'),
+    factory = new Factory('store', __dirname, false);
+/**
+ * An abstraction for keeping track of content against some keys (e.g.
+ * original source, instrumented source, coverage objects against file names).
+ * This class is both the base class as well as a factory for `Store` implementations.
+ *
+ * Usage
+ * -----
+ *
+ *      var Store = require('istanbul').Store,
+ *          store = Store.create('memory');
+ *
+ *      //basic use
+ *      store.set('foo', 'foo-content');
+ *      var content = store.get('foo');
+ *
+ *      //keys and values
+ *      store.keys().forEach(function (key) {
+ *          console.log(key + ':\n' + store.get(key);
+ *      });
+ *      if (store.hasKey('bar') { console.log(store.get('bar'); }
+ *
+ *
+ *      //syntactic sugar
+ *      store.setObject('foo', { foo: true });
+ *      console.log(store.getObject('foo').foo);
+ *
+ *      store.dispose();
+ *
+ * @class Store
+ * @constructor
+ * @module store
+ * @param {Object} options Optional. The options supported by a specific store implementation.
+ * @main store
+ */
+function Store(/* options */) {}
+
+//add register, create, mix, loadAll, getStoreList as class methods
+factory.bindClassMethods(Store);
+
+/**
+ * registers a new store implementation.
+ * @method register
+ * @static
+ * @param {Function} constructor the constructor function for the store. This function must have a
+ *  `TYPE` property of type String, that will be used in `Store.create()`
+ */
+/**
+ * returns a store implementation of the specified type.
+ * @method create
+ * @static
+ * @param {String} type the type of store to create
+ * @param {Object} opts Optional. Options specific to the store implementation
+ * @return {Store} a new store of the specified type
+ */
+
+Store.prototype = {
+    /**
+     * sets some content associated with a specific key. The manner in which
+     * duplicate keys are handled for multiple `set()` calls with the same
+     * key is implementation-specific.
+     *
+     * @method set
+     * @param {String} key the key for the content
+     * @param {String} contents the contents for the key
+     */
+    set: function (/* key, contents */) { throw new Error("set: must be overridden"); },
+    /**
+     * returns the content associated to a specific key or throws if the key
+     * was not `set`
+     * @method get
+     * @param {String} key the key for which to get the content
+     * @return {String} the content for the specified key
+     */
+    get: function (/* key */) { throw new Error("get: must be overridden"); },
+    /**
+     * returns a list of all known keys
+     * @method keys
+     * @return {Array} an array of seen keys
+     */
+    keys: function () { throw new Error("keys: must be overridden"); },
+    /**
+     * returns true if the key is one for which a `get()` call would work.
+     * @method hasKey
+     * @param {String} key
+     * @return true if the key is valid for this store, false otherwise
+     */
+    hasKey: function (/* key */) { throw new Error("hasKey: must be overridden"); },
+    /**
+     * lifecycle method to dispose temporary resources associated with the store
+     * @method dispose
+     */
+    dispose: function () {},
+    /**
+     * sugar method to return an object associated with a specific key. Throws
+     * if the content set against the key was not a valid JSON string.
+     * @method getObject
+     * @param {String} key the key for which to return the associated object
+     * @return {Object} the object corresponding to the key
+     */
+    getObject: function (key) {
+        return JSON.parse(this.get(key));
+    },
+    /**
+     * sugar method to set an object against a specific key.
+     * @method setObject
+     * @param {String} key the key for the object
+     * @param {Object} object the object to be stored
+     */
+    setObject: function (key, object) {
+        return this.set(key, JSON.stringify(object));
+    }
+};
+
+module.exports = Store;
+
+

