sequenceserver 2.0.0.rc8 → 2.1.0
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- checksums.yaml +4 -4
- data/bin/sequenceserver +22 -30
- data/lib/sequenceserver/api_errors.rb +29 -3
- data/lib/sequenceserver/blast/constants.rb +1 -1
- data/lib/sequenceserver/blast/hit.rb +5 -16
- data/lib/sequenceserver/blast/job.rb +49 -24
- data/lib/sequenceserver/blast/report.rb +38 -30
- data/lib/sequenceserver/config.rb +52 -27
- data/lib/sequenceserver/database.rb +69 -9
- data/lib/sequenceserver/job.rb +14 -4
- data/lib/sequenceserver/job_remover.rb +25 -29
- data/lib/sequenceserver/makeblastdb.rb +40 -45
- data/lib/sequenceserver/refinements.rb +15 -0
- data/lib/sequenceserver/routes.rb +70 -4
- data/lib/sequenceserver/sequence.rb +8 -7
- data/lib/sequenceserver/sys.rb +2 -2
- data/lib/sequenceserver/version.rb +1 -1
- data/lib/sequenceserver/zip_file_generator.rb +56 -0
- data/lib/sequenceserver.rb +16 -11
- data/public/config.js +62 -55
- data/public/css/fonts.css +23 -22
- data/public/css/grapher.css +598 -594
- data/public/css/sequenceserver.css +130 -27
- data/public/css/sequenceserver.min.css +3 -3
- data/public/js/alignment_exporter.js +30 -22
- data/public/js/circos.js +370 -234
- data/public/js/cloud_share_modal.js +216 -0
- data/public/js/databases.js +144 -0
- data/public/js/databases_tree.js +144 -0
- data/public/js/dnd.js +164 -0
- data/public/js/download_fasta.js +1 -1
- data/public/js/error_modal.js +4 -11
- data/public/js/exporter.js +7 -3
- data/public/js/form.js +260 -0
- data/public/js/grapher.js +113 -106
- data/public/js/hit.js +84 -67
- data/public/js/hits_overview.js +3 -3
- data/public/js/hsp.js +343 -288
- data/public/js/jquery_world.js +4 -4
- data/public/js/length_distribution.js +5 -5
- data/public/js/mailto.js +36 -0
- data/public/js/options.js +84 -0
- data/public/js/query.js +321 -64
- data/public/js/report.js +322 -288
- data/public/js/report_root.js +75 -0
- data/public/js/search.js +28 -992
- data/public/js/search_button.js +195 -0
- data/public/js/sequence.js +2409 -2411
- data/public/js/sequence_modal.js +152 -159
- data/public/js/share_url.js +23 -0
- data/public/js/sidebar.js +265 -86
- data/public/js/svgExporter.js +12 -12
- data/public/js/tests/database.spec.js +60 -0
- data/public/js/tests/mock_data/databases.json +91 -0
- data/public/js/tests/mock_data/long_response.json +269 -0
- data/public/js/tests/mock_data/short_response.json +2240 -0
- data/public/js/tests/report.spec.js +99 -0
- data/public/js/tests/search_button.spec.js +14 -0
- data/public/js/tests/search_query.spec.js +41 -0
- data/public/js/visualisation_helpers.js +4 -5
- data/public/packages/circosJS@1.7.0.js +1640 -0
- data/public/packages/jquery-ui@1.11.4.js +16624 -0
- data/public/sequenceserver-report.min.js +2425 -19
- data/public/sequenceserver-search.min.js +2337 -11
- data/public/vendor/github/jspm/nodelibs-assert@0.1.0/index.js +2 -0
- data/public/vendor/github/jspm/{nodelibs-buffer@0.1.0 → nodelibs-assert@0.1.0}/package.json +1 -1
- data/public/vendor/github/jspm/nodelibs-assert@0.1.0.js +1 -0
- data/public/vendor/github/jspm/nodelibs-buffer@0.1.1/package.json +6 -0
- data/public/vendor/github/jspm/nodelibs-buffer@0.1.1.js +1 -0
- data/public/vendor/github/jspm/{nodelibs-process@0.1.1 → nodelibs-process@0.1.2}/package.json +2 -2
- data/public/vendor/github/jspm/nodelibs-process@0.1.2.js +1 -0
- data/public/vendor/github/jspm/nodelibs-vm@0.1.0/index.js +2 -0
- data/public/vendor/github/jspm/nodelibs-vm@0.1.0/package.json +6 -0
- data/public/vendor/github/jspm/nodelibs-vm@0.1.0.js +1 -0
- data/public/vendor/github/vakata/jstree@3.3.8/LICENSE-MIT +22 -0
- data/public/vendor/github/vakata/jstree@3.3.8/README.md +663 -0
- data/public/vendor/github/vakata/jstree@3.3.8/bower.json +33 -0
- data/public/vendor/github/vakata/jstree@3.3.8/component.json +28 -0
- data/public/vendor/github/vakata/jstree@3.3.8/composer.json +46 -0
- data/public/vendor/github/vakata/jstree@3.3.8/demo/README.md +2 -0
- data/public/vendor/github/vakata/jstree@3.3.8/demo/basic/index.html +146 -0
- data/public/vendor/github/vakata/jstree@3.3.8/demo/basic/root.json +1 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/jstree.js +8612 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/jstree.min.js +6 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default/32px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default/40px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default/style.css +1102 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default/style.min.css +1 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default/throbber.gif +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default-dark/32px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default-dark/40px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default-dark/style.css +1146 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default-dark/style.min.css +1 -0
