mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
Merge remote-tracking branch 'origin' into bitbucket.dataset-choice
This commit is contained in:
Carl Eberhard
@@ -5,8 +5,9 @@ define(['utils/utils',
|
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'mvc/ui/ui-misc',
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'mvc/form/form-select-content',
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'mvc/ui/ui-select-library',
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'mvc/ui/ui-select-ftp',
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'mvc/ui/ui-color-picker'],
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function(Utils, Ui, SelectContent, SelectLibrary, ColorPicker) {
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function(Utils, Ui, SelectContent, SelectLibrary, SelectFtp, ColorPicker) {
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// create form view
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return Backbone.Model.extend({
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@@ -26,9 +27,10 @@ define(['utils/utils',
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'hidden' : '_fieldHidden',
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'hidden_data' : '_fieldHidden',
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'baseurl' : '_fieldHidden',
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'library_data' : '_fieldLibrary'
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'library_data' : '_fieldLibrary',
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'ftpfile' : '_fieldFtp'
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},
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// initialize
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initialize: function(app, options) {
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this.app = app;
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@@ -53,7 +55,7 @@ define(['utils/utils',
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if (fieldClass && typeof(this[fieldClass]) === 'function') {
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field = this[fieldClass].call(this, input_def);
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}
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// identify field type
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if (!field) {
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// flag
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@@ -172,7 +174,7 @@ define(['utils/utils',
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}
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});
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},
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/** Text input field
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*/
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_fieldText: function(input_def) {
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@@ -272,6 +274,20 @@ define(['utils/utils',
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self.app.trigger('change');
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}
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});
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},
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/** FTP file field
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*/
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_fieldFtp: function(input_def) {
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var self = this;
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return new SelectFtp.View({
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id : 'field-' + input_def.id,
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optional : input_def.optional,
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multiple : input_def.multiple,
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onchange : function() {
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self.app.trigger('change');
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}
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});
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}
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});
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@@ -285,6 +285,11 @@ define(['utils/utils',
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}
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});
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// add expansion event handler
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this.app.on('expand', function(input_id) {
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(portlet.$el.find('#' + input_id).length > 0) && !visible && portlet.$header.trigger('click');
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});
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// show sub section if requested
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if (input_def.expanded) {
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portlet.$header.trigger('click');
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@@ -111,6 +111,9 @@ define(['utils/utils', 'mvc/ui/ui-portlet', 'mvc/ui/ui-misc',
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// mark error
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input_element.error(message || 'Please verify this parameter.');
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// trigger expand event for parent containers
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this.trigger('expand', input_id);
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// scroll to first input element
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if (!silent) {
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$('html, body').animate({
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@@ -0,0 +1,157 @@
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// dependencies
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define(['utils/utils', 'mvc/ui/ui-portlet', 'mvc/ui/ui-misc'], function(Utils, Portlet, Ui) {
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// ui list element
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var View = Backbone.View.extend({
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// create portlet to keep track of selected list elements
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initialize : function(options) {
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// link this
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var self = this;
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// initialize options
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this.options = options;
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this.name = options.name || 'element';
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this.multiple = options.multiple || false;
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// create message handler
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this.message = new Ui.Message({ cls: 'ui-margin-top' });
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||||
|
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// create portlet
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this.portlet = new Portlet.View({ cls: 'ui-portlet-section' });
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||||
|
||||
// create select field containing the options which can be inserted into the list
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this.select = new Ui.Select.View({ optional : options.optional });
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|
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// create insert new list element button
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||||
this.button = new Ui.ButtonIcon({
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||||
icon : 'fa fa-sign-in',
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floating : 'left',
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||||
tooltip : 'Insert new ' + this.name,
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onclick : function() {
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self.add({
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id : self.select.value(),
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||||
name : self.select.text()
|
||||
});
|
||||
}
|
||||
});
|
||||
|
||||
// build main element
|
||||
this.setElement(this._template(options));
|
||||
this.$('.ui-list-message').append(this.message.$el);
|
||||
this.$('.ui-list-portlet').append(this.portlet.$el);
|
||||
this.$('.ui-list-button').append(this.button.$el);
|
||||
this.$('.ui-list-select').append(this.select.$el);
|
||||
},
|
||||
|
||||
/** Return/Set currently selected list elements */
|
||||
value: function(val) {
|
||||
// set new value
|
||||
if (val !== undefined) {
|
||||
this.portlet.empty();
|
||||
if ($.isArray(val)) {
|
||||
for (var i in val) {
|
||||
var v = val[i];
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||||
var v_id = null;
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||||
var v_name = null;
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||||
if ($.type(v) != 'string') {
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||||
v_id = v.id;
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||||
v_name = v.name;
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||||
} else {
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||||
v_id = v_name = v;
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||||
}
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||||
if (v_id != null) {
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||||
this.add({
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||||
id : v_id,
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||||
name : v_name
|
||||
});
|
||||
}
|
||||
}
|
||||
}
|
||||
this._refresh();
|
||||
}
|
||||
// get current value
|
||||
var lst = [];
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||||
this.$('.ui-list-id').each(function() {
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||||
lst.push({
|
||||
id : $(this).prop('id'),
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||||
name : $(this).find('.ui-list-name').html()
|
||||
});
|
||||
});
|
||||
if (lst.length == 0) {
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||||
return null;
|
||||
}
|
||||
return lst;
|
||||
},
|
||||
|
||||
/** Add row */
|
||||
add: function(options) {
|
||||
var self = this;
|
||||
if (this.$('[id="' + options.id + '"]').length === 0) {
|
||||
if (Utils.validate(options.id)) {
|
||||
var $el = $(this._templateRow({
|
||||
id : options.id,
|
||||
name : options.name
|
||||
}));
|
||||
$el.on('click', function() {
|
||||
$el.remove();
|
||||
self._refresh();
|
||||
});
|
||||
$el.on('mouseover', function() {
|
||||
$el.addClass('portlet-highlight');
|
||||
});
|
||||
$el.on('mouseout', function() {
|
||||
$el.removeClass('portlet-highlight');
|
||||
});
|
||||
this.portlet.append($el);
|
||||
this._refresh();
|
||||
} else {
|
||||
this.message.update({ message: 'Please select a valid ' + this.name + '.', status: 'danger' });
|
||||
}
|
||||
} else {
|
||||
this.message.update({ message: 'This ' + this.name + ' is already in the list.' });
|
||||
}
|
||||
},
|
||||
|
||||
/** Update available options */
|
||||
update: function(options) {
|
||||
this.select.update(options);
|
||||
},
|
||||
|
||||
/** Refresh view */
|
||||
_refresh: function() {
|
||||
if (this.$('.ui-list-id').length > 0) {
|
||||
!this.multiple && this.button.disable();
|
||||
this.$('.ui-list-portlet').show();
|
||||
} else {
|
||||
this.button.enable();
|
||||
this.$('.ui-list-portlet').hide();
|
||||
}
|
||||
this.options.onchange && this.options.onchange();
|
||||
},
|
||||
|
||||
/** Main Template */
|
||||
_template: function(options) {
|
||||
return '<div class="ui-list">' +
|
||||
'<div class="ui-margin-top">' +
|
||||
'<span class="ui-list-button"/>' +
|
||||
'<span class="ui-list-select"/>' +
|
||||
'</div>' +
|
||||
'<div class="ui-list-message"/>' +
|
||||
'<div class="ui-list-portlet"/>' +
|
||||
'</div>';
|
||||
},
|
||||
|
||||
/** Row Template */
|
||||
_templateRow: function(options) {
|
||||
return '<div id="' + options.id + '" class="ui-list-id">' +
|
||||
'<span class="ui-list-delete fa fa-trash"/>' +
|
||||
'<span class="ui-list-name">' + options.name + '</span>' +
|
||||
'</div>';
|
||||
}
|
||||
});
|
||||
|
||||
return {
|
||||
View: View
|
||||
}
|
||||
|
||||
});
|
||||
@@ -199,7 +199,7 @@ var ButtonIcon = Backbone.View.extend({
|
||||
});
|
||||
|
||||
// add tooltip
|
||||
$(this.el).tooltip({title: options.tooltip, placement: 'bottom'});
|
||||
this.$button.tooltip({title: options.tooltip, placement: 'bottom'});
|
||||
},
|
||||
|
||||
// disable
|
||||
@@ -229,18 +229,16 @@ var ButtonIcon = Backbone.View.extend({
|
||||
}
|
||||
|
||||
// string
|
||||
var str = '<div id="' + options.id + '" style="float: ' + options.floating + '; ' + width + '" class="' + options.cls + '">';
|
||||
|
||||
// title
|
||||
var str = '<div id="' + options.id + '" style="float: ' + options.floating + '; ' + width + '" class="' + options.cls + '">' +
|
||||
'<div class="button">';
|
||||
if (options.title) {
|
||||
str += '<div class="button">' +
|
||||
'<i class="icon fa ' + options.icon + '"/> ' +
|
||||
'<span class="title">' + options.title + '</span>' +
|
||||
'</div>';
|
||||
str += '<i class="icon fa ' + options.icon + '"/> ' +
|
||||
'<span class="title">' + options.title + '</span>';
|
||||
} else {
|
||||
str += '<i class="icon fa ' + options.icon + '"/>';
|
||||
str += '<i class="icon fa ' + options.icon + '"/>';
|
||||
}
|
||||
str += '</div>';
|
||||
str += '</div>' +
|
||||
'</div>';
|
||||
return str;
|
||||
}
|
||||
});
|
||||
@@ -277,6 +275,7 @@ var Message = Backbone.View.extend({
|
||||
optionsDefault: {
|
||||
message : null,
|
||||
status : 'info',
|
||||
cls : '',
|
||||
persistent : false
|
||||
},
|
||||
|
||||
@@ -286,7 +285,7 @@ var Message = Backbone.View.extend({
|
||||
this.options = Utils.merge(options, this.optionsDefault);
|
||||
|
||||
// create new element
|
||||
this.setElement('<div></div>');
|
||||
this.setElement('<div class="' + this.options.cls + '"/>');
|
||||
|
||||
// show initial message
|
||||
if (this.options.message) {
|
||||
|
||||
@@ -88,7 +88,12 @@ var View = Backbone.View.extend({
|
||||
append: function($el) {
|
||||
this.$content.append($el);
|
||||
},
|
||||
|
||||
|
||||
// remove all content
|
||||
empty: function() {
|
||||
this.$content.empty();
|
||||
},
|
||||
|
||||
// content
|
||||
content: function() {
|
||||
return this.$content;
|
||||
|
||||
@@ -0,0 +1,53 @@
|
||||
// dependencies
|
||||
define(['utils/utils', 'mvc/ui/ui-list'],
|
||||
function(Utils, List) {
|
||||
|
||||
/**
|
||||
* FTP file selector
|
||||
*/
|
||||
var View = Backbone.View.extend({
|
||||
// initialize
|
||||
initialize : function(options) {
|
||||
// link this
|
||||
var self = this;
|
||||
|
||||
// create ui-list view to keep track of selected ftp files
|
||||
this.ftpfile_list = new List.View({
|
||||
name : 'file',
|
||||
optional : options.optional,
|
||||
multiple : options.multiple,
|
||||
onchange : function() {
|
||||
options.onchange && options.onchange(self.value());
|
||||
}
|
||||
});
|
||||
|
||||
// create elements
|
||||
this.setElement(this.ftpfile_list.$el);
|
||||
|
||||
// initial fetch of ftps
|
||||
Utils.get({
|
||||
url : galaxy_config.root + 'api/remote_files',
|
||||
success : function(response) {
|
||||
var data = [];
|
||||
for (var i in response) {
|
||||
data.push({
|
||||
value : response[i]['path'],
|
||||
label : response[i]['path']
|
||||
});
|
||||
}
|
||||
self.ftpfile_list.update(data);
|
||||
}
|
||||
});
|
||||
},
|
||||
|
||||
/** Return/Set currently selected ftp datasets */
|
||||
value: function(val) {
|
||||
return this.ftpfile_list.value(val);
|
||||
}
|
||||
});
|
||||
|
||||
return {
|
||||
View: View
|
||||
}
|
||||
|
||||
});
|
||||
@@ -1,6 +1,6 @@
|
||||
// dependencies
|
||||
define(['utils/utils', 'mvc/ui/ui-misc', 'mvc/ui/ui-tabs', 'mvc/tools/tools-template'],
|
||||
function(Utils, Ui, Tabs, ToolTemplate) {
|
||||
define(['utils/utils', 'mvc/ui/ui-misc', 'mvc/ui/ui-table', 'mvc/ui/ui-list'],
|
||||
function(Utils, Ui, Table, List) {
|
||||
|
||||
// collection of libraries
|
||||
var Libraries = Backbone.Collection.extend({
|
||||
@@ -13,7 +13,7 @@ var LibraryDatasets = Backbone.Collection.extend({
|
||||
var self = this;
|
||||
this.config = new Backbone.Model({ library_id: null });
|
||||
this.config.on('change', function() {
|
||||
self.fetch({reset: true});
|
||||
self.fetch({ reset: true });
|
||||
});
|
||||
},
|
||||
url: function() {
|
||||
@@ -36,15 +36,16 @@ var View = Backbone.View.extend({
|
||||
this.options = options;
|
||||
|
||||
// select field for the library
|
||||
// TODO: Remove this once the library API supports searching for library datasets
|
||||
this.library_select = new Ui.Select.View({
|
||||
optional : options.optional,
|
||||
onchange : function(value) {
|
||||
self.datasets.config.set('library_id', value);
|
||||
}
|
||||
});
|
||||
|
||||
// select field for the library dataset
|
||||
this.dataset_select = new Ui.Select.View({
|
||||
// create ui-list view to keep track of selected data libraries
|
||||
this.dataset_list = new List.View({
|
||||
name : 'dataset',
|
||||
optional : options.optional,
|
||||
multiple : options.multiple,
|
||||
onchange : function() {
|
||||
@@ -62,7 +63,6 @@ var View = Backbone.View.extend({
|
||||
});
|
||||
});
|
||||
self.library_select.update(data);
|
||||
self.trigger('change');
|
||||
});
|
||||
|
||||
// add reset handler for fetched library datasets
|
||||
@@ -74,13 +74,12 @@ var View = Backbone.View.extend({
|
||||
if (model.get('type') === 'file') {
|
||||
data.push({
|
||||
value : model.id,
|
||||
label : library_current + model.get('name')
|
||||
label : model.get('name')
|
||||
});
|
||||
}
|
||||
});
|
||||
}
|
||||
self.dataset_select.update(data);
|
||||
self.trigger('change');
|
||||
self.dataset_list.update(data);
|
||||
});
|
||||
|
||||
// add change event. fires on trigger
|
||||
@@ -88,10 +87,10 @@ var View = Backbone.View.extend({
|
||||
options.onchange && options.onchange(self.value());
|
||||
});
|
||||
|
||||
// create element
|
||||
// create elements
|
||||
this.setElement(this._template());
|
||||
this.$('.library-select').append(this.library_select.$el);
|
||||
this.$('.dataset-select').append(this.dataset_select.$el);
|
||||
this.$el.append(this.dataset_list.$el);
|
||||
|
||||
// initial fetch of libraries
|
||||
this.libraries.fetch({
|
||||
@@ -106,8 +105,8 @@ var View = Backbone.View.extend({
|
||||
},
|
||||
|
||||
/** Return/Set currently selected library datasets */
|
||||
value: function(new_val) {
|
||||
return this.dataset_select.value();
|
||||
value: function(val) {
|
||||
return this.dataset_list.value(val);
|
||||
},
|
||||
|
||||
/** Template */
|
||||
@@ -117,10 +116,6 @@ var View = Backbone.View.extend({
|
||||
'<span class="library-title">Select Library</span>' +
|
||||
'<span class="library-select"/>' +
|
||||
'</div>' +
|
||||
'<div class="dataset">' +
|
||||
'<span class="dataset-title">Select Dataset</span>' +
|
||||
'<span class="dataset-select"/>' +
|
||||
'</div>' +
|
||||
'</div>';
|
||||
}
|
||||
});
|
||||
|
||||
@@ -39,7 +39,7 @@ function validate (value) {
|
||||
return false;
|
||||
}
|
||||
for (var i in value) {
|
||||
if (['__null__', '__undefined__', 'None', null, undefined].indexOf(value[i]) > -1) {
|
||||
if (['__null__', '__undefined__', null, undefined].indexOf(value[i]) > -1) {
|
||||
return false;
|
||||
}
|
||||
}
|
||||
|
||||
@@ -278,6 +278,9 @@
|
||||
background: @side-panel-bg;
|
||||
border-bottom: solid darken(@side-panel-bg, 10%) 1px;
|
||||
}
|
||||
.portlet-highlight {
|
||||
text-decoration: underline;
|
||||
}
|
||||
}
|
||||
|
||||
.ui-portlet-narrow {
|
||||
@@ -501,6 +504,30 @@
|
||||
}
|
||||
}
|
||||
|
||||
.ui-list {
|
||||
.ui-list-select {
|
||||
float: left;
|
||||
width: ~'calc(100% - 27px)';
|
||||
}
|
||||
.ui-list-button {
|
||||
.ui-button-icon {
|
||||
margin-top: 3px;
|
||||
margin-right: 5px;
|
||||
}
|
||||
}
|
||||
.ui-list-message, .ui-list-portlet {
|
||||
clear: both;
|
||||
}
|
||||
.ui-list-id {
|
||||
cursor: pointer;
|
||||
margin-top: 5px;
|
||||
.ui-list-delete {
|
||||
font-size: 1.2em;
|
||||
margin-right: 5px;
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
.ui-select {
|
||||
position: relative;
|
||||
.button {
|
||||
|
||||
@@ -119,6 +119,7 @@
|
||||
<display file="ensembl/ensembl_interval_as_bed.xml" inherit="True"/>
|
||||
<display file="gbrowse/gbrowse_interval_as_bed.xml" inherit="True"/>
|
||||
<display file="rviewer/bed.xml" inherit="True"/>
|
||||
<display file="igv/interval_as_bed.xml" inherit="True"/>
|
||||
</datatype>
|
||||
<datatype extension="picard_interval_list" type="galaxy.datatypes.tabular:Tabular" subclass="True" display_in_upload="True">
|
||||
<converter file="picard_interval_list_to_bed6_converter.xml" target_datatype="bed6"/>
|
||||
|
||||
@@ -5,7 +5,7 @@
|
||||
// does not use these.