static/js/ketcher2/node_modules/istanbul/lib/store/memory.js

@@ -0,0 +1,56 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var util = require('util'),
+    Store = require('./index');
+
+/**
+ * a `Store` implementation using an in-memory object.
+ *
+ * Usage
+ * -----
+ *
+ *      var store = require('istanbul').Store.create('memory');
+ *
+ *
+ * @class MemoryStore
+ * @extends Store
+ * @module store
+ * @constructor
+ */
+function MemoryStore() {
+    Store.call(this);
+    this.map = {};
+}
+
+MemoryStore.TYPE = 'memory';
+util.inherits(MemoryStore, Store);
+
+Store.mix(MemoryStore, {
+    set: function (key, contents) {
+        this.map[key] = contents;
+    },
+
+    get: function (key) {
+        if (!this.hasKey(key)) {
+            throw new Error('Unable to find entry for [' + key + ']');
+        }
+        return this.map[key];
+    },
+
+    hasKey: function (key) {
+        return this.map.hasOwnProperty(key);
+    },
+
+    keys: function () {
+        return Object.keys(this.map);
+    },
+
+    dispose: function () {
+        this.map = {};
+    }
+});
+
+module.exports = MemoryStore;

static/js/ketcher2/node_modules/istanbul/lib/store/tmp.js

@@ -0,0 +1,81 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var util = require('util'),
+    path = require('path'),
+    os = require('os'),
+    fs = require('fs'),
+    mkdirp = require('mkdirp'),
+    Store = require('./index');
+
+function makeTempDir() {
+    var dir = path.join(os.tmpdir ? os.tmpdir() : /* istanbul ignore next */ (process.env.TMPDIR || '/tmp'), 'ts' + new Date().getTime());
+    mkdirp.sync(dir);
+    return dir;
+}
+/**
+ * a `Store` implementation using temporary files.
+ *
+ * Usage
+ * -----
+ *
+ *      var store = require('istanbul').Store.create('tmp');
+ *
+ *
+ * @class TmpStore
+ * @extends Store
+ * @module store
+ * @param {Object} opts Optional.
+ * @param {String} [opts.tmp] a pre-existing directory to use as the `tmp` directory. When not specified, a random directory
+ *      is created under `os.tmpdir()`
+ * @constructor
+ */
+function TmpStore(opts) {
+    opts = opts || {};
+    this.tmp = opts.tmp || makeTempDir();
+    this.map = {};
+    this.seq = 0;
+    this.prefix = 't' + new Date().getTime() + '-';
+}
+
+TmpStore.TYPE = 'tmp';
+util.inherits(TmpStore, Store);
+
+Store.mix(TmpStore, {
+    generateTmpFileName: function () {
+        this.seq += 1;
+        return path.join(this.tmp, this.prefix + this.seq + '.tmp');
+    },
+
+    set: function (key, contents) {
+        var tmpFile = this.generateTmpFileName();
+        fs.writeFileSync(tmpFile, contents, 'utf8');
+        this.map[key] = tmpFile;
+    },
+
+    get: function (key) {
+        var tmpFile = this.map[key];
+        if (!tmpFile) { throw new Error('Unable to find tmp entry for [' + tmpFile + ']'); }
+        return fs.readFileSync(tmpFile, 'utf8');
+    },
+
+    hasKey: function (key) {
+        return !!this.map[key];
+    },
+
+    keys: function () {
+        return Object.keys(this.map);
+    },
+
+    dispose: function () {
+        var map = this.map;
+        Object.keys(map).forEach(function (key) {
+            fs.unlinkSync(map[key]);
+        });
+        this.map = {};
+    }
+});
+
+module.exports = TmpStore;