- data/public/vendor/github/vakata/jstree@3.3.8/dist/themes/default-dark/throbber.gif +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/gruntfile.js +242 -0
- data/public/vendor/github/vakata/jstree@3.3.8/jstree.jquery.json +28 -0
- data/public/vendor/github/vakata/jstree@3.3.8/package.json +58 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/intro.js +14 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.changed.js +69 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.checkbox.js +976 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.conditionalselect.js +38 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.contextmenu.js +661 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.dnd.js +669 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.js +4931 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.massload.js +137 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.search.js +421 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.sort.js +74 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.state.js +138 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.types.js +372 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.unique.js +164 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/jstree.wholerow.js +122 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/misc.js +656 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/outro.js +1 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/sample.js +93 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/base.less +93 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default/32px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default/40px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default/style.css +1102 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default/style.less +22 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default/throbber.gif +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default-dark/32px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default-dark/40px.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default-dark/style.css +1146 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default-dark/style.less +50 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/default-dark/throbber.gif +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/main.less +77 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/mixins.less +104 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/themes/responsive.less +67 -0
- data/public/vendor/github/vakata/jstree@3.3.8/src/vakata-jstree.js +38 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/unit/index.html +16 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/unit/libs/qunit.css +244 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/unit/libs/qunit.js +2212 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/unit/test.js +11 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/visual/desktop/index.html +44 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/visual/mobile/index.html +42 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/visual/screenshots/desktop/desktop.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/visual/screenshots/desktop/home.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/visual/screenshots/mobile/home.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8/test/visual/screenshots/mobile/mobile.png +0 -0
- data/public/vendor/github/vakata/jstree@3.3.8.js +3 -0
- data/public/vendor/npm/assert@1.5.0/CHANGELOG.md +8 -0
- data/public/vendor/npm/assert@1.5.0/README.md +105 -0
- data/public/vendor/npm/assert@1.5.0/assert.js +327 -0
- data/public/vendor/npm/assert@1.5.0/package.json +32 -0
- data/public/vendor/npm/assert@1.5.0/test.js +288 -0
- data/public/vendor/npm/assert@1.5.0.js +1 -0
- data/public/vendor/npm/{base64-js@0.0.8/LICENSE.MIT → base64-js@1.5.1/LICENSE} +1 -1
- data/public/vendor/npm/{base64-js@0.0.8 → base64-js@1.5.1}/README.md +10 -7
- data/public/vendor/npm/base64-js@1.5.1/base64js.min.js +3 -0
- data/public/vendor/npm/base64-js@1.5.1/index.d.ts +3 -0
- data/public/vendor/npm/base64-js@1.5.1/index.js +151 -0
- data/public/vendor/npm/base64-js@1.5.1/package.json +47 -0
- data/public/vendor/npm/base64-js@1.5.1.js +1 -0
- data/public/vendor/npm/buffer@5.7.1/AUTHORS.md +70 -0
- data/public/vendor/npm/{buffer@3.4.3 → buffer@5.7.1}/README.md +111 -41