|
||||
ie_password_auth = ${ ie_request.javascript_boolean(ie_request.attr.PASSWORD_AUTH) };
|
||||
ie_apache_urls = ${ ie_request.javascript_boolean(ie_request.attr.APACHE_URLS) };
|
||||
ie_password = '${ ie_request.attr.notebook_pw }';
|
||||
ie_password = '${ ie_request.notebook_pw }';
|
||||
|
||||
|
||||
var galaxy_root = '${ ie_request.attr.root }';
|
||||
|
||||
@@ -12,10 +12,10 @@
|
||||
command = docker
|
||||
|
||||
# The docker image name that should be started.
|
||||
image = bgruening/docker-ipython-notebook:0.2
|
||||
image = bgruening/docker-ipython-notebook:dev
|
||||
|
||||
# Additional arguments that are passed to the `docker run` command.
|
||||
command_inject = --sig-proxy=true
|
||||
command_inject = --sig-proxy=true -e DEBUG=false
|
||||
|
||||
# URL to access the Galaxy API with from the spawn Docker containter, if empty
|
||||
# this falls back to galaxy.ini's galaxy_infrastructure_url and finally to the
|
||||
|
||||
@@ -3,16 +3,20 @@
|
||||
<%
|
||||
import os
|
||||
import shutil
|
||||
import tempfile
|
||||
import subprocess
|
||||
import hashlib
|
||||
|
||||
# Sets ID and sets up a lot of other variables
|
||||
ie_request.load_deploy_config()
|
||||
ie_request.attr.docker_port = 6789
|
||||
# Create tempdir in galaxy
|
||||
temp_dir = os.path.abspath( tempfile.mkdtemp() )
|
||||
# Write out conf file...needs work
|
||||
ie_request.write_conf_file(temp_dir)
|
||||
temp_dir = ie_request.temp_dir
|
||||
|
||||
if ie_request.attr.PASSWORD_AUTH:
|
||||
m = hashlib.sha1()
|
||||
m.update( ie_request.notebook_pw + ie_request.notebook_pw_salt )
|
||||
PASSWORD = 'sha1:%s:%s' % (ie_request.notebook_pw_salt, m.hexdigest())
|
||||
else:
|
||||
PASSWORD = "none"
|
||||
|
||||
## IPython Specific
|
||||
# Prepare an empty notebook
|
||||
@@ -34,9 +38,12 @@ else:
|
||||
notebook_access_url = ie_request.url_template('${PROXY_URL}/ipython/${PORT}/notebooks/ipython_galaxy_notebook.ipynb')
|
||||
notebook_login_url = ie_request.url_template('${PROXY_URL}/ipython/${PORT}/login?next=%2Fipython%2F${PORT}%2Ftree')
|
||||
|
||||
docker_cmd = ie_request.docker_cmd(temp_dir)
|
||||
ie_request.log.info("Starting IPython docker container with command [%s]" % docker_cmd)
|
||||
subprocess.call(docker_cmd, shell=True)
|
||||
|
||||
# Add all environment variables collected from Galaxy's IE infrastructure
|
||||
ie_request.launch(env_override={
|
||||
'notebook_password': PASSWORD,
|
||||
})
|
||||
|
||||
%>
|
||||
<html>
|
||||
<head>
|
||||
|
||||
@@ -20,7 +20,7 @@
|
||||
"cell_type": "markdown",
|
||||
"metadata": {},
|
||||
"source": [
|
||||
"You can access your data via the dataset number. For example, ``handle = get(42)``.",
|
||||
"You can access your data via the dataset number. For example, ``handle = open(get(42), 'r')``.",
|
||||
"To save data, write your data to a file, and then call ``put('filename.txt')``. The dataset will then be available in your galaxy history.",
|
||||
"Notebooks can be saved to Galaxy by clicking the large green button at the top right of the IPython interface.<br>",
|
||||
"More help and informations can be found on the project [website](https://github.com/bgruening/galaxy-ipython)."
|
||||
|
||||
@@ -0,0 +1,19 @@
|
||||
[main]
|
||||
# This cannot be changed
|
||||
password_auth = True
|
||||
# Other
|
||||
apache_urls = False
|
||||
ssl = False
|
||||
|
||||
[docker]
|
||||
command = docker
|
||||
image = erasche/docker-rstudio-notebook:dev
|
||||
|
||||
# Additional arguments that are passed to the `docker run` command. `-u`
|
||||
# settings are completely ignored.
|
||||
command_inject = --sig-proxy=true -e DEBUG=false
|
||||
|
||||
# URL to access the Galaxy API with from the spawned Docker container, if empty
|
||||
# this falls back to galaxy.ini's galaxy_infrastructure_url and finally to the
|
||||
# Docker host of the spawned container, if that is also not set.
|
||||
#galaxy_url=
|
||||
@@ -0,0 +1,17 @@
|
||||
<?xml version="1.0" encoding="UTF-8"?>
|
||||
<!DOCTYPE interactive_environment SYSTEM "../../interactive_environments.dtd">
|
||||
<interactive_environment name="RStudio">
|
||||
<data_sources>
|
||||
<data_source>
|
||||
<model_class>HistoryDatasetAssociation</model_class>
|
||||
<test type="isinstance" test_attr="datatype" result_type="datatype">tabular.Tabular</test>
|
||||
<test type="isinstance" test_attr="datatype" result_type="datatype">data.Text</test>
|
||||
<test type="isinstance" test_attr="datatype" result_type="datatype">binary.RData</test>
|
||||
<to_param param_attr="id">dataset_id</to_param>
|
||||
</data_source>
|
||||
</data_sources>
|
||||
<params>
|
||||
<param type="dataset" var_name_in_template="hda" required="true">dataset_id</param>
|
||||
</params>
|
||||
<template>rstudio.mako</template>
|
||||
</interactive_environment>
|
||||
@@ -0,0 +1,73 @@
|
||||
// ==== File: base64.js
|
||||
var b64map="ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/";
|
||||
var b64pad="=";
|
||||
|
||||
function hex2b64(h) {
|
||||
var i;
|
||||
var c;
|
||||
var ret = "";
|
||||
for(i = 0; i+3 <= h.length; i+=3) {
|
||||
c = parseInt(h.substring(i,i+3),16);
|
||||
ret += b64map.charAt(c >> 6) + b64map.charAt(c & 63);
|
||||
}
|
||||
if(i+1 == h.length) {
|
||||
c = parseInt(h.substring(i,i+1),16);
|
||||
ret += b64map.charAt(c << 2);
|
||||
}
|
||||
else if(i+2 == h.length) {
|
||||
c = parseInt(h.substring(i,i+2),16);
|
||||
ret += b64map.charAt(c >> 2) + b64map.charAt((c & 3) << 4);
|
||||
}
|
||||
while((ret.length & 3) > 0) ret += b64pad;
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to hex
|
||||
function b64tohex(s) {
|
||||
var ret = ""
|
||||
var i;
|
||||
var k = 0; // b64 state, 0-3
|
||||
var slop;
|
||||
for(i = 0; i < s.length; ++i) {
|
||||
if(s.charAt(i) == b64pad) break;
|
||||
v = b64map.indexOf(s.charAt(i));
|
||||
if(v < 0) continue;
|
||||
if(k == 0) {
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 1;
|
||||
}
|
||||
else if(k == 1) {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
slop = v & 0xf;
|
||||
k = 2;
|
||||
}
|
||||
else if(k == 2) {
|
||||
ret += int2char(slop);
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 3;
|
||||
}
|
||||
else {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
ret += int2char(v & 0xf);
|
||||
k = 0;
|
||||
}
|
||||
}
|
||||
if(k == 1)
|
||||
ret += int2char(slop << 2);
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to a byte/number array
|
||||
function b64toBA(s) {
|
||||
//piggyback on b64tohex for now, optimize later
|
||||
var h = b64tohex(s);
|
||||
var i;
|
||||
var a = new Array();
|
||||
for(i = 0; 2*i < h.length; ++i) {
|
||||
a[i] = parseInt(h.substring(2*i,2*i+2),16);
|
||||
}
|
||||
return a;
|
||||
}
|
||||
|
||||
@@ -0,0 +1,562 @@
|
||||
// Downloaded from http://www-cs-students.stanford.edu/~tjw/ at Tue Nov 30 00:42:57 PST 2010
|
||||
// ==== File: jsbn.js
|
||||
// Copyright (c) 2005 Tom Wu
|
||||
// All Rights Reserved.
|
||||
// See "LICENSE" for details.
|
||||
|
||||
// Basic JavaScript BN library - subset useful for RSA encryption.
|
||||
|
||||
// Bits per digit
|
||||
var dbits;
|
||||
|
||||
// JavaScript engine analysis
|
||||
var canary = 0xdeadbeefcafe;
|
||||
var j_lm = ((canary&0xffffff)==0xefcafe);
|
||||
|
||||
// (public) Constructor
|
||||
function BigInteger(a,b,c) {
|
||||
if(a != null)
|
||||
if("number" == typeof a) this.fromNumber(a,b,c);
|
||||
else if(b == null && "string" != typeof a) this.fromString(a,256);
|
||||
else this.fromString(a,b);
|
||||
}
|
||||
|
||||
// return new, unset BigInteger
|
||||
function nbi() { return new BigInteger(null); }
|
||||
|
||||
// am: Compute w_j += (x*this_i), propagate carries,
|
||||
// c is initial carry, returns final carry.
|
||||
// c < 3*dvalue, x < 2*dvalue, this_i < dvalue
|
||||
// We need to select the fastest one that works in this environment.
|
||||
|
||||
// am1: use a single mult and divide to get the high bits,
|
||||
// max digit bits should be 26 because
|
||||
// max internal value = 2*dvalue^2-2*dvalue (< 2^53)
|
||||
function am1(i,x,w,j,c,n) {
|
||||
while(--n >= 0) {
|
||||
var v = x*this[i++]+w[j]+c;
|
||||
c = Math.floor(v/0x4000000);
|
||||
w[j++] = v&0x3ffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// am2 avoids a big mult-and-extract completely.
|
||||
// Max digit bits should be <= 30 because we do bitwise ops
|
||||
// on values up to 2*hdvalue^2-hdvalue-1 (< 2^31)
|
||||
function am2(i,x,w,j,c,n) {
|
||||
var xl = x&0x7fff, xh = x>>15;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x7fff;
|
||||
var h = this[i++]>>15;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x7fff)<<15)+w[j]+(c&0x3fffffff);
|
||||
c = (l>>>30)+(m>>>15)+xh*h+(c>>>30);
|
||||
w[j++] = l&0x3fffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// Alternately, set max digit bits to 28 since some
|
||||
// browsers slow down when dealing with 32-bit numbers.
|
||||
function am3(i,x,w,j,c,n) {
|
||||
var xl = x&0x3fff, xh = x>>14;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x3fff;
|
||||
var h = this[i++]>>14;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x3fff)<<14)+w[j]+c;
|
||||
c = (l>>28)+(m>>14)+xh*h;
|
||||
w[j++] = l&0xfffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
if(j_lm && (navigator.appName == "Microsoft Internet Explorer")) {
|
||||
BigInteger.prototype.am = am2;
|
||||
dbits = 30;
|
||||
}
|
||||
else if(j_lm && (navigator.appName != "Netscape")) {
|
||||
BigInteger.prototype.am = am1;
|
||||
dbits = 26;
|
||||
}
|
||||
else { // Mozilla/Netscape seems to prefer am3
|
||||
BigInteger.prototype.am = am3;
|
||||
dbits = 28;
|
||||
}
|
||||
|
||||
BigInteger.prototype.DB = dbits;
|
||||
BigInteger.prototype.DM = ((1<<dbits)-1);
|
||||
BigInteger.prototype.DV = (1<<dbits);
|
||||
|
||||
var BI_FP = 52;
|
||||
BigInteger.prototype.FV = Math.pow(2,BI_FP);
|
||||
BigInteger.prototype.F1 = BI_FP-dbits;
|
||||
BigInteger.prototype.F2 = 2*dbits-BI_FP;
|
||||
|
||||
// Digit conversions
|
||||
var BI_RM = "0123456789abcdefghijklmnopqrstuvwxyz";
|
||||
var BI_RC = new Array();
|
||||
var rr,vv;
|
||||
rr = "0".charCodeAt(0);
|
||||
for(vv = 0; vv <= 9; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "a".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "A".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
|
||||
function int2char(n) { return BI_RM.charAt(n); }
|
||||
function intAt(s,i) {
|
||||
var c = BI_RC[s.charCodeAt(i)];
|
||||
return (c==null)?-1:c;
|
||||
}
|
||||
|
||||
// (protected) copy this to r
|
||||
function bnpCopyTo(r) {
|
||||
for(var i = this.t-1; i >= 0; --i) r[i] = this[i];
|
||||
r.t = this.t;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) set from integer value x, -DV <= x < DV
|
||||
function bnpFromInt(x) {
|
||||
this.t = 1;
|
||||
this.s = (x<0)?-1:0;
|
||||
if(x > 0) this[0] = x;
|
||||
else if(x < -1) this[0] = x+DV;
|
||||
else this.t = 0;
|
||||
}
|
||||
|
||||
// return bigint initialized to value
|
||||
function nbv(i) { var r = nbi(); r.fromInt(i); return r; }
|
||||
|
||||
// (protected) set from string and radix
|
||||
function bnpFromString(s,b) {
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 256) k = 8; // byte array
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else { this.fromRadix(s,b); return; }
|
||||
this.t = 0;
|
||||
this.s = 0;
|
||||
var i = s.length, mi = false, sh = 0;
|
||||
while(--i >= 0) {
|
||||
var x = (k==8)?s[i]&0xff:intAt(s,i);
|
||||
if(x < 0) {
|
||||
if(s.charAt(i) == "-") mi = true;
|
||||
continue;
|
||||
}
|
||||
mi = false;
|
||||
if(sh == 0)
|
||||
this[this.t++] = x;
|
||||
else if(sh+k > this.DB) {
|
||||
this[this.t-1] |= (x&((1<<(this.DB-sh))-1))<<sh;
|
||||
this[this.t++] = (x>>(this.DB-sh));
|
||||
}
|
||||
else
|
||||
this[this.t-1] |= x<<sh;
|
||||
sh += k;
|
||||
if(sh >= this.DB) sh -= this.DB;
|
||||
}
|
||||
if(k == 8 && (s[0]&0x80) != 0) {
|
||||
this.s = -1;
|
||||
if(sh > 0) this[this.t-1] |= ((1<<(this.DB-sh))-1)<<sh;
|
||||
}
|
||||
this.clamp();
|
||||
if(mi) BigInteger.ZERO.subTo(this,this);
|
||||
}
|
||||
|
||||
// (protected) clamp off excess high words
|
||||
function bnpClamp() {
|
||||
var c = this.s&this.DM;
|
||||
while(this.t > 0 && this[this.t-1] == c) --this.t;
|
||||
}
|
||||
|
||||
// (public) return string representation in given radix
|
||||
function bnToString(b) {
|
||||
if(this.s < 0) return "-"+this.negate().toString(b);
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else return this.toRadix(b);
|
||||
var km = (1<<k)-1, d, m = false, r = "", i = this.t;
|
||||
var p = this.DB-(i*this.DB)%k;
|
||||
if(i-- > 0) {
|
||||
if(p < this.DB && (d = this[i]>>p) > 0) { m = true; r = int2char(d); }
|
||||
while(i >= 0) {
|
||||
if(p < k) {
|
||||
d = (this[i]&((1<<p)-1))<<(k-p);
|
||||
d |= this[--i]>>(p+=this.DB-k);
|
||||
}
|
||||
else {
|
||||
d = (this[i]>>(p-=k))&km;
|
||||
if(p <= 0) { p += this.DB; --i; }
|
||||
}
|
||||
if(d > 0) m = true;
|
||||
if(m) r += int2char(d);
|
||||
}
|
||||
}
|
||||
return m?r:"0";
|
||||
}
|
||||
|
||||
// (public) -this
|
||||
function bnNegate() { var r = nbi(); BigInteger.ZERO.subTo(this,r); return r; }
|
||||
|
||||
// (public) |this|
|
||||
function bnAbs() { return (this.s<0)?this.negate():this; }
|
||||
|
||||
// (public) return + if this > a, - if this < a, 0 if equal
|
||||
function bnCompareTo(a) {
|
||||
var r = this.s-a.s;
|
||||
if(r != 0) return r;
|
||||
var i = this.t;
|
||||
r = i-a.t;
|
||||
if(r != 0) return r;
|
||||
while(--i >= 0) if((r=this[i]-a[i]) != 0) return r;
|
||||
return 0;
|
||||
}
|
||||
|
||||
// returns bit length of the integer x
|
||||
function nbits(x) {
|
||||
var r = 1, t;
|
||||
if((t=x>>>16) != 0) { x = t; r += 16; }
|
||||
if((t=x>>8) != 0) { x = t; r += 8; }
|
||||
if((t=x>>4) != 0) { x = t; r += 4; }
|
||||
if((t=x>>2) != 0) { x = t; r += 2; }
|
||||
if((t=x>>1) != 0) { x = t; r += 1; }
|
||||
return r;
|
||||
}
|
||||
|
||||
// (public) return the number of bits in "this"
|
||||
function bnBitLength() {
|
||||
if(this.t <= 0) return 0;
|
||||
return this.DB*(this.t-1)+nbits(this[this.t-1]^(this.s&this.DM));
|
||||
}
|
||||
|
||||
// (protected) r = this << n*DB
|
||||
function bnpDLShiftTo(n,r) {
|
||||
var i;
|
||||
for(i = this.t-1; i >= 0; --i) r[i+n] = this[i];
|
||||
for(i = n-1; i >= 0; --i) r[i] = 0;
|
||||
r.t = this.t+n;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this >> n*DB
|
||||
function bnpDRShiftTo(n,r) {
|
||||
for(var i = n; i < this.t; ++i) r[i-n] = this[i];
|
||||
r.t = Math.max(this.t-n,0);
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this << n
|
||||
function bnpLShiftTo(n,r) {
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<cbs)-1;
|
||||
var ds = Math.floor(n/this.DB), c = (this.s<<bs)&this.DM, i;
|
||||
for(i = this.t-1; i >= 0; --i) {
|
||||
r[i+ds+1] = (this[i]>>cbs)|c;
|
||||
c = (this[i]&bm)<<bs;
|
||||
}
|
||||
for(i = ds-1; i >= 0; --i) r[i] = 0;
|
||||
r[ds] = c;
|
||||
r.t = this.t+ds+1;
|
||||
r.s = this.s;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this >> n
|
||||
function bnpRShiftTo(n,r) {
|
||||
r.s = this.s;
|
||||
var ds = Math.floor(n/this.DB);
|
||||
if(ds >= this.t) { r.t = 0; return; }
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<bs)-1;
|
||||
r[0] = this[ds]>>bs;
|
||||
for(var i = ds+1; i < this.t; ++i) {
|
||||
r[i-ds-1] |= (this[i]&bm)<<cbs;
|
||||
r[i-ds] = this[i]>>bs;
|
||||
}
|
||||
if(bs > 0) r[this.t-ds-1] |= (this.s&bm)<<cbs;
|
||||
r.t = this.t-ds;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this - a
|
||||
function bnpSubTo(a,r) {
|
||||
var i = 0, c = 0, m = Math.min(a.t,this.t);
|
||||
while(i < m) {
|
||||
c += this[i]-a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
if(a.t < this.t) {
|
||||
c -= a.s;
|
||||
while(i < this.t) {
|
||||
c += this[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c += this.s;
|
||||
}
|
||||
else {
|
||||
c += this.s;
|
||||
while(i < a.t) {
|
||||
c -= a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c -= a.s;
|
||||
}
|
||||
r.s = (c<0)?-1:0;
|
||||
if(c < -1) r[i++] = this.DV+c;
|
||||
else if(c > 0) r[i++] = c;
|
||||
r.t = i;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this * a, r != this,a (HAC 14.12)
|
||||
// "this" should be the larger one if appropriate.