static/js/ketcher2/node_modules/istanbul/lib/util/factory.js

@@ -0,0 +1,88 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var util = require('util'),
+    path = require('path'),
+    fs = require('fs'),
+    abbrev = require('abbrev');
+
+function Factory(kind, dir, allowAbbreviations) {
+    this.kind = kind;
+    this.dir = dir;
+    this.allowAbbreviations = allowAbbreviations;
+    this.classMap = {};
+    this.abbreviations = null;
+}
+
+Factory.prototype = {
+
+    knownTypes: function () {
+        var keys = Object.keys(this.classMap);
+        keys.sort();
+        return keys;
+    },
+
+    resolve: function (abbreviatedType) {
+        if (!this.abbreviations) {
+            this.abbreviations = abbrev(this.knownTypes());
+        }
+        return this.abbreviations[abbreviatedType];
+    },
+
+    register: function (constructor) {
+        var type = constructor.TYPE;
+        if (!type) { throw new Error('Could not register ' + this.kind + ' constructor [no TYPE property]: ' + util.inspect(constructor)); }
+        this.classMap[type] = constructor;
+        this.abbreviations = null;
+    },
+
+    create: function (type, opts) {
+        var allowAbbrev = this.allowAbbreviations,
+            realType = allowAbbrev ? this.resolve(type) : type,
+            Cons;
+
+        Cons = realType ? this.classMap[realType] : null;
+        if (!Cons) { throw new Error('Invalid ' + this.kind + ' [' + type + '], allowed values are ' + this.knownTypes().join(', ')); }
+        return new Cons(opts);
+    },
+
+    loadStandard: function (dir) {
+        var that = this;
+        fs.readdirSync(dir).forEach(function (file) {
+            if (file !== 'index.js' && file.indexOf('.js') === file.length - 3) {
+                try {
+                    that.register(require(path.resolve(dir, file)));
+                } catch (ex) {
+                    console.error(ex.message);
+                    console.error(ex.stack);
+                    throw new Error('Could not register ' + that.kind + ' from file ' + file);
+                }
+            }
+        });
+    },
+
+    bindClassMethods: function (Cons) {
+        var tmpKind = this.kind.charAt(0).toUpperCase() + this.kind.substring(1), //ucfirst
+            allowAbbrev = this.allowAbbreviations;
+
+        Cons.mix = Factory.mix;
+        Cons.register = this.register.bind(this);
+        Cons.create = this.create.bind(this);
+        Cons.loadAll = this.loadStandard.bind(this, this.dir);
+        Cons['get' + tmpKind + 'List'] = this.knownTypes.bind(this);
+        if (allowAbbrev) {
+            Cons['resolve' + tmpKind + 'Name'] = this.resolve.bind(this);
+        }
+    }
+};
+
+Factory.mix = function (cons, proto) {
+    Object.keys(proto).forEach(function (key) {
+        cons.prototype[key] = proto[key];
+    });
+};
+
+module.exports = Factory;
+

static/js/ketcher2/node_modules/istanbul/lib/util/file-matcher.js

@@ -0,0 +1,76 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var async = require('async'),
+    glob = require('glob'),
+    fs = require('fs'),
+    path = require('path'),
+    seq = 0;
+
+function filesFor(options, callback) {
+    if (!callback && typeof options === 'function') {
+        callback = options;
+        options = null;
+    }
+    options = options || {};
+
+    var root = options.root,
+        includes = options.includes,
+        excludes = options.excludes,
+        realpath = options.realpath,
+        relative = options.relative,
+        opts;
+
+    root = root || process.cwd();
+    includes = includes && Array.isArray(includes) ? includes : [ '**/*.js' ];
+    excludes = excludes && Array.isArray(excludes) ? excludes : [ '**/node_modules/**' ];
+
+    opts = { cwd: root, nodir: true, ignore: excludes };
+    seq += 1;
+    opts['x' + seq + new Date().getTime()] = true; //cache buster for minimatch cache bug
+    glob(includes.join(' '), opts, function (err, files) {
+        if (err) { return callback(err); }
+        if (relative) { return callback(err, files); }
+
+        if (!realpath) {
+            files = files.map(function (file) { return path.resolve(root, file); });
+            return callback(err, files);
+        }
+
+        var realPathCache = module.constructor._realpathCache || {};
+
+        async.map(files, function (file, done) {
+            fs.realpath(path.resolve(root, file), realPathCache, done);
+        }, callback);
+    });
+}
+
+function matcherFor(options, callback) {
+
+    if (!callback && typeof options === 'function') {
+        callback = options;
+        options = null;
+    }
+    options = options || {};
+    options.relative = false; //force absolute paths
+    options.realpath = true; //force real paths (to match Node.js module paths)
+
+    filesFor(options, function (err, files) {
+        var fileMap = {},
+            matchFn;
+        if (err) { return callback(err); }
+        files.forEach(function (file) { fileMap[file] = true; });
+
+        matchFn = function (file) { return fileMap[file]; };
+        matchFn.files = Object.keys(fileMap);
+        return callback(null, matchFn);
+    });
+}
+
+module.exports = {
+    filesFor: filesFor,
+    matcherFor: matcherFor
+};
+