- data/public/vendor/npm/buffer@5.7.1/index.d.ts +186 -0
- data/public/vendor/npm/buffer@5.7.1/index.js +1817 -0
- data/public/vendor/npm/buffer@5.7.1/package.json +96 -0
- data/public/vendor/npm/buffer@5.7.1.js +1 -0
- data/public/vendor/npm/core-util-is@1.0.3/LICENSE +19 -0
- data/public/vendor/npm/core-util-is@1.0.3/lib/util.js +64 -0
- data/public/vendor/npm/{core-util-is@1.0.1 → core-util-is@1.0.3}/package.json +13 -1
- data/public/vendor/npm/core-util-is@1.0.3.js +1 -0
- data/public/vendor/npm/events@1.0.2/tests/add-listeners.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/check-listener-leaks.js +3 -3
- data/public/vendor/npm/events@1.0.2/tests/common.js +1 -1
- data/public/vendor/npm/events@1.0.2/tests/index.js +13 -13
- data/public/vendor/npm/events@1.0.2/tests/listeners-side-effects.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/listeners.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/max-listeners.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/modify-in-emit.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/num-args.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/once.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/remove-all-listeners.js +3 -3
- data/public/vendor/npm/events@1.0.2/tests/remove-listeners.js +3 -3
- data/public/vendor/npm/events@1.0.2/tests/set-max-listeners-side-effects.js +2 -2
- data/public/vendor/npm/events@1.0.2/tests/subclass.js +3 -3
- data/public/vendor/npm/events@1.0.2.js +1 -1
- data/public/vendor/npm/ieee754@1.2.1/LICENSE +11 -0
- data/public/vendor/npm/{ieee754@1.1.6 → ieee754@1.2.1}/README.md +12 -8
- data/public/vendor/npm/ieee754@1.2.1/index.d.ts +10 -0
- data/public/vendor/npm/{ieee754@1.1.6 → ieee754@1.2.1}/index.js +6 -6
- data/public/vendor/npm/ieee754@1.2.1/package.json +52 -0
- data/public/vendor/npm/ieee754@1.2.1.js +1 -0
- data/public/vendor/npm/{is-array@1.0.1 → indexof@0.0.1}/Makefile +3 -3
- data/public/vendor/npm/indexof@0.0.1/Readme.md +15 -0
- data/public/vendor/npm/indexof@0.0.1/component.json +10 -0
- data/public/vendor/npm/indexof@0.0.1/index.js +11 -0
- data/public/vendor/npm/indexof@0.0.1/package.json +12 -0
- data/public/vendor/npm/indexof@0.0.1.js +1 -0
- data/public/vendor/npm/inherits@2.0.1/inherits.js +1 -1
- data/public/vendor/npm/inherits@2.0.1.js +1 -1
- data/public/vendor/npm/isarray@0.0.1.js +1 -1
- data/public/vendor/npm/js-tokens@4.0.0/index.js +23 -0
- data/public/vendor/npm/js-tokens@4.0.0/package.json +30 -0
- data/public/vendor/npm/js-tokens@4.0.0.js +1 -0
- data/public/vendor/npm/loose-envify@1.4.0/LICENSE +21 -0
- data/public/vendor/npm/loose-envify@1.4.0/README.md +45 -0
- data/public/vendor/npm/loose-envify@1.4.0/cli.js +12 -0
- data/public/vendor/npm/loose-envify@1.4.0/custom.js +3 -0
- data/public/vendor/npm/loose-envify@1.4.0/index.js +5 -0
- data/public/vendor/npm/loose-envify@1.4.0/loose-envify.js +33 -0
- data/public/vendor/npm/loose-envify@1.4.0/package.json +36 -0
- data/public/vendor/npm/loose-envify@1.4.0/replace.js +52 -0
- data/public/vendor/npm/loose-envify@1.4.0.js +1 -0
- data/public/vendor/npm/object-assign@4.1.1/index.js +90 -0
- data/public/vendor/npm/object-assign@4.1.1/package.json +42 -0
- data/public/vendor/npm/object-assign@4.1.1.js +1 -0
- data/public/vendor/npm/path-browserify@0.0.0/index.js +1 -1
- data/public/vendor/npm/path-browserify@0.0.0.js +1 -1
- data/public/vendor/npm/{process@0.10.1 → process@0.11.10}/README.md +4 -1
- data/public/vendor/npm/process@0.11.10/browser.js +184 -0
- data/public/vendor/npm/{process@0.10.1 → process@0.11.10}/package.json +10 -1
- data/public/vendor/npm/process@0.11.10/test.js +185 -0
- data/public/vendor/npm/process@0.11.10.js +1 -0
- data/public/vendor/npm/react-dom@18.0.0/LICENSE +21 -0
- data/public/vendor/npm/react-dom@18.0.0/README.md +50 -0
- data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server-legacy.browser.development.js +4771 -0
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+
};
|
29
|
+
$.jstree.plugins.mapper = function () {
|
30
|
+
this._parse_model_from_json = function (d, p, ps) {
|
31
|
+
// d is the node from the server, it will be called recursively for children,
|
32
|
+
// so you do not need to process at once
|
33
|
+
/* // for example
|
34
|
+
for(var i in d) {
|
35
|
+
if(d.hasOwnProperty(i)) {
|
36
|
+
d[i.toLowerCase()] = d[i];
|
37
|
+
}
|
38
|
+
}
|
39
|
+
*/
|
40
|
+
return parent._parse_model_from_json.call(this, d, p, ps);
|
41
|
+
};
|
42
|
+
};
|
43
|
+
})(jQuery);
|
44
|
+
|
45
|
+
// no hover
|
46
|
+
(function ($, undefined) {
|
47
|
+
"use strict";
|
48
|
+
$.jstree.plugins.nohover = function () {
|
49
|
+
this.hover_node = $.noop;