|
||||
function bnpMultiplyTo(a,r) {
|
||||
var x = this.abs(), y = a.abs();
|
||||
var i = x.t;
|
||||
r.t = i+y.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < y.t; ++i) r[i+x.t] = x.am(0,y[i],r,i,0,x.t);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
if(this.s != a.s) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (protected) r = this^2, r != this (HAC 14.16)
|
||||
function bnpSquareTo(r) {
|
||||
var x = this.abs();
|
||||
var i = r.t = 2*x.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < x.t-1; ++i) {
|
||||
var c = x.am(i,x[i],r,2*i,0,1);
|
||||
if((r[i+x.t]+=x.am(i+1,2*x[i],r,2*i+1,c,x.t-i-1)) >= x.DV) {
|
||||
r[i+x.t] -= x.DV;
|
||||
r[i+x.t+1] = 1;
|
||||
}
|
||||
}
|
||||
if(r.t > 0) r[r.t-1] += x.am(i,x[i],r,2*i,0,1);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) divide this by m, quotient and remainder to q, r (HAC 14.20)
|
||||
// r != q, this != m. q or r may be null.
|
||||
function bnpDivRemTo(m,q,r) {
|
||||
var pm = m.abs();
|
||||
if(pm.t <= 0) return;
|
||||
var pt = this.abs();
|
||||
if(pt.t < pm.t) {
|
||||
if(q != null) q.fromInt(0);
|
||||
if(r != null) this.copyTo(r);
|
||||
return;
|
||||
}
|
||||
if(r == null) r = nbi();
|
||||
var y = nbi(), ts = this.s, ms = m.s;
|
||||
var nsh = this.DB-nbits(pm[pm.t-1]); // normalize modulus
|
||||
if(nsh > 0) { pm.lShiftTo(nsh,y); pt.lShiftTo(nsh,r); }
|
||||
else { pm.copyTo(y); pt.copyTo(r); }
|
||||
var ys = y.t;
|
||||
var y0 = y[ys-1];
|
||||
if(y0 == 0) return;
|
||||
var yt = y0*(1<<this.F1)+((ys>1)?y[ys-2]>>this.F2:0);
|
||||
var d1 = this.FV/yt, d2 = (1<<this.F1)/yt, e = 1<<this.F2;
|
||||
var i = r.t, j = i-ys, t = (q==null)?nbi():q;
|
||||
y.dlShiftTo(j,t);
|
||||
if(r.compareTo(t) >= 0) {
|
||||
r[r.t++] = 1;
|
||||
r.subTo(t,r);
|
||||
}
|
||||
BigInteger.ONE.dlShiftTo(ys,t);
|
||||
t.subTo(y,y); // "negative" y so we can replace sub with am later
|
||||
while(y.t < ys) y[y.t++] = 0;
|
||||
while(--j >= 0) {
|
||||
// Estimate quotient digit
|
||||
var qd = (r[--i]==y0)?this.DM:Math.floor(r[i]*d1+(r[i-1]+e)*d2);
|
||||
if((r[i]+=y.am(0,qd,r,j,0,ys)) < qd) { // Try it out
|
||||
y.dlShiftTo(j,t);
|
||||
r.subTo(t,r);
|
||||
while(r[i] < --qd) r.subTo(t,r);
|
||||
}
|
||||
}
|
||||
if(q != null) {
|
||||
r.drShiftTo(ys,q);
|
||||
if(ts != ms) BigInteger.ZERO.subTo(q,q);
|
||||
}
|
||||
r.t = ys;
|
||||
r.clamp();
|
||||
if(nsh > 0) r.rShiftTo(nsh,r); // Denormalize remainder
|
||||
if(ts < 0) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (public) this mod a
|
||||
function bnMod(a) {
|
||||
var r = nbi();
|
||||
this.abs().divRemTo(a,null,r);
|
||||
if(this.s < 0 && r.compareTo(BigInteger.ZERO) > 0) a.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// Modular reduction using "classic" algorithm
|
||||
function Classic(m) { this.m = m; }
|
||||
function cConvert(x) {
|
||||
if(x.s < 0 || x.compareTo(this.m) >= 0) return x.mod(this.m);
|
||||
else return x;
|
||||
}
|
||||
function cRevert(x) { return x; }
|
||||
function cReduce(x) { x.divRemTo(this.m,null,x); }
|
||||
function cMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
function cSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
Classic.prototype.convert = cConvert;
|
||||
Classic.prototype.revert = cRevert;
|
||||
Classic.prototype.reduce = cReduce;
|
||||
Classic.prototype.mulTo = cMulTo;
|
||||
Classic.prototype.sqrTo = cSqrTo;
|
||||
|
||||
// (protected) return "-1/this % 2^DB"; useful for Mont. reduction
|
||||
// justification:
|
||||
// xy == 1 (mod m)
|
||||
// xy = 1+km
|
||||
// xy(2-xy) = (1+km)(1-km)
|
||||
// x[y(2-xy)] = 1-k^2m^2
|
||||
// x[y(2-xy)] == 1 (mod m^2)
|
||||
// if y is 1/x mod m, then y(2-xy) is 1/x mod m^2
|
||||
// should reduce x and y(2-xy) by m^2 at each step to keep size bounded.
|
||||
// JS multiply "overflows" differently from C/C++, so care is needed here.
|
||||
function bnpInvDigit() {
|
||||
if(this.t < 1) return 0;
|
||||
var x = this[0];
|
||||
if((x&1) == 0) return 0;
|
||||
var y = x&3; // y == 1/x mod 2^2
|
||||
y = (y*(2-(x&0xf)*y))&0xf; // y == 1/x mod 2^4
|
||||
y = (y*(2-(x&0xff)*y))&0xff; // y == 1/x mod 2^8
|
||||
y = (y*(2-(((x&0xffff)*y)&0xffff)))&0xffff; // y == 1/x mod 2^16
|
||||
// last step - calculate inverse mod DV directly;
|
||||
// assumes 16 < DB <= 32 and assumes ability to handle 48-bit ints
|
||||
y = (y*(2-x*y%this.DV))%this.DV; // y == 1/x mod 2^dbits
|
||||
// we really want the negative inverse, and -DV < y < DV
|
||||
return (y>0)?this.DV-y:-y;
|
||||
}
|
||||
|
||||
// Montgomery reduction
|
||||
function Montgomery(m) {
|
||||
this.m = m;
|
||||
this.mp = m.invDigit();
|
||||
this.mpl = this.mp&0x7fff;
|
||||
this.mph = this.mp>>15;
|
||||
this.um = (1<<(m.DB-15))-1;
|
||||
this.mt2 = 2*m.t;
|
||||
}
|
||||
|
||||
// xR mod m
|
||||
function montConvert(x) {
|
||||
var r = nbi();
|
||||
x.abs().dlShiftTo(this.m.t,r);
|
||||
r.divRemTo(this.m,null,r);
|
||||
if(x.s < 0 && r.compareTo(BigInteger.ZERO) > 0) this.m.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x/R mod m
|
||||
function montRevert(x) {
|
||||
var r = nbi();
|
||||
x.copyTo(r);
|
||||
this.reduce(r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x = x/R mod m (HAC 14.32)
|
||||
function montReduce(x) {
|
||||
while(x.t <= this.mt2) // pad x so am has enough room later
|
||||
x[x.t++] = 0;
|
||||
for(var i = 0; i < this.m.t; ++i) {
|
||||
// faster way of calculating u0 = x[i]*mp mod DV
|
||||
var j = x[i]&0x7fff;
|
||||
var u0 = (j*this.mpl+(((j*this.mph+(x[i]>>15)*this.mpl)&this.um)<<15))&x.DM;
|
||||
// use am to combine the multiply-shift-add into one call
|
||||
j = i+this.m.t;
|
||||
x[j] += this.m.am(0,u0,x,i,0,this.m.t);
|
||||
// propagate carry
|
||||
while(x[j] >= x.DV) { x[j] -= x.DV; x[++j]++; }
|
||||
}
|
||||
x.clamp();
|
||||
x.drShiftTo(this.m.t,x);
|
||||
if(x.compareTo(this.m) >= 0) x.subTo(this.m,x);
|
||||
}
|
||||
|
||||
// r = "x^2/R mod m"; x != r
|
||||
function montSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
// r = "xy/R mod m"; x,y != r
|
||||
function montMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
|
||||
Montgomery.prototype.convert = montConvert;
|
||||
Montgomery.prototype.revert = montRevert;
|
||||
Montgomery.prototype.reduce = montReduce;
|
||||
Montgomery.prototype.mulTo = montMulTo;
|
||||
Montgomery.prototype.sqrTo = montSqrTo;
|
||||
|
||||
// (protected) true iff this is even
|
||||
function bnpIsEven() { return ((this.t>0)?(this[0]&1):this.s) == 0; }
|
||||
|
||||
// (protected) this^e, e < 2^32, doing sqr and mul with "r" (HAC 14.79)
|
||||
function bnpExp(e,z) {
|
||||
if(e > 0xffffffff || e < 1) return BigInteger.ONE;
|
||||
var r = nbi(), r2 = nbi(), g = z.convert(this), i = nbits(e)-1;
|
||||
g.copyTo(r);
|
||||
while(--i >= 0) {
|
||||
z.sqrTo(r,r2);
|
||||
if((e&(1<<i)) > 0) z.mulTo(r2,g,r);
|
||||
else { var t = r; r = r2; r2 = t; }
|
||||
}
|
||||
return z.revert(r);
|
||||
}
|
||||
|
||||
// (public) this^e % m, 0 <= e < 2^32
|
||||
function bnModPowInt(e,m) {
|
||||
var z;
|
||||
if(e < 256 || m.isEven()) z = new Classic(m); else z = new Montgomery(m);
|
||||
return this.exp(e,z);
|
||||
}
|
||||
|
||||
// protected
|
||||
BigInteger.prototype.copyTo = bnpCopyTo;
|
||||
BigInteger.prototype.fromInt = bnpFromInt;
|
||||
BigInteger.prototype.fromString = bnpFromString;
|
||||
BigInteger.prototype.clamp = bnpClamp;
|
||||
BigInteger.prototype.dlShiftTo = bnpDLShiftTo;
|
||||
BigInteger.prototype.drShiftTo = bnpDRShiftTo;
|
||||
BigInteger.prototype.lShiftTo = bnpLShiftTo;
|
||||
BigInteger.prototype.rShiftTo = bnpRShiftTo;
|
||||
BigInteger.prototype.subTo = bnpSubTo;
|
||||
BigInteger.prototype.multiplyTo = bnpMultiplyTo;
|
||||
BigInteger.prototype.squareTo = bnpSquareTo;
|
||||
BigInteger.prototype.divRemTo = bnpDivRemTo;
|
||||
BigInteger.prototype.invDigit = bnpInvDigit;
|
||||
BigInteger.prototype.isEven = bnpIsEven;
|
||||
BigInteger.prototype.exp = bnpExp;
|
||||
|
||||
// public
|
||||
BigInteger.prototype.toString = bnToString;
|
||||
BigInteger.prototype.negate = bnNegate;
|
||||
BigInteger.prototype.abs = bnAbs;
|
||||
BigInteger.prototype.compareTo = bnCompareTo;
|
||||
BigInteger.prototype.bitLength = bnBitLength;
|
||||
BigInteger.prototype.mod = bnMod;
|
||||
BigInteger.prototype.modPowInt = bnModPowInt;
|
||||
|
||||
// "constants"
|
||||
BigInteger.ZERO = nbv(0);
|
||||
BigInteger.ONE = nbv(1);
|
||||
|
||||
@@ -0,0 +1,47 @@
|
||||
// ==== File: prng4.js
|
||||
// prng4.js - uses Arcfour as a PRNG
|
||||
|
||||
function Arcfour() {
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
this.S = new Array();
|
||||
}
|
||||
|
||||
// Initialize arcfour context from key, an array of ints, each from [0..255]
|
||||
function ARC4init(key) {
|
||||
var i, j, t;
|
||||
for(i = 0; i < 256; ++i)
|
||||
this.S[i] = i;
|
||||
j = 0;
|
||||
for(i = 0; i < 256; ++i) {
|
||||
j = (j + this.S[i] + key[i % key.length]) & 255;
|
||||
t = this.S[i];
|
||||
this.S[i] = this.S[j];
|
||||
this.S[j] = t;
|
||||
}
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
}
|
||||
|
||||
function ARC4next() {
|
||||
var t;
|
||||
this.i = (this.i + 1) & 255;
|
||||
this.j = (this.j + this.S[this.i]) & 255;
|
||||
t = this.S[this.i];
|
||||
this.S[this.i] = this.S[this.j];
|
||||
this.S[this.j] = t;
|
||||
return this.S[(t + this.S[this.i]) & 255];
|
||||
}
|
||||
|
||||
Arcfour.prototype.init = ARC4init;
|
||||
Arcfour.prototype.next = ARC4next;
|
||||
|
||||
// Plug in your RNG constructor here
|
||||
function prng_newstate() {
|
||||
return new Arcfour();
|
||||
}
|
||||
|
||||
// Pool size must be a multiple of 4 and greater than 32.