static/js/ketcher2/node_modules/istanbul/lib/util/file-writer.js

@@ -0,0 +1,154 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    util = require('util'),
+    fs = require('fs'),
+    async = require('async'),
+    mkdirp = require('mkdirp'),
+    writer = require('./writer'),
+    Writer = writer.Writer,
+    ContentWriter = writer.ContentWriter;
+
+function extend(cons, proto) {
+    Object.keys(proto).forEach(function (k) {
+        cons.prototype[k] = proto[k];
+    });
+}
+
+function BufferedContentWriter() {
+    ContentWriter.call(this);
+    this.content = '';
+}
+util.inherits(BufferedContentWriter, ContentWriter);
+
+extend(BufferedContentWriter, {
+    write: function (str) {
+        this.content += str;
+    },
+    getContent: function () {
+        return this.content;
+    }
+});
+
+function StreamContentWriter(stream) {
+    ContentWriter.call(this);
+    this.stream = stream;
+}
+util.inherits(StreamContentWriter, ContentWriter);
+
+extend(StreamContentWriter, {
+    write: function (str) {
+        this.stream.write(str);
+    }
+});
+
+function SyncFileWriter() {
+    Writer.call(this);
+}
+util.inherits(SyncFileWriter, Writer);
+
+extend(SyncFileWriter, {
+    writeFile: function (file, callback) {
+        mkdirp.sync(path.dirname(file));
+        var cw = new BufferedContentWriter();
+        callback(cw);
+        fs.writeFileSync(file, cw.getContent(), 'utf8');
+    },
+    done: function () {
+        this.emit('done'); //everything already done
+    }
+});
+
+function AsyncFileWriter() {
+    this.queue = async.queue(this.processFile.bind(this), 20);
+    this.openFileMap = {};
+}
+
+util.inherits(AsyncFileWriter, Writer);
+
+extend(AsyncFileWriter, {
+    writeFile: function (file, callback) {
+        this.openFileMap[file] = true;
+        this.queue.push({ file: file, callback: callback });
+    },
+    processFile: function (task, cb) {
+        var file = task.file,
+            userCallback = task.callback,
+            that = this,
+            stream,
+            contentWriter;
+
+        mkdirp.sync(path.dirname(file));
+        stream = fs.createWriteStream(file);
+        stream.on('close', function () {
+            delete that.openFileMap[file];
+            cb();
+            that.checkDone();
+        });
+        stream.on('error', function (err) { that.emit('error', err); });
+        contentWriter = new StreamContentWriter(stream);
+        userCallback(contentWriter);
+        stream.end();
+    },
+    done: function () {
+        this.doneCalled = true;
+        this.checkDone();
+    },
+    checkDone: function () {
+        if (!this.doneCalled) { return; }
+        if (Object.keys(this.openFileMap).length === 0) {
+            this.emit('done');
+        }
+    }
+});
+/**
+ * a concrete writer implementation that can write files synchronously or
+ * asynchronously based on the constructor argument passed to it.
+ *
+ * Usage
+ * -----
+ *
+ *      var sync = true,
+ *          fileWriter = new require('istanbul').FileWriter(sync);
+ *
+ *      fileWriter.on('done', function () { console.log('done'); });
+ *      fileWriter.copyFile('/foo/bar.jpg', '/baz/bar.jpg');
+ *      fileWriter.writeFile('/foo/index.html', function (contentWriter) {
+ *          contentWriter.println('<html>');
+ *          contentWriter.println('</html>');
+ *      });
+ *      fileWriter.done(); // will emit the `done` event when all files are written
+ *
+ * @class FileWriter
+ * @extends Writer
+ * @module io
+ * @param sync
+ * @constructor
+ */
+function FileWriter(sync) {
+    Writer.call(this);
+    var that = this;
+    this.delegate = sync ? new SyncFileWriter() : new AsyncFileWriter();
+    this.delegate.on('error', function (err) { that.emit('error', err); });
+    this.delegate.on('done', function () { that.emit('done'); });
+}
+
+util.inherits(FileWriter, Writer);
+
+extend(FileWriter, {
+    copyFile: function (source, dest) {
+        mkdirp.sync(path.dirname(dest));
+        fs.writeFileSync(dest, fs.readFileSync(source));
+    },
+    writeFile: function (file, callback) {
+        this.delegate.writeFile(file, callback);
+    },
+    done: function () {
+        this.delegate.done();
+    }
+});
+
+module.exports = FileWriter;