|
50
|
+
};
|
51
|
+
})(jQuery);
|
52
|
+
|
53
|
+
// force multiple select
|
54
|
+
(function ($, undefined) {
|
55
|
+
"use strict";
|
56
|
+
$.jstree.defaults.multiselect = {};
|
57
|
+
$.jstree.plugins.multiselect = function (options, parent) {
|
58
|
+
this.activate_node = function (obj, e) {
|
59
|
+
e.ctrlKey = true;
|
60
|
+
parent.activate_node.call(this, obj, e);
|
61
|
+
};
|
62
|
+
};
|
63
|
+
})(jQuery);
|
64
|
+
|
65
|
+
// real checkboxes
|
66
|
+
(function ($, undefined) {
|
67
|
+
"use strict";
|
68
|
+
|
69
|
+
var inp = document.createElement("INPUT");
|
70
|
+
inp.type = "checkbox";
|
71
|
+
inp.className = "jstree-checkbox jstree-realcheckbox";
|
72
|
+
|
73
|
+
$.jstree.defaults.realcheckboxes = {};
|
74
|
+
|
75
|
+
$.jstree.plugins.realcheckboxes = function (options, parent) {
|
76
|
+
this.bind = function () {
|
77
|
+
parent.bind.call(this);
|
78
|
+
this._data.realcheckboxes.uto = false;
|
79
|
+
this.element
|
80
|
+
.on('changed.jstree uncheck_node.jstree check_node.jstree uncheck_all.jstree check_all.jstree move_node.jstree copy_node.jstree redraw.jstree open_node.jstree ready.jstree loaded.jstree', $.proxy(function () {
|
81
|
+
// only if undetermined is in setting
|
82
|
+
if(this._data.realcheckboxes.uto) { clearTimeout(this._data.realcheckboxes.uto); }
|
83
|
+
this._data.realcheckboxes.uto = setTimeout($.proxy(this._realcheckboxes, this), 50);
|
84
|
+
}, this));
|
85
|
+
};
|
86
|
+
this.redraw_node = function(obj, deep, callback, force_draw) {
|
87
|
+
obj = parent.redraw_node.call(this, obj, deep, callback, force_draw);
|
88
|
+
if(obj) {
|
89
|
+
var i, j, tmp = null, chk = inp.cloneNode(true);
|
90
|
+
for(i = 0, j = obj.childNodes.length; i < j; i++) {
|
91
|
+
if(obj.childNodes[i] && obj.childNodes[i].className && obj.childNodes[i].className.indexOf("jstree-anchor") !== -1) {
|
92
|
+
tmp = obj.childNodes[i];
|
93
|
+
break;
|
94
|
+
}
|
95
|
+
}
|
96
|
+
if(tmp) {
|
97
|
+
for(i = 0, j = tmp.childNodes.length; i < j; i++) {
|
98
|
+
if(tmp.childNodes[i] && tmp.childNodes[i].className && tmp.childNodes[i].className.indexOf("jstree-checkbox") !== -1) {
|
99
|
+
tmp = tmp.childNodes[i];
|
100
|
+
break;
|
101
|
+
}
|
102
|
+
}
|
103
|
+
}
|
104
|
+
if(tmp && tmp.tagName === "I") {
|
105
|
+
tmp.style.backgroundColor = "transparent";
|
106
|
+
tmp.style.backgroundImage = "none";
|
107
|
+
tmp.appendChild(chk);
|
108
|
+
}
|
109
|
+
}
|
110
|
+
return obj;
|
111
|
+
};
|
112
|
+
this._realcheckboxes = function () {
|
113
|
+
var ts = this.settings.checkbox.tie_selection;
|
114
|
+
console.log(ts);
|
115
|
+
$('.jstree-realcheckbox').each(function () {
|
116
|
+
this.checked = (!ts && this.parentNode.parentNode.className.indexOf("jstree-checked") !== -1) || (ts && this.parentNode.parentNode.className.indexOf('jstree-clicked') !== -1);
|
117
|
+
this.indeterminate = this.parentNode.className.indexOf("jstree-undetermined") !== -1;
|
118
|
+
this.disabled = this.parentNode.parentNode.className.indexOf("disabled") !== -1;
|
119
|
+
});
|
120
|
+
};
|
121
|
+
};
|
122
|
+
})(jQuery);
|
123
|
+
|
124
|
+
// no state
|
125
|
+
(function ($, undefined) {
|
126
|
+
"use strict";
|
127
|
+
$.jstree.plugins.nostate = function () {
|
128
|
+
this.set_state = function (state, callback) {
|
129
|
+
if(callback) { callback.call(this); }
|
130
|
+
this.trigger('set_state');
|
131
|
+
};
|
132
|
+
};
|
133
|
+
})(jQuery);
|
134
|
+
|
135
|
+
// no selected in state
|
136
|
+
(function ($, undefined) {
|
137
|
+
"use strict";
|
138
|
+
$.jstree.plugins.noselectedstate = function (options, parent) {
|
139
|
+
this.get_state = function () {
|
140
|
+
var state = parent.get_state.call(this);
|
141
|
+
delete state.core.selected;
|
142
|
+
return state;
|
143
|
+
};
|
144
|
+
};
|
145
|
+
})(jQuery);
|
146
|
+
|
147
|
+
// additional icon on node (outside of anchor)
|
148
|
+
(function ($, undefined) {
|
149
|
+
"use strict";
|
150
|
+
var img = document.createElement('IMG');
|
151
|
+
//img.src = "http://www.dpcd.vic.gov.au/__data/assets/image/0004/30667/help.gif";
|
152
|
+
img.className = "jstree-questionmark";
|
153
|
+
|
154
|
+
$.jstree.defaults.questionmark = $.noop;
|
155
|
+
$.jstree.plugins.questionmark = function (options, parent) {
|
156
|
+
this.bind = function () {
|
157
|
+
parent.bind.call(this);
|
158
|
+
this.element
|
159
|
+
.on("click.jstree", ".jstree-questionmark", $.proxy(function (e) {
|
160
|
+
e.stopImmediatePropagation();
|
161
|
+
this.settings.questionmark.call(this, this.get_node(e.target));
|
162
|
+
}, this));
|
163
|
+
};
|
164
|
+
this.teardown = function () {
|
165
|
+
if(this.settings.questionmark) {
|
166
|
+