|
||||
// An array of bytes the size of the pool will be passed to init()
|
||||
var rng_psize = 256;
|
||||
|
||||
@@ -0,0 +1,70 @@
|
||||
// ==== File: rng.js
|
||||
// Random number generator - requires a PRNG backend, e.g. prng4.js
|
||||
|
||||
// For best results, put code like
|
||||
// <body onClick='rng_seed_time();' onKeyPress='rng_seed_time();'>
|
||||
// in your main HTML document.
|
||||
|
||||
var rng_state;
|
||||
var rng_pool;
|
||||
var rng_pptr;
|
||||
|
||||
// Mix in a 32-bit integer into the pool
|
||||
function rng_seed_int(x) {
|
||||
rng_pool[rng_pptr++] ^= x & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 8) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 16) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 24) & 255;
|
||||
if(rng_pptr >= rng_psize) rng_pptr -= rng_psize;
|
||||
}
|
||||
|
||||
// Mix in the current time (w/milliseconds) into the pool
|
||||
function rng_seed_time() {
|
||||
rng_seed_int(new Date().getTime());
|
||||
}
|
||||
|
||||
// Initialize the pool with junk if needed.
|
||||
if(rng_pool == null) {
|
||||
rng_pool = new Array();
|
||||
rng_pptr = 0;
|
||||
var t;
|
||||
if(navigator.appName == "Netscape" && navigator.appVersion < "5" && window.crypto) {
|
||||
// Extract entropy (256 bits) from NS4 RNG if available
|
||||
var z = window.crypto.random(32);
|
||||
for(t = 0; t < z.length; ++t)
|
||||
rng_pool[rng_pptr++] = z.charCodeAt(t) & 255;
|
||||
}
|
||||
while(rng_pptr < rng_psize) { // extract some randomness from Math.random()
|
||||
t = Math.floor(65536 * Math.random());
|
||||
rng_pool[rng_pptr++] = t >>> 8;
|
||||
rng_pool[rng_pptr++] = t & 255;
|
||||
}
|
||||
rng_pptr = 0;
|
||||
rng_seed_time();
|
||||
//rng_seed_int(window.screenX);
|
||||
//rng_seed_int(window.screenY);
|
||||
}
|
||||
|
||||
function rng_get_byte() {
|
||||
if(rng_state == null) {
|
||||
rng_seed_time();
|
||||
rng_state = prng_newstate();
|
||||
rng_state.init(rng_pool);
|
||||
for(rng_pptr = 0; rng_pptr < rng_pool.length; ++rng_pptr)
|
||||
rng_pool[rng_pptr] = 0;
|
||||
rng_pptr = 0;
|
||||
//rng_pool = null;
|
||||
}
|
||||
// TODO: allow reseeding after first request
|
||||
return rng_state.next();
|
||||
}
|
||||
|
||||
function rng_get_bytes(ba) {
|
||||
var i;
|
||||
for(i = 0; i < ba.length; ++i) ba[i] = rng_get_byte();
|
||||
}
|
||||
|
||||
function SecureRandom() {}
|
||||
|
||||
SecureRandom.prototype.nextBytes = rng_get_bytes;
|
||||
|
||||
@@ -0,0 +1,114 @@
|
||||
// ==== File: rsa.js
|
||||
// Depends on jsbn.js and rng.js
|
||||
|
||||
// Version 1.1: support utf-8 encoding in pkcs1pad2
|
||||
|
||||
// convert a (hex) string to a bignum object
|
||||
function parseBigInt(str,r) {
|
||||
return new BigInteger(str,r);
|
||||
}
|
||||
|
||||
function linebrk(s,n) {
|
||||
var ret = "";
|
||||
var i = 0;
|
||||
while(i + n < s.length) {
|
||||
ret += s.substring(i,i+n) + "\n";
|
||||
i += n;
|
||||
}
|
||||
return ret + s.substring(i,s.length);
|
||||
}
|
||||
|
||||
function byte2Hex(b) {
|
||||
if(b < 0x10)
|
||||
return "0" + b.toString(16);
|
||||
else
|
||||
return b.toString(16);
|
||||
}
|
||||
|
||||
// PKCS#1 (type 2, random) pad input string s to n bytes, and return a bigint
|
||||
function pkcs1pad2(s,n) {
|
||||
if(n < s.length + 11) { // TODO: fix for utf-8
|
||||
alert("Message too long for RSA");
|
||||
return null;
|
||||
}
|
||||
var ba = new Array();
|
||||
var i = s.length - 1;
|
||||
while(i >= 0 && n > 0) {
|
||||
var c = s.charCodeAt(i--);
|
||||
if(c < 128) { // encode using utf-8
|
||||
ba[--n] = c;
|
||||
}
|
||||
else if((c > 127) && (c < 2048)) {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = (c >> 6) | 192;
|
||||
}
|
||||
else {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = ((c >> 6) & 63) | 128;
|
||||
ba[--n] = (c >> 12) | 224;
|
||||
}
|
||||
}
|
||||
ba[--n] = 0;
|
||||
var rng = new SecureRandom();
|
||||
var x = new Array();
|
||||
while(n > 2) { // random non-zero pad
|
||||
x[0] = 0;
|
||||
while(x[0] == 0) rng.nextBytes(x);
|
||||
ba[--n] = x[0];
|
||||
}
|
||||
ba[--n] = 2;
|
||||
ba[--n] = 0;
|
||||
return new BigInteger(ba);
|
||||
}
|
||||
|
||||
// "empty" RSA key constructor
|
||||
function RSAKey() {
|
||||
this.n = null;
|
||||
this.e = 0;
|
||||
this.d = null;
|
||||
this.p = null;
|
||||
this.q = null;
|
||||
this.dmp1 = null;
|
||||
this.dmq1 = null;
|
||||
this.coeff = null;
|
||||
}
|
||||
|
||||
// Set the public key fields N and e from hex strings
|
||||
function RSASetPublic(N,E) {
|
||||
if(N != null && E != null && N.length > 0 && E.length > 0) {
|
||||
this.n = parseBigInt(N,16);
|
||||
this.e = parseInt(E,16);
|
||||
}
|
||||
else
|
||||
alert("Invalid RSA public key");
|
||||
}
|
||||
|
||||
// Perform raw public operation on "x": return x^e (mod n)
|
||||
function RSADoPublic(x) {
|
||||
return x.modPowInt(this.e, this.n);
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as an even-length hex string
|
||||
function RSAEncrypt(text) {
|
||||
var m = pkcs1pad2(text,(this.n.bitLength()+7)>>3);
|
||||
if(m == null) return null;
|
||||
var c = this.doPublic(m);
|
||||
if(c == null) return null;
|
||||
var h = c.toString(16);
|
||||
if((h.length & 1) == 0) return h; else return "0" + h;
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as a Base64-encoded string
|
||||
//function RSAEncryptB64(text) {
|
||||
// var h = this.encrypt(text);
|
||||
// if(h) return hex2b64(h); else return null;
|
||||
//}
|
||||
|
||||
// protected
|
||||
RSAKey.prototype.doPublic = RSADoPublic;
|
||||
|
||||
// public
|
||||
RSAKey.prototype.setPublic = RSASetPublic;
|
||||
RSAKey.prototype.encrypt = RSAEncrypt;
|
||||
//RSAKey.prototype.encrypt_b64 = RSAEncryptB64;
|
||||
|
||||
@@ -0,0 +1,861 @@
|
||||
// Downloaded from http://www-cs-students.stanford.edu/~tjw/ at Tue Nov 30 00:42:57 PST 2010
|
||||
// ==== File: jsbn.js
|
||||
// Copyright (c) 2005 Tom Wu
|
||||
// All Rights Reserved.
|
||||
// See "LICENSE" for details.
|
||||
|
||||
// Basic JavaScript BN library - subset useful for RSA encryption.
|
||||
|
||||
// Bits per digit
|
||||
var dbits;
|
||||
|
||||
// JavaScript engine analysis
|
||||
var canary = 0xdeadbeefcafe;
|
||||
var j_lm = ((canary&0xffffff)==0xefcafe);
|
||||
|
||||
// (public) Constructor
|
||||
function BigInteger(a,b,c) {
|
||||
if(a != null)
|
||||
if("number" == typeof a) this.fromNumber(a,b,c);
|
||||
else if(b == null && "string" != typeof a) this.fromString(a,256);
|
||||
else this.fromString(a,b);
|
||||
}
|
||||
|
||||
// return new, unset BigInteger
|
||||
function nbi() { return new BigInteger(null); }
|
||||
|
||||
// am: Compute w_j += (x*this_i), propagate carries,
|
||||
// c is initial carry, returns final carry.
|
||||
// c < 3*dvalue, x < 2*dvalue, this_i < dvalue
|
||||
// We need to select the fastest one that works in this environment.
|
||||
|
||||
// am1: use a single mult and divide to get the high bits,
|
||||
// max digit bits should be 26 because
|
||||
// max internal value = 2*dvalue^2-2*dvalue (< 2^53)
|
||||
function am1(i,x,w,j,c,n) {
|
||||
while(--n >= 0) {
|
||||
var v = x*this[i++]+w[j]+c;
|
||||
c = Math.floor(v/0x4000000);
|
||||
w[j++] = v&0x3ffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// am2 avoids a big mult-and-extract completely.
|
||||
// Max digit bits should be <= 30 because we do bitwise ops
|
||||
// on values up to 2*hdvalue^2-hdvalue-1 (< 2^31)
|
||||
function am2(i,x,w,j,c,n) {
|
||||
var xl = x&0x7fff, xh = x>>15;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x7fff;
|
||||
var h = this[i++]>>15;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x7fff)<<15)+w[j]+(c&0x3fffffff);
|
||||
c = (l>>>30)+(m>>>15)+xh*h+(c>>>30);
|
||||
w[j++] = l&0x3fffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// Alternately, set max digit bits to 28 since some
|
||||
// browsers slow down when dealing with 32-bit numbers.
|
||||
function am3(i,x,w,j,c,n) {
|
||||
var xl = x&0x3fff, xh = x>>14;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x3fff;
|
||||
var h = this[i++]>>14;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x3fff)<<14)+w[j]+c;
|
||||
c = (l>>28)+(m>>14)+xh*h;
|
||||
w[j++] = l&0xfffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
if(j_lm && (navigator.appName == "Microsoft Internet Explorer")) {
|
||||
BigInteger.prototype.am = am2;
|
||||
dbits = 30;
|
||||
}
|
||||
else if(j_lm && (navigator.appName != "Netscape")) {
|
||||
BigInteger.prototype.am = am1;
|
||||
dbits = 26;
|
||||
}
|
||||
else { // Mozilla/Netscape seems to prefer am3
|
||||
BigInteger.prototype.am = am3;
|
||||
dbits = 28;
|
||||
}
|
||||
|
||||
BigInteger.prototype.DB = dbits;
|
||||
BigInteger.prototype.DM = ((1<<dbits)-1);
|
||||
BigInteger.prototype.DV = (1<<dbits);
|
||||
|
||||
var BI_FP = 52;
|
||||
BigInteger.prototype.FV = Math.pow(2,BI_FP);
|
||||
BigInteger.prototype.F1 = BI_FP-dbits;
|
||||
BigInteger.prototype.F2 = 2*dbits-BI_FP;
|
||||
|
||||
// Digit conversions
|
||||
var BI_RM = "0123456789abcdefghijklmnopqrstuvwxyz";
|
||||
var BI_RC = new Array();
|
||||
var rr,vv;
|
||||
rr = "0".charCodeAt(0);
|
||||
for(vv = 0; vv <= 9; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "a".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "A".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
|
||||
function int2char(n) { return BI_RM.charAt(n); }
|
||||
function intAt(s,i) {
|
||||
var c = BI_RC[s.charCodeAt(i)];
|
||||
return (c==null)?-1:c;
|
||||
}
|
||||
|
||||
// (protected) copy this to r
|
||||
function bnpCopyTo(r) {
|
||||
for(var i = this.t-1; i >= 0; --i) r[i] = this[i];
|
||||
r.t = this.t;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) set from integer value x, -DV <= x < DV
|
||||
function bnpFromInt(x) {
|
||||
this.t = 1;
|
||||
this.s = (x<0)?-1:0;
|
||||
if(x > 0) this[0] = x;
|
||||
else if(x < -1) this[0] = x+DV;
|
||||
else this.t = 0;
|
||||
}
|
||||
|
||||
// return bigint initialized to value
|
||||
function nbv(i) { var r = nbi(); r.fromInt(i); return r; }
|
||||
|
||||
// (protected) set from string and radix
|
||||
function bnpFromString(s,b) {
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 256) k = 8; // byte array
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else { this.fromRadix(s,b); return; }
|
||||
this.t = 0;
|
||||
this.s = 0;
|
||||
var i = s.length, mi = false, sh = 0;
|
||||
while(--i >= 0) {
|
||||
var x = (k==8)?s[i]&0xff:intAt(s,i);
|
||||
if(x < 0) {
|
||||
if(s.charAt(i) == "-") mi = true;
|
||||
continue;
|
||||
}
|
||||
mi = false;
|
||||
if(sh == 0)
|
||||
this[this.t++] = x;
|
||||
else if(sh+k > this.DB) {
|
||||
this[this.t-1] |= (x&((1<<(this.DB-sh))-1))<<sh;
|
||||
this[this.t++] = (x>>(this.DB-sh));
|
||||
}
|
||||
else
|
||||
this[this.t-1] |= x<<sh;
|
||||
sh += k;
|
||||
if(sh >= this.DB) sh -= this.DB;
|
||||
}
|
||||
if(k == 8 && (s[0]&0x80) != 0) {
|
||||
this.s = -1;
|
||||
if(sh > 0) this[this.t-1] |= ((1<<(this.DB-sh))-1)<<sh;
|
||||
}
|
||||
this.clamp();
|
||||
if(mi) BigInteger.ZERO.subTo(this,this);
|
||||
}
|
||||
|
||||
// (protected) clamp off excess high words
|
||||
function bnpClamp() {
|
||||
var c = this.s&this.DM;
|
||||
while(this.t > 0 && this[this.t-1] == c) --this.t;
|
||||
}
|
||||
|
||||
// (public) return string representation in given radix
|
||||
function bnToString(b) {
|
||||
if(this.s < 0) return "-"+this.negate().toString(b);
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else return this.toRadix(b);
|
||||
var km = (1<<k)-1, d, m = false, r = "", i = this.t;
|
||||
var p = this.DB-(i*this.DB)%k;
|
||||
if(i-- > 0) {
|
||||
if(p < this.DB && (d = this[i]>>p) > 0) { m = true; r = int2char(d); }
|
||||
while(i >= 0) {
|
||||
if(p < k) {
|
||||
d = (this[i]&((1<<p)-1))<<(k-p);
|
||||
d |= this[--i]>>(p+=this.DB-k);
|
||||
}
|
||||
else {
|
||||
d = (this[i]>>(p-=k))&km;
|
||||
if(p <= 0) { p += this.DB; --i; }
|
||||
}
|
||||
if(d > 0) m = true;
|
||||
if(m) r += int2char(d);
|
||||
}
|
||||
}
|
||||
return m?r:"0";
|
||||
}
|
||||
|
||||
// (public) -this
|
||||
function bnNegate() { var r = nbi(); BigInteger.ZERO.subTo(this,r); return r; }
|
||||
|
||||
// (public) |this|
|
||||
function bnAbs() { return (this.s<0)?this.negate():this; }
|
||||
|
||||
// (public) return + if this > a, - if this < a, 0 if equal
|
||||
function bnCompareTo(a) {
|
||||
var r = this.s-a.s;
|
||||
if(r != 0) return r;
|
||||
var i = this.t;
|
||||
r = i-a.t;
|
||||
if(r != 0) return r;
|
||||
while(--i >= 0) if((r=this[i]-a[i]) != 0) return r;
|
||||
return 0;
|
||||
}
|
||||
|
||||
// returns bit length of the integer x
|
||||
function nbits(x) {
|
||||
var r = 1, t;
|
||||
if((t=x>>>16) != 0) { x = t; r += 16; }
|
||||
if((t=x>>8) != 0) { x = t; r += 8; }
|
||||
if((t=x>>4) != 0) { x = t; r += 4; }
|
||||
if((t=x>>2) != 0) { x = t; r += 2; }
|
||||
if((t=x>>1) != 0) { x = t; r += 1; }
|
||||
return r;
|
||||
}
|
||||
|
||||
// (public) return the number of bits in "this"
|
||||
function bnBitLength() {
|
||||
if(this.t <= 0) return 0;
|
||||
return this.DB*(this.t-1)+nbits(this[this.t-1]^(this.s&this.DM));
|
||||
}
|
||||
|
||||
// (protected) r = this << n*DB
|
||||
function bnpDLShiftTo(n,r) {
|
||||
var i;
|
||||
for(i = this.t-1; i >= 0; --i) r[i+n] = this[i];
|
||||
for(i = n-1; i >= 0; --i) r[i] = 0;
|
||||
r.t = this.t+n;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this >> n*DB
|
||||
function bnpDRShiftTo(n,r) {
|
||||
for(var i = n; i < this.t; ++i) r[i-n] = this[i];
|
||||
r.t = Math.max(this.t-n,0);
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this << n
|
||||
function bnpLShiftTo(n,r) {
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<cbs)-1;
|
||||
var ds = Math.floor(n/this.DB), c = (this.s<<bs)&this.DM, i;
|
||||
for(i = this.t-1; i >= 0; --i) {
|
||||
r[i+ds+1] = (this[i]>>cbs)|c;
|
||||
c = (this[i]&bm)<<bs;
|
||||
}
|
||||
for(i = ds-1; i >= 0; --i) r[i] = 0;
|
||||
r[ds] = c;
|
||||
r.t = this.t+ds+1;
|
||||
r.s = this.s;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this >> n
|
||||
function bnpRShiftTo(n,r) {
|
||||
r.s = this.s;
|
||||
var ds = Math.floor(n/this.DB);
|
||||
if(ds >= this.t) { r.t = 0; return; }
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<bs)-1;
|
||||
r[0] = this[ds]>>bs;
|
||||
for(var i = ds+1; i < this.t; ++i) {
|
||||
r[i-ds-1] |= (this[i]&bm)<<cbs;
|
||||
r[i-ds] = this[i]>>bs;
|
||||
}
|
||||
if(bs > 0) r[this.t-ds-1] |= (this.s&bm)<<cbs;
|
||||
r.t = this.t-ds;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this - a
|
||||
function bnpSubTo(a,r) {
|
||||
var i = 0, c = 0, m = Math.min(a.t,this.t);
|
||||
while(i < m) {
|
||||
c += this[i]-a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
if(a.t < this.t) {
|
||||
c -= a.s;
|
||||
while(i < this.t) {
|
||||
c += this[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c += this.s;
|
||||
}
|
||||
else {
|
||||
c += this.s;
|
||||
while(i < a.t) {
|
||||
c -= a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c -= a.s;
|
||||
}
|
||||
r.s = (c<0)?-1:0;
|
||||
if(c < -1) r[i++] = this.DV+c;
|
||||
else if(c > 0) r[i++] = c;
|
||||
r.t = i;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this * a, r != this,a (HAC 14.12)
|
||||
// "this" should be the larger one if appropriate.