static/js/ketcher2/node_modules/istanbul/lib/util/help-formatter.js

@@ -0,0 +1,30 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var OPT_PREFIX = "      ",
+    OPT_START = OPT_PREFIX.length,
+    TEXT_START = 14,
+    STOP = 80,
+    wrap = require('wordwrap')(TEXT_START, STOP),
+    paraWrap = require('wordwrap')(1, STOP);
+
+function formatPara(text) {
+    return paraWrap(text);
+}
+
+function formatOption(option, helpText) {
+    var formattedText = wrap(helpText);
+
+    if (option.length > TEXT_START - OPT_START - 2) {
+        return OPT_PREFIX + option + '\n' + formattedText;
+    } else {
+        return OPT_PREFIX + option + formattedText.substring((OPT_PREFIX + option).length);
+    }
+}
+
+module.exports = {
+    formatPara: formatPara,
+    formatOption: formatOption
+};

static/js/ketcher2/node_modules/istanbul/lib/util/input-error.js

@@ -0,0 +1,12 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+module.exports.create = function (message) {
+    var err = new Error(message);
+    err.inputError = true;
+    return err;
+};
+
+

static/js/ketcher2/node_modules/istanbul/lib/util/insertion-text.js

@@ -0,0 +1,109 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+function InsertionText(text, consumeBlanks) {
+    this.text = text;
+    this.origLength = text.length;
+    this.offsets = [];
+    this.consumeBlanks = consumeBlanks;
+    this.startPos = this.findFirstNonBlank();
+    this.endPos = this.findLastNonBlank();
+}
+
+var WHITE_RE = /[ \f\n\r\t\v\u00A0\u2028\u2029]/;
+
+InsertionText.prototype = {
+
+    findFirstNonBlank: function () {
+        var pos = -1,
+            text = this.text,
+            len = text.length,
+            i;
+        for (i = 0; i < len; i += 1) {
+            if (!text.charAt(i).match(WHITE_RE)) {
+                pos = i;
+                break;
+            }
+        }
+        return pos;
+    },
+    findLastNonBlank: function () {
+        var text = this.text,
+            len = text.length,
+            pos = text.length + 1,
+            i;
+        for (i = len - 1; i >= 0; i -= 1) {
+            if (!text.charAt(i).match(WHITE_RE)) {
+                pos = i;
+                break;
+            }
+        }
+        return pos;
+    },
+    originalLength: function () {
+        return this.origLength;
+    },
+
+    insertAt: function (col, str, insertBefore, consumeBlanks) {
+        consumeBlanks = typeof consumeBlanks === 'undefined' ? this.consumeBlanks : consumeBlanks;
+        col = col > this.originalLength() ? this.originalLength() : col;
+        col = col < 0 ? 0 : col;
+
+        if (consumeBlanks) {
+            if (col <= this.startPos) {
+                col = 0;
+            }
+            if (col > this.endPos) {
+                col = this.origLength;
+            }
+        }
+
+        var len = str.length,
+            offset = this.findOffset(col, len, insertBefore),
+            realPos = col + offset,
+            text = this.text;
+        this.text = text.substring(0, realPos) + str + text.substring(realPos);
+        return this;
+    },
+
+    findOffset: function (pos, len, insertBefore) {
+        var offsets = this.offsets,
+            offsetObj,
+            cumulativeOffset = 0,
+            i;
+
+        for (i = 0; i < offsets.length; i += 1) {
+            offsetObj = offsets[i];
+            if (offsetObj.pos < pos || (offsetObj.pos === pos && !insertBefore)) {
+                cumulativeOffset += offsetObj.len;
+            }
+            if (offsetObj.pos >= pos) {
+                break;
+            }
+        }
+        if (offsetObj && offsetObj.pos === pos) {
+            offsetObj.len += len;
+        } else {
+            offsets.splice(i, 0, { pos: pos, len: len });
+        }
+        return cumulativeOffset;
+    },
+
+    wrap: function (startPos, startText, endPos, endText, consumeBlanks) {
+        this.insertAt(startPos, startText, true, consumeBlanks);
+        this.insertAt(endPos, endText, false, consumeBlanks);
+        return this;
+    },
+
+    wrapLine: function (startText, endText) {
+        this.wrap(0, startText, this.originalLength(), endText);
+    },
+
+    toString: function () {
+        return this.text;
+    }
+};
+
+module.exports = InsertionText;