this.element.find(".jstree-questionmark").remove();
|
167
|
+
}
|
168
|
+
parent.teardown.call(this);
|
169
|
+
};
|
170
|
+
this.redraw_node = function(obj, deep, callback, force_draw) {
|
171
|
+
obj = parent.redraw_node.call(this, obj, deep, callback, force_draw);
|
172
|
+
if(obj) {
|
173
|
+
var tmp = img.cloneNode(true);
|
174
|
+
obj.insertBefore(tmp, obj.childNodes[2]);
|
175
|
+
}
|
176
|
+
return obj;
|
177
|
+
};
|
178
|
+
};
|
179
|
+
})(jQuery);
|
180
|
+
|
181
|
+
// auto numbering
|
182
|
+
(function ($, undefined) {
|
183
|
+
"use strict";
|
184
|
+
var span = document.createElement('SPAN');
|
185
|
+
span.className = "jstree-numbering";
|
186
|
+
|
187
|
+
$.jstree.defaults.numbering = {};
|
188
|
+
$.jstree.plugins.numbering = function (options, parent) {
|
189
|
+
this.teardown = function () {
|
190
|
+
if(this.settings.questionmark) {
|
191
|
+
this.element.find(".jstree-numbering").remove();
|
192
|
+
}
|
193
|
+
parent.teardown.call(this);
|
194
|
+
};
|
195
|
+
this.get_number = function (obj) {
|
196
|
+
obj = this.get_node(obj);
|
197
|
+
var ind = $.inArray(obj.id, this.get_node(obj.parent).children) + 1;
|
198
|
+
return obj.parent === '#' ? ind : this.get_number(obj.parent) + '.' + ind;
|
199
|
+
};
|
200
|
+
this.redraw_node = function(obj, deep, callback, force_draw) {
|
201
|
+
var i, j, tmp = null, elm = null, org = this.get_number(obj);
|
202
|
+
obj = parent.redraw_node.call(this, obj, deep, callback, force_draw);
|
203
|
+
if(obj) {
|
204
|
+
for(i = 0, j = obj.childNodes.length; i < j; i++) {
|
205
|
+
if(obj.childNodes[i] && obj.childNodes[i].className && obj.childNodes[i].className.indexOf("jstree-anchor") !== -1) {
|
206
|
+
tmp = obj.childNodes[i];
|
207
|
+
break;
|
208
|
+
}
|
209
|
+
}
|
210
|
+
if(tmp) {
|
211
|
+
elm = span.cloneNode(true);
|
212
|
+
elm.innerHTML = org + '. ';
|
213
|
+
tmp.insertBefore(elm, tmp.childNodes[tmp.childNodes.length - 1]);
|
214
|
+
}
|
215
|
+
}
|
216
|
+
return obj;
|
217
|
+
};
|
218
|
+
};
|
219
|
+
})(jQuery);
|
220
|
+
|
221
|
+
// additional icon on node (inside anchor)
|
222
|
+
(function ($, undefined) {
|
223
|
+
"use strict";
|
224
|
+
var _s = document.createElement('SPAN');
|
225
|
+
_s.className = 'fa-stack jstree-stackedicon';
|
226
|
+
var _i = document.createElement('I');
|
227
|
+
_i.className = 'jstree-icon';
|
228
|
+
_i.setAttribute('role', 'presentation');
|
229
|
+
|
230
|
+
$.jstree.plugins.stackedicon = function (options, parent) {
|
231
|
+
this.teardown = function () {
|
232
|
+
this.element.find(".jstree-stackedicon").remove();
|
233
|
+
parent.teardown.call(this);
|
234
|
+
};
|
235
|
+
this.redraw_node = function(obj, deep, is_callback, force_render) {
|
236
|
+
obj = parent.redraw_node.apply(this, arguments);
|
237
|
+
if(obj) {
|
238
|
+
var i, j, tmp = null, icon = null, temp = null;
|
239
|
+
for(i = 0, j = obj.childNodes.length; i < j; i++) {
|
240
|
+
if(obj.childNodes[i] && obj.childNodes[i].className && obj.childNodes[i].className.indexOf("jstree-anchor") !== -1) {
|
241
|
+
tmp = obj.childNodes[i];
|
242
|
+
break;
|
243
|
+
}
|
244
|
+
}
|
245
|
+
if(tmp) {
|
246
|
+
if(this._model.data[obj.id].state.icons && this._model.data[obj.id].state.icons.length) {
|
247
|
+
icon = _s.cloneNode(false);
|
248
|
+
for(i = 0, j = this._model.data[obj.id].state.icons.length; i < j; i++) {
|
249
|
+
temp = _i.cloneNode(false);
|
250
|
+
temp.className += ' ' + this._model.data[obj.id].state.icons[i];
|
251
|
+
icon.appendChild(temp);
|
252
|
+
}
|
253
|
+
tmp.insertBefore(icon, tmp.childNodes[0]);
|
254
|
+
}
|
255
|
+
}
|
256
|
+
}
|
257
|
+
return obj;
|
258
|
+
};
|
259
|
+
};
|
260
|
+
})(jQuery);
|
261
|
+
|
262
|
+
// selecting a node opens it
|
263
|
+
(function ($, undefined) {
|
264
|
+
"use strict";
|
265
|
+
$.jstree.plugins.selectopens = function (options, parent) {
|
266
|
+
this.bind = function () {
|
267
|
+
parent.bind.call(this);
|
268
|
+
this.element.on('select_node.jstree', function (e, data) { data.instance.open_node(data.node); });
|
269
|
+
};
|
270
|
+
};
|
271
|
+
})(jQuery);
|
272
|
+
|
273
|
+
// object as data
|
274
|
+
(function ($, undefined) {
|
275
|
+
"use strict";
|
276
|
+
$.jstree.defaults.datamodel = {};
|
277
|
+
$.jstree.plugins.datamodel = function (options, parent) {
|
278
|
+
this.init = function (el, options) {
|
279
|
+
this._data.datamodel = {};
|
280
|
+
parent.init.call(this, el, options);
|
281
|
+
};
|
282
|
+
this._datamodel = function (id, nodes, callback) {
|
283
|
+
var i = 0, j = nodes.length, tmp = [], obj = null;
|
284
|
+
for(; i < j; i++) {
|
285
|
+
this._data.datamodel[nodes[i].getID()] = nodes[i];
|
286
|
+
obj = {