|
||||
function bnpMultiplyTo(a,r) {
|
||||
var x = this.abs(), y = a.abs();
|
||||
var i = x.t;
|
||||
r.t = i+y.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < y.t; ++i) r[i+x.t] = x.am(0,y[i],r,i,0,x.t);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
if(this.s != a.s) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (protected) r = this^2, r != this (HAC 14.16)
|
||||
function bnpSquareTo(r) {
|
||||
var x = this.abs();
|
||||
var i = r.t = 2*x.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < x.t-1; ++i) {
|
||||
var c = x.am(i,x[i],r,2*i,0,1);
|
||||
if((r[i+x.t]+=x.am(i+1,2*x[i],r,2*i+1,c,x.t-i-1)) >= x.DV) {
|
||||
r[i+x.t] -= x.DV;
|
||||
r[i+x.t+1] = 1;
|
||||
}
|
||||
}
|
||||
if(r.t > 0) r[r.t-1] += x.am(i,x[i],r,2*i,0,1);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) divide this by m, quotient and remainder to q, r (HAC 14.20)
|
||||
// r != q, this != m. q or r may be null.
|
||||
function bnpDivRemTo(m,q,r) {
|
||||
var pm = m.abs();
|
||||
if(pm.t <= 0) return;
|
||||
var pt = this.abs();
|
||||
if(pt.t < pm.t) {
|
||||
if(q != null) q.fromInt(0);
|
||||
if(r != null) this.copyTo(r);
|
||||
return;
|
||||
}
|
||||
if(r == null) r = nbi();
|
||||
var y = nbi(), ts = this.s, ms = m.s;
|
||||
var nsh = this.DB-nbits(pm[pm.t-1]); // normalize modulus
|
||||
if(nsh > 0) { pm.lShiftTo(nsh,y); pt.lShiftTo(nsh,r); }
|
||||
else { pm.copyTo(y); pt.copyTo(r); }
|
||||
var ys = y.t;
|
||||
var y0 = y[ys-1];
|
||||
if(y0 == 0) return;
|
||||
var yt = y0*(1<<this.F1)+((ys>1)?y[ys-2]>>this.F2:0);
|
||||
var d1 = this.FV/yt, d2 = (1<<this.F1)/yt, e = 1<<this.F2;
|
||||
var i = r.t, j = i-ys, t = (q==null)?nbi():q;
|
||||
y.dlShiftTo(j,t);
|
||||
if(r.compareTo(t) >= 0) {
|
||||
r[r.t++] = 1;
|
||||
r.subTo(t,r);
|
||||
}
|
||||
BigInteger.ONE.dlShiftTo(ys,t);
|
||||
t.subTo(y,y); // "negative" y so we can replace sub with am later
|
||||
while(y.t < ys) y[y.t++] = 0;
|
||||
while(--j >= 0) {
|
||||
// Estimate quotient digit
|
||||
var qd = (r[--i]==y0)?this.DM:Math.floor(r[i]*d1+(r[i-1]+e)*d2);
|
||||
if((r[i]+=y.am(0,qd,r,j,0,ys)) < qd) { // Try it out
|
||||
y.dlShiftTo(j,t);
|
||||
r.subTo(t,r);
|
||||
while(r[i] < --qd) r.subTo(t,r);
|
||||
}
|
||||
}
|
||||
if(q != null) {
|
||||
r.drShiftTo(ys,q);
|
||||
if(ts != ms) BigInteger.ZERO.subTo(q,q);
|
||||
}
|
||||
r.t = ys;
|
||||
r.clamp();
|
||||
if(nsh > 0) r.rShiftTo(nsh,r); // Denormalize remainder
|
||||
if(ts < 0) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (public) this mod a
|
||||
function bnMod(a) {
|
||||
var r = nbi();
|
||||
this.abs().divRemTo(a,null,r);
|
||||
if(this.s < 0 && r.compareTo(BigInteger.ZERO) > 0) a.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// Modular reduction using "classic" algorithm
|
||||
function Classic(m) { this.m = m; }
|
||||
function cConvert(x) {
|
||||
if(x.s < 0 || x.compareTo(this.m) >= 0) return x.mod(this.m);
|
||||
else return x;
|
||||
}
|
||||
function cRevert(x) { return x; }
|
||||
function cReduce(x) { x.divRemTo(this.m,null,x); }
|
||||
function cMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
function cSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
Classic.prototype.convert = cConvert;
|
||||
Classic.prototype.revert = cRevert;
|
||||
Classic.prototype.reduce = cReduce;
|
||||
Classic.prototype.mulTo = cMulTo;
|
||||
Classic.prototype.sqrTo = cSqrTo;
|
||||
|
||||
// (protected) return "-1/this % 2^DB"; useful for Mont. reduction
|
||||
// justification:
|
||||
// xy == 1 (mod m)
|
||||
// xy = 1+km
|
||||
// xy(2-xy) = (1+km)(1-km)
|
||||
// x[y(2-xy)] = 1-k^2m^2
|
||||
// x[y(2-xy)] == 1 (mod m^2)
|
||||
// if y is 1/x mod m, then y(2-xy) is 1/x mod m^2
|
||||
// should reduce x and y(2-xy) by m^2 at each step to keep size bounded.
|
||||
// JS multiply "overflows" differently from C/C++, so care is needed here.
|
||||
function bnpInvDigit() {
|
||||
if(this.t < 1) return 0;
|
||||
var x = this[0];
|
||||
if((x&1) == 0) return 0;
|
||||
var y = x&3; // y == 1/x mod 2^2
|
||||
y = (y*(2-(x&0xf)*y))&0xf; // y == 1/x mod 2^4
|
||||
y = (y*(2-(x&0xff)*y))&0xff; // y == 1/x mod 2^8
|
||||
y = (y*(2-(((x&0xffff)*y)&0xffff)))&0xffff; // y == 1/x mod 2^16
|
||||
// last step - calculate inverse mod DV directly;
|
||||
// assumes 16 < DB <= 32 and assumes ability to handle 48-bit ints
|
||||
y = (y*(2-x*y%this.DV))%this.DV; // y == 1/x mod 2^dbits
|
||||
// we really want the negative inverse, and -DV < y < DV
|
||||
return (y>0)?this.DV-y:-y;
|
||||
}
|
||||
|
||||
// Montgomery reduction
|
||||
function Montgomery(m) {
|
||||
this.m = m;
|
||||
this.mp = m.invDigit();
|
||||
this.mpl = this.mp&0x7fff;
|
||||
this.mph = this.mp>>15;
|
||||
this.um = (1<<(m.DB-15))-1;
|
||||
this.mt2 = 2*m.t;
|
||||
}
|
||||
|
||||
// xR mod m
|
||||
function montConvert(x) {
|
||||
var r = nbi();
|
||||
x.abs().dlShiftTo(this.m.t,r);
|
||||
r.divRemTo(this.m,null,r);
|
||||
if(x.s < 0 && r.compareTo(BigInteger.ZERO) > 0) this.m.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x/R mod m
|
||||
function montRevert(x) {
|
||||
var r = nbi();
|
||||
x.copyTo(r);
|
||||
this.reduce(r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x = x/R mod m (HAC 14.32)
|
||||
function montReduce(x) {
|
||||
while(x.t <= this.mt2) // pad x so am has enough room later
|
||||
x[x.t++] = 0;
|
||||
for(var i = 0; i < this.m.t; ++i) {
|
||||
// faster way of calculating u0 = x[i]*mp mod DV
|
||||
var j = x[i]&0x7fff;
|
||||
var u0 = (j*this.mpl+(((j*this.mph+(x[i]>>15)*this.mpl)&this.um)<<15))&x.DM;
|
||||
// use am to combine the multiply-shift-add into one call
|
||||
j = i+this.m.t;
|
||||
x[j] += this.m.am(0,u0,x,i,0,this.m.t);
|
||||
// propagate carry
|
||||
while(x[j] >= x.DV) { x[j] -= x.DV; x[++j]++; }
|
||||
}
|
||||
x.clamp();
|
||||
x.drShiftTo(this.m.t,x);
|
||||
if(x.compareTo(this.m) >= 0) x.subTo(this.m,x);
|
||||
}
|
||||
|
||||
// r = "x^2/R mod m"; x != r
|
||||
function montSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
// r = "xy/R mod m"; x,y != r
|
||||
function montMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
|
||||
Montgomery.prototype.convert = montConvert;
|
||||
Montgomery.prototype.revert = montRevert;
|
||||
Montgomery.prototype.reduce = montReduce;
|
||||
Montgomery.prototype.mulTo = montMulTo;
|
||||
Montgomery.prototype.sqrTo = montSqrTo;
|
||||
|
||||
// (protected) true iff this is even
|
||||
function bnpIsEven() { return ((this.t>0)?(this[0]&1):this.s) == 0; }
|
||||
|
||||
// (protected) this^e, e < 2^32, doing sqr and mul with "r" (HAC 14.79)
|
||||
function bnpExp(e,z) {
|
||||
if(e > 0xffffffff || e < 1) return BigInteger.ONE;
|
||||
var r = nbi(), r2 = nbi(), g = z.convert(this), i = nbits(e)-1;
|
||||
g.copyTo(r);
|
||||
while(--i >= 0) {
|
||||
z.sqrTo(r,r2);
|
||||
if((e&(1<<i)) > 0) z.mulTo(r2,g,r);
|
||||
else { var t = r; r = r2; r2 = t; }
|
||||
}
|
||||
return z.revert(r);
|
||||
}
|
||||
|
||||
// (public) this^e % m, 0 <= e < 2^32
|
||||
function bnModPowInt(e,m) {
|
||||
var z;
|
||||
if(e < 256 || m.isEven()) z = new Classic(m); else z = new Montgomery(m);
|
||||
return this.exp(e,z);
|
||||
}
|
||||
|
||||
// protected
|
||||
BigInteger.prototype.copyTo = bnpCopyTo;
|
||||
BigInteger.prototype.fromInt = bnpFromInt;
|
||||
BigInteger.prototype.fromString = bnpFromString;
|
||||
BigInteger.prototype.clamp = bnpClamp;
|
||||
BigInteger.prototype.dlShiftTo = bnpDLShiftTo;
|
||||
BigInteger.prototype.drShiftTo = bnpDRShiftTo;
|
||||
BigInteger.prototype.lShiftTo = bnpLShiftTo;
|
||||
BigInteger.prototype.rShiftTo = bnpRShiftTo;
|
||||
BigInteger.prototype.subTo = bnpSubTo;
|
||||
BigInteger.prototype.multiplyTo = bnpMultiplyTo;
|
||||
BigInteger.prototype.squareTo = bnpSquareTo;
|
||||
BigInteger.prototype.divRemTo = bnpDivRemTo;
|
||||
BigInteger.prototype.invDigit = bnpInvDigit;
|
||||
BigInteger.prototype.isEven = bnpIsEven;
|
||||
BigInteger.prototype.exp = bnpExp;
|
||||
|
||||
// public
|
||||
BigInteger.prototype.toString = bnToString;
|
||||
BigInteger.prototype.negate = bnNegate;
|
||||
BigInteger.prototype.abs = bnAbs;
|
||||
BigInteger.prototype.compareTo = bnCompareTo;
|
||||
BigInteger.prototype.bitLength = bnBitLength;
|
||||
BigInteger.prototype.mod = bnMod;
|
||||
BigInteger.prototype.modPowInt = bnModPowInt;
|
||||
|
||||
// "constants"
|
||||
BigInteger.ZERO = nbv(0);
|
||||
BigInteger.ONE = nbv(1);
|
||||
// ==== File: prng4.js
|
||||
// prng4.js - uses Arcfour as a PRNG
|
||||
|
||||
function Arcfour() {
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
this.S = new Array();
|
||||
}
|
||||
|
||||
// Initialize arcfour context from key, an array of ints, each from [0..255]
|
||||
function ARC4init(key) {
|
||||
var i, j, t;
|
||||
for(i = 0; i < 256; ++i)
|
||||
this.S[i] = i;
|
||||
j = 0;
|
||||
for(i = 0; i < 256; ++i) {
|
||||
j = (j + this.S[i] + key[i % key.length]) & 255;
|
||||
t = this.S[i];
|
||||
this.S[i] = this.S[j];
|
||||
this.S[j] = t;
|
||||
}
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
}
|
||||
|
||||
function ARC4next() {
|
||||
var t;
|
||||
this.i = (this.i + 1) & 255;
|
||||
this.j = (this.j + this.S[this.i]) & 255;
|
||||
t = this.S[this.i];
|
||||
this.S[this.i] = this.S[this.j];
|
||||
this.S[this.j] = t;
|
||||
return this.S[(t + this.S[this.i]) & 255];
|
||||
}
|
||||
|
||||
Arcfour.prototype.init = ARC4init;
|
||||
Arcfour.prototype.next = ARC4next;
|
||||
|
||||
// Plug in your RNG constructor here
|
||||
function prng_newstate() {
|
||||
return new Arcfour();
|
||||
}
|
||||
|
||||
// Pool size must be a multiple of 4 and greater than 32.
|
||||
// An array of bytes the size of the pool will be passed to init()
|
||||
var rng_psize = 256;
|
||||
// ==== File: rng.js
|
||||
// Random number generator - requires a PRNG backend, e.g. prng4.js
|
||||
|
||||
// For best results, put code like
|
||||
// <body onClick='rng_seed_time();' onKeyPress='rng_seed_time();'>
|
||||
// in your main HTML document.
|
||||
|
||||
var rng_state;
|
||||
var rng_pool;
|
||||
var rng_pptr;
|
||||
|
||||
// Mix in a 32-bit integer into the pool
|
||||
function rng_seed_int(x) {
|
||||
rng_pool[rng_pptr++] ^= x & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 8) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 16) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 24) & 255;
|
||||
if(rng_pptr >= rng_psize) rng_pptr -= rng_psize;
|
||||
}
|
||||
|
||||
// Mix in the current time (w/milliseconds) into the pool
|
||||
function rng_seed_time() {
|
||||
rng_seed_int(new Date().getTime());
|
||||
}
|
||||
|
||||
// Initialize the pool with junk if needed.