static/js/ketcher2/node_modules/istanbul/lib/util/meta.js

@@ -0,0 +1,13 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+var path = require('path'),
+    fs = require('fs'),
+    pkg = JSON.parse(fs.readFileSync(path.resolve(__dirname, '..', '..', 'package.json'), 'utf8'));
+
+module.exports = {
+    NAME: pkg.name,
+    VERSION: pkg.version
+};
+

static/js/ketcher2/node_modules/istanbul/lib/util/tree-summarizer.js

@@ -0,0 +1,213 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var path = require('path'),
+    SEP = path.sep || '/',
+    utils = require('../object-utils');
+
+function commonArrayPrefix(first, second) {
+    var len = first.length < second.length ? first.length : second.length,
+        i,
+        ret = [];
+    for (i = 0; i < len; i += 1) {
+        if (first[i] === second[i]) {
+            ret.push(first[i]);
+        } else {
+            break;
+        }
+    }
+    return ret;
+}
+
+function findCommonArrayPrefix(args) {
+    if (args.length === 0) {
+        return [];
+    }
+
+    var separated = args.map(function (arg) { return arg.split(SEP); }),
+        ret = separated.pop();
+
+    if (separated.length === 0) {
+        return ret.slice(0, ret.length - 1);
+    } else {
+        return separated.reduce(commonArrayPrefix, ret);
+    }
+}
+
+function Node(fullName, kind, metrics) {
+    this.name = fullName;
+    this.fullName = fullName;
+    this.kind = kind;
+    this.metrics = metrics || null;
+    this.parent = null;
+    this.children = [];
+}
+
+Node.prototype = {
+    displayShortName: function () {
+        return this.relativeName;
+    },
+    fullPath: function () {
+        return this.fullName;
+    },
+    addChild: function (child) {
+        this.children.push(child);
+        child.parent = this;
+    },
+    toJSON: function () {
+        return {
+            name: this.name,
+            relativeName: this.relativeName,
+            fullName: this.fullName,
+            kind: this.kind,
+            metrics: this.metrics,
+            parent: this.parent === null ? null : this.parent.name,
+            children: this.children.map(function (node) { return node.toJSON(); })
+        };
+    }
+};
+
+function TreeSummary(summaryMap, commonPrefix) {
+    this.prefix = commonPrefix;
+    this.convertToTree(summaryMap, commonPrefix);
+}
+
+TreeSummary.prototype = {
+    getNode: function (shortName) {
+        return this.map[shortName];
+    },
+    convertToTree: function (summaryMap, arrayPrefix) {
+        var nodes = [],
+            rootPath = arrayPrefix.join(SEP) + SEP,
+            root = new Node(rootPath, 'dir'),
+            tmp,
+            tmpChildren,
+            seen = {},
+            filesUnderRoot = false;
+
+        seen[rootPath] = root;
+        Object.keys(summaryMap).forEach(function (key) {
+            var metrics = summaryMap[key],
+                node,
+                parentPath,
+                parent;
+            node = new Node(key, 'file', metrics);
+            seen[key] = node;
+            nodes.push(node);
+            parentPath = path.dirname(key) + SEP;
+            if (parentPath === SEP + SEP || parentPath === '.' + SEP) {
+                parentPath = SEP + '__root__' + SEP;
+            }
+            parent = seen[parentPath];
+            if (!parent) {
+                parent = new Node(parentPath, 'dir');
+                root.addChild(parent);
+                seen[parentPath] = parent;
+            }
+            parent.addChild(node);