|
287
|
+
id : nodes[i].getID(),
|
288
|
+
text : nodes[i].getText(),
|
289
|
+
children : nodes[i].hasChildren()
|
290
|
+
};
|
291
|
+
if(nodes[i].getExtra) {
|
292
|
+
obj = nodes[i].getExtra(obj); // icon, type
|
293
|
+
}
|
294
|
+
tmp.push(obj);
|
295
|
+
}
|
296
|
+
return this._append_json_data(id, tmp, $.proxy(function (status) {
|
297
|
+
callback.call(this, status);
|
298
|
+
}, this));
|
299
|
+
};
|
300
|
+
this._load_node = function (obj, callback) {
|
301
|
+
var id = obj.id;
|
302
|
+
var nd = obj.id === "#" ? this.settings.core.data : this._data.datamodel[obj.id].getChildren($.proxy(function (nodes) {
|
303
|
+
this._datamodel(id, nodes, callback);
|
304
|
+
}, this));
|
305
|
+
if($.isArray(nd)) {
|
306
|
+
this._datamodel(id, nd, callback);
|
307
|
+
}
|
308
|
+
};
|
309
|
+
};
|
310
|
+
})(jQuery);
|
311
|
+
/*
|
312
|
+
demo of the above
|
313
|
+
function treeNode(val) {
|
314
|
+
var id = ++treeNode.counter;
|
315
|
+
this.getID = function () {
|
316
|
+
return id;
|
317
|
+
};
|
318
|
+
this.getText = function () {
|
319
|
+
return val.toString();
|
320
|
+
};
|
321
|
+
this.getExtra = function (obj) {
|
322
|
+
obj.icon = false;
|
323
|
+
return obj;
|
324
|
+
};
|
325
|
+
this.hasChildren = function () {
|
326
|
+
return true;
|
327
|
+
};
|
328
|
+
this.getChildren = function () {
|
329
|
+
return [
|
330
|
+
new treeNode(Math.pow(val, 2)),
|
331
|
+
new treeNode(Math.sqrt(val)),
|
332
|
+
];
|
333
|
+
};
|
334
|
+
}
|
335
|
+
treeNode.counter = 0;
|
336
|
+
|
337
|
+
$('#jstree').jstree({
|
338
|
+
'core': {
|
339
|
+
'data': [
|
340
|
+
new treeNode(2),
|
341
|
+
new treeNode(3),
|
342
|
+
new treeNode(4),
|
343
|
+
new treeNode(5)
|
344
|
+
]
|
345
|
+
},
|
346
|
+
plugins : ['datamodel']
|
347
|
+
});
|
348
|
+
*/
|
349
|
+
|
350
|
+
// untested sample plugin to keep all nodes in the DOM
|
351
|
+
(function ($, undefined) {
|
352
|
+
"use strict";
|
353
|
+
$.jstree.plugins.dom = function (options, parent) {
|
354
|
+
this.redraw_node = function (node, deep, is_callback, force_render) {
|
355
|
+
return parent.redraw_node.call(this, node, deep, is_callback, true);
|
356
|
+
};
|
357
|
+
this.close_node = function (obj, animation) {
|
358
|
+
var t1, t2, t, d;
|
359
|
+
if($.isArray(obj)) {
|
360
|
+
obj = obj.slice();
|
361
|
+
for(t1 = 0, t2 = obj.length; t1 < t2; t1++) {
|
362
|
+
this.close_node(obj[t1], animation);
|
363
|
+
}
|
364
|
+
return true;
|
365
|
+
}
|
366
|
+
obj = this.get_node(obj);
|
367
|
+
if(!obj || obj.id === $.jstree.root) {
|
368
|
+
return false;
|
369
|
+
}
|
370
|
+
if(this.is_closed(obj)) {
|
371
|
+
return false;
|
372
|
+
}
|
373
|
+
animation = animation === undefined ? this.settings.core.animation : animation;
|
374
|
+
t = this;
|
375
|
+
d = this.get_node(obj, true);
|
376
|
+
if(d.length) {
|
377
|
+
if(!animation) {
|
378
|
+
d[0].className = d[0].className.replace('jstree-open', 'jstree-closed');
|
379
|
+
d.attr("aria-expanded", false);
|
380
|
+
}
|
381
|
+
else {
|
382
|
+
d
|
383
|
+
.children(".jstree-children").attr("style","display:block !important").end()
|
384
|
+
.removeClass("jstree-open").addClass("jstree-closed").attr("aria-expanded", false)
|
385
|
+
.children(".jstree-children").stop(true, true).slideUp(animation, function () {
|
386
|
+
this.style.display = "";
|
387
|
+
t.trigger("after_close", { "node" : obj });
|
388
|
+
});
|
389
|
+
}
|
390
|
+
}
|
391
|
+
obj.state.opened = false;
|
392
|
+
this.trigger('close_node',{ "node" : obj });
|
393
|
+
if(!animation || !d.length) {
|
394
|
+
this.trigger("after_close", { "node" : obj });
|
395
|
+
}
|
396
|
+
};
|
397
|
+
};
|
398
|
+
})(jQuery);
|
399
|
+
|
400
|
+
// customize plugin by @Lusito
|
401
|
+
// https://github.com/Lusito/jstree/blob/node-customize/src/jstree-node-customize.js
|
402
|
+
/**
|
403
|
+
* ### Node Customize plugin
|
404
|
+
*
|
405
|
+
* Allows to customize nodes when they are drawn.
|
406
|
+
*/
|
407
|
+
(function (factory) {
|
408
|
+
"use strict";
|
409
|
+
if (typeof define === 'function' && define.amd) {
|
410
|
+
define('jstree.node_customize', ['jquery','jstree'], factory);
|
411
|
+
}
|
412
|
+
else if(typeof exports === 'object') {
|
413
|
+
factory(require('jquery'), require('jstree'));
|
414
|
+
}
|
415
|
+
else {
|
416
|
+
factory(jQuery, jQuery.jstree);
|
417
|
+
}
|
418
|
+
}(function ($, jstree, undefined) {
|
419
|
+
"use strict";
|
420
|
+
|
421
|
+
if($.jstree.plugins.node_customize) { return; }
|
422
|
+
|
423
|
+
/**
|
424
|
+
* the settings object.
|
425
|
+
* key is the attribute name to select the customizer function from switch.
|
426
|
+
* switch is a key => function(el, node) map.