|
||||
if(rng_pool == null) {
|
||||
rng_pool = new Array();
|
||||
rng_pptr = 0;
|
||||
var t;
|
||||
if(navigator.appName == "Netscape" && navigator.appVersion < "5" && window.crypto) {
|
||||
// Extract entropy (256 bits) from NS4 RNG if available
|
||||
var z = window.crypto.random(32);
|
||||
for(t = 0; t < z.length; ++t)
|
||||
rng_pool[rng_pptr++] = z.charCodeAt(t) & 255;
|
||||
}
|
||||
while(rng_pptr < rng_psize) { // extract some randomness from Math.random()
|
||||
t = Math.floor(65536 * Math.random());
|
||||
rng_pool[rng_pptr++] = t >>> 8;
|
||||
rng_pool[rng_pptr++] = t & 255;
|
||||
}
|
||||
rng_pptr = 0;
|
||||
rng_seed_time();
|
||||
//rng_seed_int(window.screenX);
|
||||
//rng_seed_int(window.screenY);
|
||||
}
|
||||
|
||||
function rng_get_byte() {
|
||||
if(rng_state == null) {
|
||||
rng_seed_time();
|
||||
rng_state = prng_newstate();
|
||||
rng_state.init(rng_pool);
|
||||
for(rng_pptr = 0; rng_pptr < rng_pool.length; ++rng_pptr)
|
||||
rng_pool[rng_pptr] = 0;
|
||||
rng_pptr = 0;
|
||||
//rng_pool = null;
|
||||
}
|
||||
// TODO: allow reseeding after first request
|
||||
return rng_state.next();
|
||||
}
|
||||
|
||||
function rng_get_bytes(ba) {
|
||||
var i;
|
||||
for(i = 0; i < ba.length; ++i) ba[i] = rng_get_byte();
|
||||
}
|
||||
|
||||
function SecureRandom() {}
|
||||
|
||||
SecureRandom.prototype.nextBytes = rng_get_bytes;
|
||||
// ==== File: rsa.js
|
||||
// Depends on jsbn.js and rng.js
|
||||
|
||||
// Version 1.1: support utf-8 encoding in pkcs1pad2
|
||||
|
||||
// convert a (hex) string to a bignum object
|
||||
function parseBigInt(str,r) {
|
||||
return new BigInteger(str,r);
|
||||
}
|
||||
|
||||
function linebrk(s,n) {
|
||||
var ret = "";
|
||||
var i = 0;
|
||||
while(i + n < s.length) {
|
||||
ret += s.substring(i,i+n) + "\n";
|
||||
i += n;
|
||||
}
|
||||
return ret + s.substring(i,s.length);
|
||||
}
|
||||
|
||||
function byte2Hex(b) {
|
||||
if(b < 0x10)
|
||||
return "0" + b.toString(16);
|
||||
else
|
||||
return b.toString(16);
|
||||
}
|
||||
|
||||
// PKCS#1 (type 2, random) pad input string s to n bytes, and return a bigint
|
||||
function pkcs1pad2(s,n) {
|
||||
if(n < s.length + 11) { // TODO: fix for utf-8
|
||||
alert("Message too long for RSA");
|
||||
return null;
|
||||
}
|
||||
var ba = new Array();
|
||||
var i = s.length - 1;
|
||||
while(i >= 0 && n > 0) {
|
||||
var c = s.charCodeAt(i--);
|
||||
if(c < 128) { // encode using utf-8
|
||||
ba[--n] = c;
|
||||
}
|
||||
else if((c > 127) && (c < 2048)) {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = (c >> 6) | 192;
|
||||
}
|
||||
else {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = ((c >> 6) & 63) | 128;
|
||||
ba[--n] = (c >> 12) | 224;
|
||||
}
|
||||
}
|
||||
ba[--n] = 0;
|
||||
var rng = new SecureRandom();
|
||||
var x = new Array();
|
||||
while(n > 2) { // random non-zero pad
|
||||
x[0] = 0;
|
||||
while(x[0] == 0) rng.nextBytes(x);
|
||||
ba[--n] = x[0];
|
||||
}
|
||||
ba[--n] = 2;
|
||||
ba[--n] = 0;
|
||||
return new BigInteger(ba);
|
||||
}
|
||||
|
||||
// "empty" RSA key constructor
|
||||
function RSAKey() {
|
||||
this.n = null;
|
||||
this.e = 0;
|
||||
this.d = null;
|
||||
this.p = null;
|
||||
this.q = null;
|
||||
this.dmp1 = null;
|
||||
this.dmq1 = null;
|
||||
this.coeff = null;
|
||||
}
|
||||
|
||||
// Set the public key fields N and e from hex strings
|
||||
function RSASetPublic(N,E) {
|
||||
if(N != null && E != null && N.length > 0 && E.length > 0) {
|
||||
this.n = parseBigInt(N,16);
|
||||
this.e = parseInt(E,16);
|
||||
}
|
||||
else
|
||||
alert("Invalid RSA public key");
|
||||
}
|
||||
|
||||
// Perform raw public operation on "x": return x^e (mod n)
|
||||
function RSADoPublic(x) {
|
||||
return x.modPowInt(this.e, this.n);
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as an even-length hex string
|
||||
function RSAEncrypt(text) {
|
||||
var m = pkcs1pad2(text,(this.n.bitLength()+7)>>3);
|
||||
if(m == null) return null;
|
||||
var c = this.doPublic(m);
|
||||
if(c == null) return null;
|
||||
var h = c.toString(16);
|
||||
if((h.length & 1) == 0) return h; else return "0" + h;
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as a Base64-encoded string
|
||||
//function RSAEncryptB64(text) {
|
||||
// var h = this.encrypt(text);
|
||||
// if(h) return hex2b64(h); else return null;
|
||||
//}
|
||||
|
||||
// protected
|
||||
RSAKey.prototype.doPublic = RSADoPublic;
|
||||
|
||||
// public
|
||||
RSAKey.prototype.setPublic = RSASetPublic;
|
||||
RSAKey.prototype.encrypt = RSAEncrypt;
|
||||
//RSAKey.prototype.encrypt_b64 = RSAEncryptB64;
|
||||
// ==== File: base64.js
|
||||
var b64map="ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/";
|
||||
var b64pad="=";
|
||||
|
||||
function hex2b64(h) {
|
||||
var i;
|
||||
var c;
|
||||
var ret = "";
|
||||
for(i = 0; i+3 <= h.length; i+=3) {
|
||||
c = parseInt(h.substring(i,i+3),16);
|
||||
ret += b64map.charAt(c >> 6) + b64map.charAt(c & 63);
|
||||
}
|
||||
if(i+1 == h.length) {
|
||||
c = parseInt(h.substring(i,i+1),16);
|
||||
ret += b64map.charAt(c << 2);
|
||||
}
|
||||
else if(i+2 == h.length) {
|
||||
c = parseInt(h.substring(i,i+2),16);
|
||||
ret += b64map.charAt(c >> 2) + b64map.charAt((c & 3) << 4);
|
||||
}
|
||||
while((ret.length & 3) > 0) ret += b64pad;
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to hex
|
||||
function b64tohex(s) {
|
||||
var ret = ""
|
||||
var i;
|
||||
var k = 0; // b64 state, 0-3
|
||||
var slop;
|
||||
for(i = 0; i < s.length; ++i) {
|
||||
if(s.charAt(i) == b64pad) break;
|
||||
v = b64map.indexOf(s.charAt(i));
|
||||
if(v < 0) continue;
|
||||
if(k == 0) {
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 1;
|
||||
}
|
||||
else if(k == 1) {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
slop = v & 0xf;
|
||||
k = 2;
|
||||
}
|
||||
else if(k == 2) {
|
||||
ret += int2char(slop);
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 3;
|
||||
}
|
||||
else {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
ret += int2char(v & 0xf);
|
||||
k = 0;
|
||||
}
|
||||
}
|
||||
if(k == 1)
|
||||
ret += int2char(slop << 2);
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to a byte/number array
|
||||
function b64toBA(s) {
|
||||
//piggyback on b64tohex for now, optimize later
|
||||
var h = b64tohex(s);
|
||||
var i;
|
||||
var a = new Array();
|
||||
for(i = 0; 2*i < h.length; ++i) {
|
||||
a[i] = parseInt(h.substring(2*i,2*i+2),16);
|
||||
}
|
||||
return a;
|
||||
}
|
||||
+24
@@ -0,0 +1,24 @@
|
||||
var g,j,k=(244837814094590&16777215)==15715070;function l(b,a,c){if(b!=null)if("number"==typeof b)this.ca(b,a,c);else a==null&&"string"!=typeof b?this.z(b,256):this.z(b,a)}function m(){return new l(null)}function o(b,a,c,d,e,f){for(;--f>=0;){var h=a*this[b++]+c[d]+e;e=Math.floor(h/67108864);c[d++]=h&67108863}return e}
|
||||
function p(b,a,c,d,e,f){var h=a&32767;for(a=a>>15;--f>=0;){var i=this[b]&32767,n=this[b++]>>15,r=a*i+n*h;i=h*i+((r&32767)<<15)+c[d]+(e&1073741823);e=(i>>>30)+(r>>>15)+a*n+(e>>>30);c[d++]=i&1073741823}return e}function s(b,a,c,d,e,f){var h=a&16383;for(a=a>>14;--f>=0;){var i=this[b]&16383,n=this[b++]>>14,r=a*i+n*h;i=h*i+((r&16383)<<14)+c[d]+e;e=(i>>28)+(r>>14)+a*n;c[d++]=i&268435455}return e}
|
||||
if(k&&navigator.appName=="Microsoft Internet Explorer"){l.prototype.i=p;j=30}else if(k&&navigator.appName!="Netscape"){l.prototype.i=o;j=26}else{l.prototype.i=s;j=28}g=l.prototype;g.c=j;g.g=(1<<j)-1;g.h=1<<j;g.K=Math.pow(2,52);g.r=52-j;g.s=2*j-52;var t="0123456789abcdefghijklmnopqrstuvwxyz",u=[],x,z;x="0".charCodeAt(0);for(z=0;z<=9;++z)u[x++]=z;x="a".charCodeAt(0);for(z=10;z<36;++z)u[x++]=z;x="A".charCodeAt(0);for(z=10;z<36;++z)u[x++]=z;function A(b,a){b=u[b.charCodeAt(a)];return b==null?-1:b}
|
||||
function B(b){for(var a=this.a-1;a>=0;--a)b[a]=this[a];b.a=this.a;b.b=this.b}function D(b){this.a=1;this.b=b<0?-1:0;if(b>0)this[0]=b;else if(b<-1)this[0]=b+DV;else this.a=0}function E(b){var a=m();a.w(b);return a}
|
||||
function F(b,a){if(a==16)a=4;else if(a==8)a=3;else if(a==256)a=8;else if(a==2)a=1;else if(a==32)a=5;else if(a==4)a=2;else{this.da(b,a);return}this.b=this.a=0;for(var c=b.length,d=false,e=0;--c>=0;){var f=a==8?b[c]&255:A(b,c);if(f<0){if(b.charAt(c)=="-")d=true}else{d=false;if(e==0)this[this.a++]=f;else if(e+a>this.c){this[this.a-1]|=(f&(1<<this.c-e)-1)<<e;this[this.a++]=f>>this.c-e}else this[this.a-1]|=f<<e;e+=a;if(e>=this.c)e-=this.c}}if(a==8&&(b[0]&128)!=0){this.b=-1;if(e>0)this[this.a-1]|=(1<<this.c-
|
||||
e)-1<<e}this.j();d&&G.f(this,this)}function H(){for(var b=this.b&this.g;this.a>0&&this[this.a-1]==b;)--this.a}
|
||||
function I(b){if(this.b<0)return"-"+this.G().toString(b);if(b==16)b=4;else if(b==8)b=3;else if(b==2)b=1;else if(b==32)b=5;else if(b==4)b=2;else return this.ga(b);var a=(1<<b)-1,c,d=false,e="",f=this.a,h=this.c-f*this.c%b;if(f-- >0){if(h<this.c&&(c=this[f]>>h)>0){d=true;e=t.charAt(c)}for(;f>=0;){if(h<b){c=(this[f]&(1<<h)-1)<<b-h;c|=this[--f]>>(h+=this.c-b)}else{c=this[f]>>(h-=b)&a;if(h<=0){h+=this.c;--f}}if(c>0)d=true;if(d)e+=t.charAt(c)}}return d?e:"0"}
|
||||
function J(){var b=m();G.f(this,b);return b}function K(){return this.b<0?this.G():this}function L(b){var a=this.b-b.b;if(a!=0)return a;var c=this.a;a=c-b.a;if(a!=0)return a;for(;--c>=0;)if((a=this[c]-b[c])!=0)return a;return 0}function M(b){var a=1,c;if((c=b>>>16)!=0){b=c;a+=16}if((c=b>>8)!=0){b=c;a+=8}if((c=b>>4)!=0){b=c;a+=4}if((c=b>>2)!=0){b=c;a+=2}if(b>>1!=0)a+=1;return a}function N(){if(this.a<=0)return 0;return this.c*(this.a-1)+M(this[this.a-1]^this.b&this.g)}
|
||||
function aa(b,a){var c;for(c=this.a-1;c>=0;--c)a[c+b]=this[c];for(c=b-1;c>=0;--c)a[c]=0;a.a=this.a+b;a.b=this.b}function ba(b,a){for(var c=b;c<this.a;++c)a[c-b]=this[c];a.a=Math.max(this.a-b,0);a.b=this.b}function ca(b,a){var c=b%this.c,d=this.c-c,e=(1<<d)-1;b=Math.floor(b/this.c);var f=this.b<<c&this.g,h;for(h=this.a-1;h>=0;--h){a[h+b+1]=this[h]>>d|f;f=(this[h]&e)<<c}for(h=b-1;h>=0;--h)a[h]=0;a[b]=f;a.a=this.a+b+1;a.b=this.b;a.j()}
|
||||
function da(b,a){a.b=this.b;var c=Math.floor(b/this.c);if(c>=this.a)a.a=0;else{b=b%this.c;var d=this.c-b,e=(1<<b)-1;a[0]=this[c]>>b;for(var f=c+1;f<this.a;++f){a[f-c-1]|=(this[f]&e)<<d;a[f-c]=this[f]>>b}if(b>0)a[this.a-c-1]|=(this.b&e)<<d;a.a=this.a-c;a.j()}}
|
||||
function ea(b,a){for(var c=0,d=0,e=Math.min(b.a,this.a);c<e;){d+=this[c]-b[c];a[c++]=d&this.g;d>>=this.c}if(b.a<this.a){for(d-=b.b;c<this.a;){d+=this[c];a[c++]=d&this.g;d>>=this.c}d+=this.b}else{for(d+=this.b;c<b.a;){d-=b[c];a[c++]=d&this.g;d>>=this.c}d-=b.b}a.b=d<0?-1:0;if(d<-1)a[c++]=this.h+d;else if(d>0)a[c++]=d;a.a=c;a.j()}function fa(b,a){var c=this.abs(),d=b.abs(),e=c.a;for(a.a=e+d.a;--e>=0;)a[e]=0;for(e=0;e<d.a;++e)a[e+c.a]=c.i(0,d[e],a,e,0,c.a);a.b=0;a.j();this.b!=b.b&&G.f(a,a)}
|
||||
function ga(b){for(var a=this.abs(),c=b.a=2*a.a;--c>=0;)b[c]=0;for(c=0;c<a.a-1;++c){var d=a.i(c,a[c],b,2*c,0,1);if((b[c+a.a]+=a.i(c+1,2*a[c],b,2*c+1,d,a.a-c-1))>=a.h){b[c+a.a]-=a.h;b[c+a.a+1]=1}}if(b.a>0)b[b.a-1]+=a.i(c,a[c],b,2*c,0,1);b.b=0;b.j()}
|
||||
function ha(b,a,c){var d=b.abs();if(!(d.a<=0)){var e=this.abs();if(e.a<d.a){a!=null&&a.w(0);c!=null&&this.m(c)}else{if(c==null)c=m();var f=m(),h=this.b;b=b.b;var i=this.c-M(d[d.a-1]);if(i>0){d.A(i,f);e.A(i,c)}else{d.m(f);e.m(c)}d=f.a;e=f[d-1];if(e!=0){var n=e*(1<<this.r)+(d>1?f[d-2]>>this.s:0),r=this.K/n;n=(1<<this.r)/n;var ia=1<<this.s,w=c.a,y=w-d,q=a==null?m():a;f.o(y,q);if(c.l(q)>=0){c[c.a++]=1;c.f(q,c)}O.o(d,q);for(q.f(f,f);f.a<d;)f[f.a++]=0;for(;--y>=0;){var C=c[--w]==e?this.g:Math.floor(c[w]*
|
||||
r+(c[w-1]+ia)*n);if((c[w]+=f.i(0,C,c,y,0,d))<C){f.o(y,q);for(c.f(q,c);c[w]<--C;)c.f(q,c)}}if(a!=null){c.u(d,a);h!=b&&G.f(a,a)}c.a=d;c.j();i>0&&c.W(i,c);h<0&&G.f(c,c)}}}}function ja(b){var a=m();this.abs().p(b,null,a);this.b<0&&a.l(G)>0&&b.f(a,a);return a}function P(b){this.d=b}function ka(b){return b.b<0||b.l(this.d)>=0?b.R(this.d):b}function la(b){return b}function ma(b){b.p(this.d,null,b)}function na(b,a,c){b.F(a,c);this.reduce(c)}function oa(b,a){b.J(a);this.reduce(a)}g=P.prototype;g.t=ka;
|
||||
g.H=la;g.reduce=ma;g.D=na;g.I=oa;function pa(){if(this.a<1)return 0;var b=this[0];if((b&1)==0)return 0;var a=b&3;a=a*(2-(b&15)*a)&15;a=a*(2-(b&255)*a)&255;a=a*(2-((b&65535)*a&65535))&65535;a=a*(2-b*a%this.h)%this.h;return a>0?this.h-a:-a}function Q(b){this.d=b;this.B=b.P();this.C=this.B&32767;this.T=this.B>>15;this.Y=(1<<b.c-15)-1;this.U=2*b.a}function qa(b){var a=m();b.abs().o(this.d.a,a);a.p(this.d,null,a);b.b<0&&a.l(G)>0&&this.d.f(a,a);return a}
|
||||
function ra(b){var a=m();b.m(a);this.reduce(a);return a}function sa(b){for(;b.a<=this.U;)b[b.a++]=0;for(var a=0;a<this.d.a;++a){var c=b[a]&32767,d=c*this.C+((c*this.T+(b[a]>>15)*this.C&this.Y)<<15)&b.g;c=a+this.d.a;for(b[c]+=this.d.i(0,d,b,a,0,this.d.a);b[c]>=b.h;){b[c]-=b.h;b[++c]++}}b.j();b.u(this.d.a,b);b.l(this.d)>=0&&b.f(this.d,b)}function ta(b,a){b.J(a);this.reduce(a)}function ua(b,a,c){b.F(a,c);this.reduce(c)}g=Q.prototype;g.t=qa;g.H=ra;g.reduce=sa;g.D=ua;g.I=ta;
|
||||
function va(){return(this.a>0?this[0]&1:this.b)==0}function wa(b,a){if(b>4294967295||b<1)return O;var c=m(),d=m(),e=a.t(this),f=M(b)-1;for(e.m(c);--f>=0;){a.I(c,d);if((b&1<<f)>0)a.D(d,e,c);else{var h=c;c=d;d=h}}return a.H(c)}function xa(b,a){a=b<256||a.Q()?new P(a):new Q(a);return this.exp(b,a)}g=l.prototype;g.m=B;g.w=D;g.z=F;g.j=H;g.o=aa;g.u=ba;g.A=ca;g.W=da;g.f=ea;g.F=fa;g.J=ga;g.p=ha;g.P=pa;g.Q=va;g.exp=wa;g.toString=I;g.G=J;g.abs=K;g.l=L;g.L=N;g.R=ja;g.S=xa;var G=E(0),O=E(1);
|
||||
function R(){this.n=this.k=0;this.e=[]}function ya(b){var a,c,d;for(a=0;a<256;++a)this.e[a]=a;for(a=c=0;a<256;++a){c=c+this.e[a]+b[a%b.length]&255;d=this.e[a];this.e[a]=this.e[c];this.e[c]=d}this.n=this.k=0}function za(){var b;this.k=this.k+1&255;this.n=this.n+this.e[this.k]&255;b=this.e[this.k];this.e[this.k]=this.e[this.n];this.e[this.n]=b;return this.e[b+this.e[this.k]&255]}R.prototype.O=ya;R.prototype.next=za;var S=256,T,U,V;