+            if (parent === root) { filesUnderRoot = true; }
+        });
+
+        if (filesUnderRoot && arrayPrefix.length > 0) {
+            arrayPrefix.pop(); //start at one level above
+            tmp = root;
+            tmpChildren = tmp.children;
+            tmp.children = [];
+            root = new Node(arrayPrefix.join(SEP) + SEP, 'dir');
+            root.addChild(tmp);
+            tmpChildren.forEach(function (child) {
+                if (child.kind === 'dir') {
+                    root.addChild(child);
+                } else {
+                    tmp.addChild(child);
+                }
+            });
+        }
+        this.fixupNodes(root, arrayPrefix.join(SEP) + SEP);
+        this.calculateMetrics(root);
+        this.root = root;
+        this.map = {};
+        this.indexAndSortTree(root, this.map);
+    },
+
+    fixupNodes: function (node, prefix, parent) {
+        var that = this;
+        if (node.name.indexOf(prefix) === 0) {
+            node.name = node.name.substring(prefix.length);
+        }
+        if (node.name.charAt(0) === SEP) {
+            node.name = node.name.substring(1);
+        }
+        if (parent) {
+            if (parent.name !== '__root__' + SEP) {
+                node.relativeName = node.name.substring(parent.name.length);
+            } else {
+                node.relativeName = node.name;
+            }
+        } else {
+            node.relativeName = node.name.substring(prefix.length);
+        }
+        node.children.forEach(function (child) {
+            that.fixupNodes(child, prefix, node);
+        });
+    },
+    calculateMetrics: function (entry) {
+        var that = this,
+            fileChildren;
+        if (entry.kind !== 'dir') {return; }
+        entry.children.forEach(function (child) {
+            that.calculateMetrics(child);
+        });
+        entry.metrics = utils.mergeSummaryObjects.apply(
+            null,
+            entry.children.map(function (child) { return child.metrics; })
+        );
+        // calclulate "java-style" package metrics where there is no hierarchy
+        // across packages
+        fileChildren = entry.children.filter(function (n) { return n.kind !== 'dir'; });
+        if (fileChildren.length > 0) {
+            entry.packageMetrics = utils.mergeSummaryObjects.apply(
+                null,
+                fileChildren.map(function (child) { return child.metrics; })
+            );
+        } else {
+            entry.packageMetrics = null;
+        }
+    },
+    indexAndSortTree: function (node, map) {
+        var that = this;
+        map[node.name] = node;
+        node.children.sort(function (a, b) {
+            a = a.relativeName;
+            b = b.relativeName;
+            return a < b ? -1 : a > b ? 1 : 0;
+        });
+        node.children.forEach(function (child) {
+            that.indexAndSortTree(child, map);
+        });
+    },
+    toJSON: function () {
+        return {
+            prefix: this.prefix,
+            root: this.root.toJSON()
+        };
+    }
+};
+
+function TreeSummarizer() {
+    this.summaryMap = {};
+}
+
+TreeSummarizer.prototype = {
+    addFileCoverageSummary: function (filePath, metrics) {
+        this.summaryMap[filePath] = metrics;
+    },
+    getTreeSummary: function () {
+        var commonArrayPrefix = findCommonArrayPrefix(Object.keys(this.summaryMap));
+        return new TreeSummary(this.summaryMap, commonArrayPrefix);
+    }
+};
+
+module.exports = TreeSummarizer;