|
427
|
+
* default: function(el, node) will be called if the type could not be mapped
|
428
|
+
* @name $.jstree.defaults.node_customize
|
429
|
+
* @plugin node_customize
|
430
|
+
*/
|
431
|
+
$.jstree.defaults.node_customize = {
|
432
|
+
"key": "type",
|
433
|
+
"switch": {},
|
434
|
+
"default": null
|
435
|
+
};
|
436
|
+
|
437
|
+
$.jstree.plugins.node_customize = function (options, parent) {
|
438
|
+
this.redraw_node = function (obj, deep, callback, force_draw) {
|
439
|
+
var el = parent.redraw_node.apply(this, arguments);
|
440
|
+
if (el) {
|
441
|
+
var node = this.get_node(obj);
|
442
|
+
var cfg = this.settings.node_customize;
|
443
|
+
var key = cfg.key;
|
444
|
+
var type = (node && node.original && node.original[key]);
|
445
|
+
var customizer = (type && cfg.switch[type]) || cfg.default;
|
446
|
+
if(customizer)
|
447
|
+
customizer(el, node);
|
448
|
+
}
|
449
|
+
return el;
|
450
|
+
};
|
451
|
+
}
|
452
|
+
}));
|
453
|
+
|
454
|
+
|
455
|
+
// parentsload plugin by @ashl1
|
456
|
+
/**
|
457
|
+
* ### Parentsload plugin
|
458
|
+
*
|
459
|
+
* Change load_node() functionality in jsTree, to possible load not yes downloaded node with all it parent in a single request (only useful with lazy loading).
|
460
|
+
*
|
461
|
+
* version 1.0.0 (Alexey Shildyakov - ashl1future@gmail.com)
|
462
|
+
* 2015: Compatible with jsTree-3.2.1
|
463
|
+
*/
|
464
|
+
/*globals jQuery, define, exports, require, document */
|
465
|
+
(function (factory) {
|
466
|
+
"use strict";
|
467
|
+
if (typeof define === 'function' && define.amd) {
|
468
|
+
define('jstree.parentsload', ['jquery','jstree'], factory);
|
469
|
+
}
|
470
|
+
else if(typeof exports === 'object') {
|
471
|
+
factory(require('jquery'), require('jstree'));
|
472
|
+
}
|
473
|
+
else {
|
474
|
+
factory(jQuery, jQuery.jstree);
|
475
|
+
}
|
476
|
+
}(function ($, jstree, undefined) {
|
477
|
+
"use strict";
|
478
|
+
|
479
|
+
if($.jstree.plugins.parentsload) { return; }
|
480
|
+
|
481
|
+
/**
|
482
|
+
* parentsload configuration
|
483
|
+
*
|
484
|
+
* The configuration syntax is almost the same as for core.data option. You must set parenstload.data the following:
|
485
|
+
*
|
486
|
+
* parentsload: {
|
487
|
+
* data: function(){} // this function overwrites core data.data options
|
488
|
+
* }
|
489
|
+
*
|
490
|
+
* OR
|
491
|
+
*
|
492
|
+
* parentsload: {
|
493
|
+
* data: {
|
494
|
+
* url: function(node){} OR string,
|
495
|
+
* data: function(node){} OR associative array as json{data} jQuery parameter
|
496
|
+
* }
|
497
|
+
* }
|
498
|
+
*
|
499
|
+
* In last case at least on of 'url' or 'data' must be presented.
|
500
|
+
*
|
501
|
+
* At first, the plugin load_node() detects if the node already downloaded. If is - uses the core.data settings, if not - uses parentsload.data settings
|
502
|
+
* to fetch in one query the specified node and all its parent. The data must be in the first mentioned JSON format with set nested children[].
|
503
|
+
* Each node level should consist of all nodes on the level to properly work with the tree in the future. Otherwise, you must manually call load_node
|
504
|
+
* on every parent node to fetch all children nodes on that level.
|
505
|
+
*
|
506
|
+
* @name $.jstree.defaults.parentsload
|
507
|
+
* @plugin parentsload
|
508
|
+
*/
|
509
|
+
$.jstree.defaults.parentsload = null;
|
510
|
+
$.jstree.plugins.parentsload = function (options, parent) {
|
511
|
+
this.init = function (el, options) {
|
512
|
+
parent.init.call(this, el, options);
|
513
|
+
this.patch_data()
|
514
|
+
};
|
515
|
+
this.patch_data = function(){
|
516
|
+
var parentsloadSettings = this.settings.parentsload;
|
517
|
+
var jsTreeDataSettings = this.settings.core.data;
|
518
|
+
var self = this;
|
519
|
+
|
520
|
+
var callError = function(number, message) {
|
521
|
+
self._data.core.last_error = { 'error' : 'configuration', 'plugin' : 'parentsload', 'id' : 'parentsload_' + number, 'reason' : message, 'data' : JSON.stringify({config: parentsloadSettings}) };
|
522
|
+
self.settings.core.error.call(self, self._data.core.last_error);
|
523
|
+
}
|
524
|
+
|
525
|
+
if(!parentsloadSettings) {
|
526
|
+
callError('01', 'The configuration must be presented')
|
527
|
+
return
|
528
|
+
}
|
529
|
+
parentsloadSettings = parentsloadSettings.data;
|
530
|
+
|
531
|
+
var patchSettingsProperty = function (propertyName) {
|
532
|
+
var property = parentsloadSettings[propertyName],