|
||||
function W(b){U[V++]^=b&255;U[V++]^=b>>8&255;U[V++]^=b>>16&255;U[V++]^=b>>24&255;if(V>=S)V-=S}if(U==null){U=[];V=0;var X;if(navigator.appName=="Netscape"&&navigator.appVersion<"5"&&window.crypto){var Y=window.crypto.random(32);for(X=0;X<Y.length;++X)U[V++]=Y.charCodeAt(X)&255}for(;V<S;){X=Math.floor(65536*Math.random());U[V++]=X>>>8;U[V++]=X&255}V=0;W((new Date).getTime())}function Aa(){if(T==null){W((new Date).getTime());T=new R;T.O(U);for(V=0;V<U.length;++V)U[V]=0;V=0}return T.next()}
|
||||
function Ba(b){var a;for(a=0;a<b.length;++a)b[a]=Aa()}function Z(){}Z.prototype.V=Ba;function ZZZ(){this.q=null;this.v=0;this.Z=this.ba=this.aa=this.fa=this.ea=this.ZZZ=null}function Ca(b,a){if(b!=null&&a!=null&&b.length>0&&a.length>0){this.q=new l(b,16);this.v=parseInt(a,16)}else alert("Invalid RSA public key")}function Da(b){return b.S(this.v,this.q)}
|
||||
function Ea(b){var a;a=this.q.L()+7>>3;if(a<b.length+11){alert("Message too long for RSA");a=null}else{for(var c=[],d=b.length-1;d>=0&&a>0;){var e=b.charCodeAt(d--);if(e<128)c[--a]=e;else if(e>127&&e<2048){c[--a]=e&63|128;c[--a]=e>>6|192}else{c[--a]=e&63|128;c[--a]=e>>6&63|128;c[--a]=e>>12|224}}c[--a]=0;b=new Z;for(d=[];a>2;){for(d[0]=0;d[0]==0;)b.V(d);c[--a]=d[0]}c[--a]=2;c[--a]=0;a=new l(c)}if(a==null)return null;a=this.M(a);if(a==null)return null;a=a.toString(16);return(a.length&1)==0?a:"0"+a}
|
||||
ZZZ.prototype.M=Da;ZZZ.prototype.X=Ca;ZZZ.prototype.N=Ea;window.encrypt=function(b,a,c){var d=new ZZZ;d.X(c,a);b=d.N(b);d="";for(a=0;a+3<=b.length;a+=3){c=parseInt(b.substring(a,a+3),16);d+="ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/".charAt(c>>6)+"ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/".charAt(c&63)}if(a+1==b.length){c=parseInt(b.substring(a,a+1),16);d+="ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/".charAt(c<<2)}else if(a+2==b.length){c=parseInt(b.substring(a,a+2),16);d+="ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/".charAt(c>>
|
||||
2)+"ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/".charAt((c&3)<<4)}for(;(d.length&3)>0;)d+="=";return d};
|
||||
|
||||
@@ -0,0 +1,73 @@
|
||||
// ==== File: base64.js
|
||||
var b64map="ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/";
|
||||
var b64pad="=";
|
||||
|
||||
function hex2b64(h) {
|
||||
var i;
|
||||
var c;
|
||||
var ret = "";
|
||||
for(i = 0; i+3 <= h.length; i+=3) {
|
||||
c = parseInt(h.substring(i,i+3),16);
|
||||
ret += b64map.charAt(c >> 6) + b64map.charAt(c & 63);
|
||||
}
|
||||
if(i+1 == h.length) {
|
||||
c = parseInt(h.substring(i,i+1),16);
|
||||
ret += b64map.charAt(c << 2);
|
||||
}
|
||||
else if(i+2 == h.length) {
|
||||
c = parseInt(h.substring(i,i+2),16);
|
||||
ret += b64map.charAt(c >> 2) + b64map.charAt((c & 3) << 4);
|
||||
}
|
||||
while((ret.length & 3) > 0) ret += b64pad;
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to hex
|
||||
function b64tohex(s) {
|
||||
var ret = ""
|
||||
var i;
|
||||
var k = 0; // b64 state, 0-3
|
||||
var slop;
|
||||
for(i = 0; i < s.length; ++i) {
|
||||
if(s.charAt(i) == b64pad) break;
|
||||
v = b64map.indexOf(s.charAt(i));
|
||||
if(v < 0) continue;
|
||||
if(k == 0) {
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 1;
|
||||
}
|
||||
else if(k == 1) {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
slop = v & 0xf;
|
||||
k = 2;
|
||||
}
|
||||
else if(k == 2) {
|
||||
ret += int2char(slop);
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 3;
|
||||
}
|
||||
else {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
ret += int2char(v & 0xf);
|
||||
k = 0;
|
||||
}
|
||||
}
|
||||
if(k == 1)
|
||||
ret += int2char(slop << 2);
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to a byte/number array
|
||||
function b64toBA(s) {
|
||||
//piggyback on b64tohex for now, optimize later
|
||||
var h = b64tohex(s);
|
||||
var i;
|
||||
var a = new Array();
|
||||
for(i = 0; 2*i < h.length; ++i) {
|
||||
a[i] = parseInt(h.substring(2*i,2*i+2),16);
|
||||
}
|
||||
return a;
|
||||
}
|
||||
|
||||
@@ -0,0 +1,562 @@
|
||||
// Downloaded from http://www-cs-students.stanford.edu/~tjw/ at Tue Nov 30 00:42:57 PST 2010
|
||||
// ==== File: jsbn.js
|
||||
// Copyright (c) 2005 Tom Wu
|
||||
// All Rights Reserved.
|
||||
// See "LICENSE" for details.
|
||||
|
||||
// Basic JavaScript BN library - subset useful for RSA encryption.
|
||||
|
||||
// Bits per digit
|
||||
var dbits;
|
||||
|
||||
// JavaScript engine analysis
|
||||
var canary = 0xdeadbeefcafe;
|
||||
var j_lm = ((canary&0xffffff)==0xefcafe);
|
||||
|
||||
// (public) Constructor
|
||||
function BigInteger(a,b,c) {
|
||||
if(a != null)
|
||||
if("number" == typeof a) this.fromNumber(a,b,c);
|
||||
else if(b == null && "string" != typeof a) this.fromString(a,256);
|
||||
else this.fromString(a,b);
|
||||
}
|
||||
|
||||
// return new, unset BigInteger
|
||||
function nbi() { return new BigInteger(null); }
|
||||
|
||||
// am: Compute w_j += (x*this_i), propagate carries,
|
||||
// c is initial carry, returns final carry.
|
||||
// c < 3*dvalue, x < 2*dvalue, this_i < dvalue
|
||||
// We need to select the fastest one that works in this environment.
|
||||
|
||||
// am1: use a single mult and divide to get the high bits,
|
||||
// max digit bits should be 26 because
|
||||
// max internal value = 2*dvalue^2-2*dvalue (< 2^53)
|
||||
function am1(i,x,w,j,c,n) {
|
||||
while(--n >= 0) {
|
||||
var v = x*this[i++]+w[j]+c;
|
||||
c = Math.floor(v/0x4000000);
|
||||
w[j++] = v&0x3ffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// am2 avoids a big mult-and-extract completely.
|
||||
// Max digit bits should be <= 30 because we do bitwise ops
|
||||
// on values up to 2*hdvalue^2-hdvalue-1 (< 2^31)
|
||||
function am2(i,x,w,j,c,n) {
|
||||
var xl = x&0x7fff, xh = x>>15;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x7fff;
|
||||
var h = this[i++]>>15;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x7fff)<<15)+w[j]+(c&0x3fffffff);
|
||||
c = (l>>>30)+(m>>>15)+xh*h+(c>>>30);
|
||||
w[j++] = l&0x3fffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// Alternately, set max digit bits to 28 since some
|
||||
// browsers slow down when dealing with 32-bit numbers.
|
||||
function am3(i,x,w,j,c,n) {
|
||||
var xl = x&0x3fff, xh = x>>14;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x3fff;
|
||||
var h = this[i++]>>14;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x3fff)<<14)+w[j]+c;
|
||||
c = (l>>28)+(m>>14)+xh*h;
|
||||
w[j++] = l&0xfffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
if(j_lm && (navigator.appName == "Microsoft Internet Explorer")) {
|
||||
BigInteger.prototype.am = am2;
|
||||
dbits = 30;
|
||||
}
|
||||
else if(j_lm && (navigator.appName != "Netscape")) {
|
||||
BigInteger.prototype.am = am1;
|
||||
dbits = 26;
|
||||
}
|
||||
else { // Mozilla/Netscape seems to prefer am3
|
||||
BigInteger.prototype.am = am3;
|
||||
dbits = 28;
|
||||
}
|
||||
|
||||
BigInteger.prototype.DB = dbits;
|
||||
BigInteger.prototype.DM = ((1<<dbits)-1);
|
||||
BigInteger.prototype.DV = (1<<dbits);
|
||||
|
||||
var BI_FP = 52;
|
||||
BigInteger.prototype.FV = Math.pow(2,BI_FP);
|
||||
BigInteger.prototype.F1 = BI_FP-dbits;
|
||||
BigInteger.prototype.F2 = 2*dbits-BI_FP;
|
||||
|
||||
// Digit conversions
|
||||
var BI_RM = "0123456789abcdefghijklmnopqrstuvwxyz";
|
||||
var BI_RC = new Array();
|
||||
var rr,vv;
|
||||
rr = "0".charCodeAt(0);
|
||||
for(vv = 0; vv <= 9; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "a".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "A".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
|
||||
function int2char(n) { return BI_RM.charAt(n); }
|
||||
function intAt(s,i) {
|
||||
var c = BI_RC[s.charCodeAt(i)];
|
||||
return (c==null)?-1:c;
|
||||
}
|
||||
|
||||
// (protected) copy this to r
|
||||
function bnpCopyTo(r) {
|
||||
for(var i = this.t-1; i >= 0; --i) r[i] = this[i];
|
||||
r.t = this.t;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) set from integer value x, -DV <= x < DV
|
||||
function bnpFromInt(x) {
|
||||
this.t = 1;
|
||||
this.s = (x<0)?-1:0;
|
||||
if(x > 0) this[0] = x;
|
||||
else if(x < -1) this[0] = x+DV;
|
||||
else this.t = 0;
|
||||
}
|
||||
|
||||
// return bigint initialized to value
|
||||
function nbv(i) { var r = nbi(); r.fromInt(i); return r; }
|
||||
|
||||
// (protected) set from string and radix
|
||||
function bnpFromString(s,b) {
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 256) k = 8; // byte array
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else { this.fromRadix(s,b); return; }
|
||||
this.t = 0;
|
||||
this.s = 0;
|
||||
var i = s.length, mi = false, sh = 0;
|
||||
while(--i >= 0) {
|
||||
var x = (k==8)?s[i]&0xff:intAt(s,i);
|
||||
if(x < 0) {
|
||||
if(s.charAt(i) == "-") mi = true;
|
||||
continue;
|
||||
}
|
||||
mi = false;
|
||||
if(sh == 0)
|
||||
this[this.t++] = x;
|
||||
else if(sh+k > this.DB) {
|
||||
this[this.t-1] |= (x&((1<<(this.DB-sh))-1))<<sh;
|
||||
this[this.t++] = (x>>(this.DB-sh));
|
||||
}
|
||||
else
|
||||
this[this.t-1] |= x<<sh;
|
||||
sh += k;
|
||||
if(sh >= this.DB) sh -= this.DB;
|
||||
}
|
||||
if(k == 8 && (s[0]&0x80) != 0) {
|
||||
this.s = -1;
|
||||
if(sh > 0) this[this.t-1] |= ((1<<(this.DB-sh))-1)<<sh;
|
||||
}
|
||||
this.clamp();
|
||||
if(mi) BigInteger.ZERO.subTo(this,this);
|
||||
}
|
||||
|
||||
// (protected) clamp off excess high words
|
||||
function bnpClamp() {
|
||||
var c = this.s&this.DM;
|
||||
while(this.t > 0 && this[this.t-1] == c) --this.t;
|
||||
}
|
||||
|
||||
// (public) return string representation in given radix
|
||||
function bnToString(b) {
|
||||
if(this.s < 0) return "-"+this.negate().toString(b);
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else return this.toRadix(b);
|
||||
var km = (1<<k)-1, d, m = false, r = "", i = this.t;
|
||||
var p = this.DB-(i*this.DB)%k;
|
||||
if(i-- > 0) {
|
||||
if(p < this.DB && (d = this[i]>>p) > 0) { m = true; r = int2char(d); }
|
||||
while(i >= 0) {
|
||||
if(p < k) {
|
||||
d = (this[i]&((1<<p)-1))<<(k-p);
|
||||
d |= this[--i]>>(p+=this.DB-k);
|
||||
}
|
||||
else {
|
||||
d = (this[i]>>(p-=k))&km;
|
||||
if(p <= 0) { p += this.DB; --i; }
|
||||
}
|
||||
if(d > 0) m = true;
|
||||
if(m) r += int2char(d);
|
||||
}
|
||||
}
|
||||
return m?r:"0";
|
||||
}
|
||||
|
||||
// (public) -this
|
||||
function bnNegate() { var r = nbi(); BigInteger.ZERO.subTo(this,r); return r; }
|
||||
|
||||
// (public) |this|
|
||||
function bnAbs() { return (this.s<0)?this.negate():this; }
|
||||
|
||||
// (public) return + if this > a, - if this < a, 0 if equal
|
||||
function bnCompareTo(a) {
|
||||
var r = this.s-a.s;
|
||||
if(r != 0) return r;
|
||||
var i = this.t;
|
||||
r = i-a.t;
|
||||
if(r != 0) return r;
|
||||
while(--i >= 0) if((r=this[i]-a[i]) != 0) return r;
|
||||
return 0;
|
||||
}
|
||||
|
||||
// returns bit length of the integer x
|
||||
function nbits(x) {
|
||||
var r = 1, t;
|
||||
if((t=x>>>16) != 0) { x = t; r += 16; }
|
||||
if((t=x>>8) != 0) { x = t; r += 8; }
|
||||
if((t=x>>4) != 0) { x = t; r += 4; }
|
||||
if((t=x>>2) != 0) { x = t; r += 2; }
|
||||
if((t=x>>1) != 0) { x = t; r += 1; }
|
||||
return r;
|
||||
}
|
||||
|
||||
// (public) return the number of bits in "this"
|
||||
function bnBitLength() {
|
||||
if(this.t <= 0) return 0;
|
||||
return this.DB*(this.t-1)+nbits(this[this.t-1]^(this.s&this.DM));
|
||||
}
|
||||
|
||||
// (protected) r = this << n*DB
|
||||
function bnpDLShiftTo(n,r) {
|
||||
var i;
|
||||
for(i = this.t-1; i >= 0; --i) r[i+n] = this[i];
|
||||
for(i = n-1; i >= 0; --i) r[i] = 0;
|
||||
r.t = this.t+n;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this >> n*DB
|
||||
function bnpDRShiftTo(n,r) {
|
||||
for(var i = n; i < this.t; ++i) r[i-n] = this[i];
|
||||
r.t = Math.max(this.t-n,0);
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this << n
|
||||
function bnpLShiftTo(n,r) {
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<cbs)-1;
|
||||
var ds = Math.floor(n/this.DB), c = (this.s<<bs)&this.DM, i;
|
||||
for(i = this.t-1; i >= 0; --i) {
|
||||
r[i+ds+1] = (this[i]>>cbs)|c;
|
||||
c = (this[i]&bm)<<bs;
|
||||
}
|
||||
for(i = ds-1; i >= 0; --i) r[i] = 0;
|
||||
r[ds] = c;
|
||||
r.t = this.t+ds+1;
|
||||
r.s = this.s;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this >> n
|
||||
function bnpRShiftTo(n,r) {
|
||||
r.s = this.s;
|
||||
var ds = Math.floor(n/this.DB);
|
||||
if(ds >= this.t) { r.t = 0; return; }
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<bs)-1;
|
||||
r[0] = this[ds]>>bs;
|
||||
for(var i = ds+1; i < this.t; ++i) {
|
||||
r[i-ds-1] |= (this[i]&bm)<<cbs;
|
||||
r[i-ds] = this[i]>>bs;
|
||||
}
|
||||
if(bs > 0) r[this.t-ds-1] |= (this.s&bm)<<cbs;
|
||||
r.t = this.t-ds;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this - a
|
||||
function bnpSubTo(a,r) {
|
||||
var i = 0, c = 0, m = Math.min(a.t,this.t);
|
||||
while(i < m) {
|
||||
c += this[i]-a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
if(a.t < this.t) {
|
||||
c -= a.s;
|
||||
while(i < this.t) {
|
||||
c += this[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c += this.s;
|
||||
}
|
||||
else {
|
||||
c += this.s;
|
||||
while(i < a.t) {
|
||||
c -= a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c -= a.s;
|
||||
}
|
||||
r.s = (c<0)?-1:0;
|
||||
if(c < -1) r[i++] = this.DV+c;
|
||||
else if(c > 0) r[i++] = c;
|
||||
r.t = i;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this * a, r != this,a (HAC 14.12)
|
||||
// "this" should be the larger one if appropriate.