static/js/ketcher2/node_modules/istanbul/lib/util/writer.js

@@ -0,0 +1,92 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+var util = require('util'),
+    EventEmitter = require('events').EventEmitter;
+
+function extend(cons, proto) {
+    Object.keys(proto).forEach(function (k) {
+        cons.prototype[k] = proto[k];
+    });
+}
+
+/**
+ * abstract interfaces for writing content
+ * @class ContentWriter
+ * @module io
+ * @main io
+ * @constructor
+ */
+//abstract interface for writing content
+function ContentWriter() {
+}
+
+ContentWriter.prototype = {
+    /**
+     * writes the specified string as-is
+     * @method write
+     * @param {String} str the string to write
+     */
+    write: /* istanbul ignore next: abstract method */ function (/* str */) {
+        throw new Error('write: must be overridden');
+    },
+    /**
+     * writes the specified string with a newline at the end
+     * @method println
+     * @param {String} str the string to write
+     */
+    println: function (str) { this.write(str + '\n'); }
+};
+
+/**
+ * abstract interface for writing files and assets. The caller is expected to
+ * call `done` on the writer after it has finished writing all the required
+ * files. The writer is an event-emitter that emits a `done` event when `done`
+ * is called on it *and* all files have successfully been written.
+ *
+ * @class Writer
+ * @constructor
+ */
+function Writer() {
+    EventEmitter.call(this);
+}
+
+util.inherits(Writer, EventEmitter);
+
+extend(Writer, {
+    /**
+     * allows writing content to a file using a callback that is passed a content writer
+     * @method writeFile
+     * @param {String} file the name of the file to write
+     * @param {Function} callback the callback that is called as `callback(contentWriter)`
+     */
+    writeFile: /* istanbul ignore next: abstract method */ function (/* file, callback */) {
+        throw new Error('writeFile: must be overridden');
+    },
+    /**
+     * copies a file from source to destination
+     * @method copyFile
+     * @param {String} source the file to copy, found on the file system
+     * @param {String} dest the destination path
+     */
+    copyFile: /* istanbul ignore next: abstract method */ function (/* source, dest */) {
+        throw new Error('copyFile: must be overridden');
+    },
+    /**
+     * marker method to indicate that the caller is done with this writer object
+     * The writer is expected to emit a `done` event only after this method is called
+     * and it is truly done.
+     * @method done
+     */
+    done: /* istanbul ignore next: abstract method */ function () {
+        throw new Error('done: must be overridden');
+    }
+});
+
+module.exports = {
+    Writer: Writer,
+    ContentWriter: ContentWriter
+};
+

static/js/ketcher2/node_modules/istanbul/lib/util/yui-load-hook.js

@@ -0,0 +1,49 @@
+/*
+ Copyright (c) 2012, Yahoo! Inc.  All rights reserved.
+ Copyrights licensed under the New BSD License. See the accompanying LICENSE file for terms.
+ */
+
+//EXPERIMENTAL code: do not rely on this in anyway until the docs say it is allowed
+
+var path = require('path'),
+    yuiRegexp = /yui-nodejs\.js$/;
+
+module.exports = function (matchFn, transformFn, verbose) {
+    return function (file) {
+        if (!file.match(yuiRegexp)) {
+            return;
+        }
+        var YMain = require(file),
+            YUI,
+            loaderFn,
+            origGet;
+
+        if (YMain.YUI) {
+            YUI = YMain.YUI;
+            loaderFn = YUI.Env && YUI.Env.mods && YUI.Env.mods['loader-base'] ? YUI.Env.mods['loader-base'].fn : null;
+            if (!loaderFn) { return; }
+            if (verbose) { console.log('Applying YUI load post-hook'); }
+            YUI.Env.mods['loader-base'].fn = function (Y) {
+                loaderFn.call(null, Y);
+                origGet = Y.Get._exec;
+                Y.Get._exec = function (data, url, cb) {
+                    if (matchFn(url) || matchFn(path.resolve(url))) { //allow for relative paths as well
+                        if (verbose) {
+                            console.log('Transforming [' + url + ']');
+                        }
+                        try {
+                            data = transformFn(data, url);
+                        } catch (ex) {
+                            console.error('Error transforming: ' + url + ' return original code');
+                            console.error(ex.message || ex);
+                            if (ex.stack) { console.error(ex.stack); }
+                        }
+                    }
+                    return origGet.call(Y, data, url, cb);
+                };
+                return Y;
+            };
+        }
+    };
+};
+