|
533
|
+
coreProperty = jsTreeDataSettings[propertyName];
|
534
|
+
if (property) {
|
535
|
+
jsTreeDataSettings[propertyName] = function(node) {
|
536
|
+
if (this.get_node(node).parentsload_required) {
|
537
|
+
if ($.isFunction(property)) {
|
538
|
+
return property.call(this, node)
|
539
|
+
} else {// (typeof property === 'string')
|
540
|
+
return property
|
541
|
+
}
|
542
|
+
} else {
|
543
|
+
if ($.isFunction(coreProperty)) {
|
544
|
+
return coreProperty.call(this, node)
|
545
|
+
} else { // (typeof coreProperty === 'string')
|
546
|
+
return coreProperty
|
547
|
+
}
|
548
|
+
}
|
549
|
+
}
|
550
|
+
} /* else {
|
551
|
+
use jstree the same data[propertyName] settings
|
552
|
+
}*/
|
553
|
+
}
|
554
|
+
|
555
|
+
if($.isFunction(parentsloadSettings)) {
|
556
|
+
this.settings.data = parentsloadSettings
|
557
|
+
} else if (typeof parentsloadSettings === 'object') {
|
558
|
+
if (! (parentsloadSettings.url || parentsloadSettings.data)) {
|
559
|
+
callError('02', 'The "data.url" or "data.data" must be presented in configuration')
|
560
|
+
return
|
561
|
+
}
|
562
|
+
patchSettingsProperty('url')
|
563
|
+
patchSettingsProperty('data')
|
564
|
+
|
565
|
+
} else {
|
566
|
+
callError('03', 'The appropriate "data.url" or "data.data" must be presented in configuration')
|
567
|
+
}
|
568
|
+
}
|
569
|
+
|
570
|
+
this.load_node = function (obj, callback) {
|
571
|
+
if($.isArray(obj)) {
|
572
|
+
// FIXME: _load_nodes will not load nodes not presented in the tree
|
573
|
+
this._load_nodes(obj.slice(), callback);
|
574
|
+
return true;
|
575
|
+
}
|
576
|
+
var foundObj = this.get_node(obj);
|
577
|
+
if (foundObj) {
|
578
|
+
return parent.load_node.apply(this, arguments)
|
579
|
+
} else {
|
580
|
+
// node hasn't been loaded
|
581
|
+
var id = obj.id? obj.id: obj;
|
582
|
+
this._model.data[id] = {
|
583
|
+
id : id,
|
584
|
+
parent : '#',
|
585
|
+
parents : [],
|
586
|
+
children : [],
|
587
|
+
children_d : [],
|
588
|
+
state : { loaded : false },
|
589
|
+
li_attr : {},
|
590
|
+
a_attr : {},
|
591
|
+
parentsload_required : true,
|
592
|
+
};
|
593
|
+
return parent.load_node.call(this, obj, function(obj, status){
|
594
|
+
obj.parentsload_required = !status
|
595
|
+
callback.call(this, obj, status)
|
596
|
+
})
|
597
|
+
}
|
598
|
+
}
|
599
|
+
};
|
600
|
+
}));
|
601
|
+
|
602
|
+
// conditional deselect
|
603
|
+
(function (factory) {
|
604
|
+
"use strict";
|
605
|
+
if (typeof define === 'function' && define.amd) {
|
606
|
+
define('jstree.conditionaldeselect', ['jquery','jstree'], factory);
|
607
|
+
}
|
608
|
+
else if(typeof exports === 'object') {
|
609
|
+
factory(require('jquery'), require('jstree'));
|
610
|
+
}
|
611
|
+
else {
|
612
|
+
factory(jQuery, jQuery.jstree);
|
613
|
+
}
|
614
|
+
}(function ($, jstree, undefined) {
|
615
|
+
"use strict";
|
616
|
+
|
617
|
+
if($.jstree.plugins.conditionaldeselect) { return; }
|
618
|
+
$.jstree.defaults.conditionaldeselect = function () { return true; };
|
619
|
+
$.jstree.plugins.conditionaldeselect = function (options, parent) {
|
620
|
+
// own function
|
621
|
+
this.deselect_node = function (obj, supress_event, e) {
|
622
|
+
if(this.settings.conditionaldeselect.call(this, this.get_node(obj), e)) {
|
623
|
+
return parent.deselect_node.call(this, obj, supress_event, e);
|
624
|
+
}
|
625
|
+
};
|
626
|
+
};
|
627
|
+
|
628
|
+
}));
|
629
|
+
|
630
|
+
// conditional close
|
631
|
+
(function (factory) {
|
632
|
+
"use strict";
|
633
|
+
if (typeof define === 'function' && define.amd) {
|
634
|
+
define('jstree.conditionalclose', ['jquery','jstree'], factory);
|
635
|
+
}
|
636
|
+
else if(typeof exports === 'object') {
|
637
|
+
factory(require('jquery'), require('jstree'));
|
638
|
+
}
|
639
|
+
else {
|
640
|
+
factory(jQuery, jQuery.jstree);
|
641
|
+
}
|
642
|
+
}(function ($, jstree, undefined) {
|
643
|
+
"use strict";
|
644
|
+
|
645
|
+
if($.jstree.plugins.conditionalclose) { return; }
|
646
|
+
$.jstree.defaults.conditionalclose = function () { return true; };
|
647
|
+
$.jstree.plugins.conditionalclose = function (options, parent) {
|
648
|
+
// own function
|
649
|
+
this.close_node = function (obj, animation) {
|
650
|
+
if(this.settings.conditionalclose.close.call(this, this.get_node(obj), e)) {
|
651
|
+
return parent.deselect_node.call(this, obj, animation);
|
652
|
+
}
|
653
|
+
};
|
654
|
+
};
|
655
|
+
|
656
|
+
}));
|
@@ -0,0 +1 @@
|
|
1
|
+
}));
|