|
||||
function bnpMultiplyTo(a,r) {
|
||||
var x = this.abs(), y = a.abs();
|
||||
var i = x.t;
|
||||
r.t = i+y.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < y.t; ++i) r[i+x.t] = x.am(0,y[i],r,i,0,x.t);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
if(this.s != a.s) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (protected) r = this^2, r != this (HAC 14.16)
|
||||
function bnpSquareTo(r) {
|
||||
var x = this.abs();
|
||||
var i = r.t = 2*x.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < x.t-1; ++i) {
|
||||
var c = x.am(i,x[i],r,2*i,0,1);
|
||||
if((r[i+x.t]+=x.am(i+1,2*x[i],r,2*i+1,c,x.t-i-1)) >= x.DV) {
|
||||
r[i+x.t] -= x.DV;
|
||||
r[i+x.t+1] = 1;
|
||||
}
|
||||
}
|
||||
if(r.t > 0) r[r.t-1] += x.am(i,x[i],r,2*i,0,1);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) divide this by m, quotient and remainder to q, r (HAC 14.20)
|
||||
// r != q, this != m. q or r may be null.
|
||||
function bnpDivRemTo(m,q,r) {
|
||||
var pm = m.abs();
|
||||
if(pm.t <= 0) return;
|
||||
var pt = this.abs();
|
||||
if(pt.t < pm.t) {
|
||||
if(q != null) q.fromInt(0);
|
||||
if(r != null) this.copyTo(r);
|
||||
return;
|
||||
}
|
||||
if(r == null) r = nbi();
|
||||
var y = nbi(), ts = this.s, ms = m.s;
|
||||
var nsh = this.DB-nbits(pm[pm.t-1]); // normalize modulus
|
||||
if(nsh > 0) { pm.lShiftTo(nsh,y); pt.lShiftTo(nsh,r); }
|
||||
else { pm.copyTo(y); pt.copyTo(r); }
|
||||
var ys = y.t;
|
||||
var y0 = y[ys-1];
|
||||
if(y0 == 0) return;
|
||||
var yt = y0*(1<<this.F1)+((ys>1)?y[ys-2]>>this.F2:0);
|
||||
var d1 = this.FV/yt, d2 = (1<<this.F1)/yt, e = 1<<this.F2;
|
||||
var i = r.t, j = i-ys, t = (q==null)?nbi():q;
|
||||
y.dlShiftTo(j,t);
|
||||
if(r.compareTo(t) >= 0) {
|
||||
r[r.t++] = 1;
|
||||
r.subTo(t,r);
|
||||
}
|
||||
BigInteger.ONE.dlShiftTo(ys,t);
|
||||
t.subTo(y,y); // "negative" y so we can replace sub with am later
|
||||
while(y.t < ys) y[y.t++] = 0;
|
||||
while(--j >= 0) {
|
||||
// Estimate quotient digit
|
||||
var qd = (r[--i]==y0)?this.DM:Math.floor(r[i]*d1+(r[i-1]+e)*d2);
|
||||
if((r[i]+=y.am(0,qd,r,j,0,ys)) < qd) { // Try it out
|
||||
y.dlShiftTo(j,t);
|
||||
r.subTo(t,r);
|
||||
while(r[i] < --qd) r.subTo(t,r);
|
||||
}
|
||||
}
|
||||
if(q != null) {
|
||||
r.drShiftTo(ys,q);
|
||||
if(ts != ms) BigInteger.ZERO.subTo(q,q);
|
||||
}
|
||||
r.t = ys;
|
||||
r.clamp();
|
||||
if(nsh > 0) r.rShiftTo(nsh,r); // Denormalize remainder
|
||||
if(ts < 0) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (public) this mod a
|
||||
function bnMod(a) {
|
||||
var r = nbi();
|
||||
this.abs().divRemTo(a,null,r);
|
||||
if(this.s < 0 && r.compareTo(BigInteger.ZERO) > 0) a.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// Modular reduction using "classic" algorithm
|
||||
function Classic(m) { this.m = m; }
|
||||
function cConvert(x) {
|
||||
if(x.s < 0 || x.compareTo(this.m) >= 0) return x.mod(this.m);
|
||||
else return x;
|
||||
}
|
||||
function cRevert(x) { return x; }
|
||||
function cReduce(x) { x.divRemTo(this.m,null,x); }
|
||||
function cMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
function cSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
Classic.prototype.convert = cConvert;
|
||||
Classic.prototype.revert = cRevert;
|
||||
Classic.prototype.reduce = cReduce;
|
||||
Classic.prototype.mulTo = cMulTo;
|
||||
Classic.prototype.sqrTo = cSqrTo;
|
||||
|
||||
// (protected) return "-1/this % 2^DB"; useful for Mont. reduction
|
||||
// justification:
|
||||
// xy == 1 (mod m)
|
||||
// xy = 1+km
|
||||
// xy(2-xy) = (1+km)(1-km)
|
||||
// x[y(2-xy)] = 1-k^2m^2
|
||||
// x[y(2-xy)] == 1 (mod m^2)
|
||||
// if y is 1/x mod m, then y(2-xy) is 1/x mod m^2
|
||||
// should reduce x and y(2-xy) by m^2 at each step to keep size bounded.
|
||||
// JS multiply "overflows" differently from C/C++, so care is needed here.
|
||||
function bnpInvDigit() {
|
||||
if(this.t < 1) return 0;
|
||||
var x = this[0];
|
||||
if((x&1) == 0) return 0;
|
||||
var y = x&3; // y == 1/x mod 2^2
|
||||
y = (y*(2-(x&0xf)*y))&0xf; // y == 1/x mod 2^4
|
||||
y = (y*(2-(x&0xff)*y))&0xff; // y == 1/x mod 2^8
|
||||
y = (y*(2-(((x&0xffff)*y)&0xffff)))&0xffff; // y == 1/x mod 2^16
|
||||
// last step - calculate inverse mod DV directly;
|
||||
// assumes 16 < DB <= 32 and assumes ability to handle 48-bit ints
|
||||
y = (y*(2-x*y%this.DV))%this.DV; // y == 1/x mod 2^dbits
|
||||
// we really want the negative inverse, and -DV < y < DV
|
||||
return (y>0)?this.DV-y:-y;
|
||||
}
|
||||
|
||||
// Montgomery reduction
|
||||
function Montgomery(m) {
|
||||
this.m = m;
|
||||
this.mp = m.invDigit();
|
||||
this.mpl = this.mp&0x7fff;
|
||||
this.mph = this.mp>>15;
|
||||
this.um = (1<<(m.DB-15))-1;
|
||||
this.mt2 = 2*m.t;
|
||||
}
|
||||
|
||||
// xR mod m
|
||||
function montConvert(x) {
|
||||
var r = nbi();
|
||||
x.abs().dlShiftTo(this.m.t,r);
|
||||
r.divRemTo(this.m,null,r);
|
||||
if(x.s < 0 && r.compareTo(BigInteger.ZERO) > 0) this.m.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x/R mod m
|
||||
function montRevert(x) {
|
||||
var r = nbi();
|
||||
x.copyTo(r);
|
||||
this.reduce(r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x = x/R mod m (HAC 14.32)
|
||||
function montReduce(x) {
|
||||
while(x.t <= this.mt2) // pad x so am has enough room later
|
||||
x[x.t++] = 0;
|
||||
for(var i = 0; i < this.m.t; ++i) {
|
||||
// faster way of calculating u0 = x[i]*mp mod DV
|
||||
var j = x[i]&0x7fff;
|
||||
var u0 = (j*this.mpl+(((j*this.mph+(x[i]>>15)*this.mpl)&this.um)<<15))&x.DM;
|
||||
// use am to combine the multiply-shift-add into one call
|
||||
j = i+this.m.t;
|
||||
x[j] += this.m.am(0,u0,x,i,0,this.m.t);
|
||||
// propagate carry
|
||||
while(x[j] >= x.DV) { x[j] -= x.DV; x[++j]++; }
|
||||
}
|
||||
x.clamp();
|
||||
x.drShiftTo(this.m.t,x);
|
||||
if(x.compareTo(this.m) >= 0) x.subTo(this.m,x);
|
||||
}
|
||||
|
||||
// r = "x^2/R mod m"; x != r
|
||||
function montSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
// r = "xy/R mod m"; x,y != r
|
||||
function montMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
|
||||
Montgomery.prototype.convert = montConvert;
|
||||
Montgomery.prototype.revert = montRevert;
|
||||
Montgomery.prototype.reduce = montReduce;
|
||||
Montgomery.prototype.mulTo = montMulTo;
|
||||
Montgomery.prototype.sqrTo = montSqrTo;
|
||||
|
||||
// (protected) true iff this is even
|
||||
function bnpIsEven() { return ((this.t>0)?(this[0]&1):this.s) == 0; }
|
||||
|
||||
// (protected) this^e, e < 2^32, doing sqr and mul with "r" (HAC 14.79)
|
||||
function bnpExp(e,z) {
|
||||
if(e > 0xffffffff || e < 1) return BigInteger.ONE;
|
||||
var r = nbi(), r2 = nbi(), g = z.convert(this), i = nbits(e)-1;
|
||||
g.copyTo(r);
|
||||
while(--i >= 0) {
|
||||
z.sqrTo(r,r2);
|
||||
if((e&(1<<i)) > 0) z.mulTo(r2,g,r);
|
||||
else { var t = r; r = r2; r2 = t; }
|
||||
}
|
||||
return z.revert(r);
|
||||
}
|
||||
|
||||
// (public) this^e % m, 0 <= e < 2^32
|
||||
function bnModPowInt(e,m) {
|
||||
var z;
|
||||
if(e < 256 || m.isEven()) z = new Classic(m); else z = new Montgomery(m);
|
||||
return this.exp(e,z);
|
||||
}
|
||||
|
||||
// protected
|
||||
BigInteger.prototype.copyTo = bnpCopyTo;
|
||||
BigInteger.prototype.fromInt = bnpFromInt;
|
||||
BigInteger.prototype.fromString = bnpFromString;
|
||||
BigInteger.prototype.clamp = bnpClamp;
|
||||
BigInteger.prototype.dlShiftTo = bnpDLShiftTo;
|
||||
BigInteger.prototype.drShiftTo = bnpDRShiftTo;
|
||||
BigInteger.prototype.lShiftTo = bnpLShiftTo;
|
||||
BigInteger.prototype.rShiftTo = bnpRShiftTo;
|
||||
BigInteger.prototype.subTo = bnpSubTo;
|
||||
BigInteger.prototype.multiplyTo = bnpMultiplyTo;
|
||||
BigInteger.prototype.squareTo = bnpSquareTo;
|
||||
BigInteger.prototype.divRemTo = bnpDivRemTo;
|
||||
BigInteger.prototype.invDigit = bnpInvDigit;
|
||||
BigInteger.prototype.isEven = bnpIsEven;
|
||||
BigInteger.prototype.exp = bnpExp;
|
||||
|
||||
// public
|
||||
BigInteger.prototype.toString = bnToString;
|
||||
BigInteger.prototype.negate = bnNegate;
|
||||
BigInteger.prototype.abs = bnAbs;
|
||||
BigInteger.prototype.compareTo = bnCompareTo;
|
||||
BigInteger.prototype.bitLength = bnBitLength;
|
||||
BigInteger.prototype.mod = bnMod;
|
||||
BigInteger.prototype.modPowInt = bnModPowInt;
|
||||
|
||||
// "constants"
|
||||
BigInteger.ZERO = nbv(0);
|
||||
BigInteger.ONE = nbv(1);
|
||||
|
||||
@@ -0,0 +1,47 @@
|
||||
// ==== File: prng4.js
|
||||
// prng4.js - uses Arcfour as a PRNG
|
||||
|
||||
function Arcfour() {
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
this.S = new Array();
|
||||
}
|
||||
|
||||
// Initialize arcfour context from key, an array of ints, each from [0..255]
|
||||
function ARC4init(key) {
|
||||
var i, j, t;
|
||||
for(i = 0; i < 256; ++i)
|
||||
this.S[i] = i;
|
||||
j = 0;
|
||||
for(i = 0; i < 256; ++i) {
|
||||
j = (j + this.S[i] + key[i % key.length]) & 255;
|
||||
t = this.S[i];
|
||||
this.S[i] = this.S[j];
|
||||
this.S[j] = t;
|
||||
}
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
}
|
||||
|
||||
function ARC4next() {
|
||||
var t;
|
||||
this.i = (this.i + 1) & 255;
|
||||
this.j = (this.j + this.S[this.i]) & 255;
|
||||
t = this.S[this.i];
|
||||
this.S[this.i] = this.S[this.j];
|
||||
this.S[this.j] = t;
|
||||
return this.S[(t + this.S[this.i]) & 255];
|
||||
}
|
||||
|
||||
Arcfour.prototype.init = ARC4init;
|
||||
Arcfour.prototype.next = ARC4next;
|
||||
|
||||
// Plug in your RNG constructor here
|
||||
function prng_newstate() {
|
||||
return new Arcfour();
|
||||
}
|
||||
|
||||
// Pool size must be a multiple of 4 and greater than 32.
|
||||
// An array of bytes the size of the pool will be passed to init()
|
||||
var rng_psize = 256;
|
||||
|
||||
@@ -0,0 +1,70 @@
|
||||
// ==== File: rng.js
|
||||
// Random number generator - requires a PRNG backend, e.g. prng4.js
|
||||
|
||||
// For best results, put code like
|
||||
// <body onClick='rng_seed_time();' onKeyPress='rng_seed_time();'>
|
||||
// in your main HTML document.
|
||||
|
||||
var rng_state;
|
||||
var rng_pool;
|
||||
var rng_pptr;
|
||||
|
||||
// Mix in a 32-bit integer into the pool
|
||||
function rng_seed_int(x) {
|
||||
rng_pool[rng_pptr++] ^= x & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 8) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 16) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 24) & 255;
|
||||
if(rng_pptr >= rng_psize) rng_pptr -= rng_psize;
|
||||
}
|
||||
|
||||
// Mix in the current time (w/milliseconds) into the pool
|
||||
function rng_seed_time() {
|
||||
rng_seed_int(new Date().getTime());
|
||||
}
|
||||
|
||||
// Initialize the pool with junk if needed.
|
||||
if(rng_pool == null) {
|
||||
rng_pool = new Array();
|
||||
rng_pptr = 0;
|
||||
var t;
|
||||
if(navigator.appName == "Netscape" && navigator.appVersion < "5" && window.crypto) {
|
||||
// Extract entropy (256 bits) from NS4 RNG if available
|
||||
var z = window.crypto.random(32);
|
||||
for(t = 0; t < z.length; ++t)
|
||||
rng_pool[rng_pptr++] = z.charCodeAt(t) & 255;
|
||||
}
|
||||
while(rng_pptr < rng_psize) { // extract some randomness from Math.random()
|
||||
t = Math.floor(65536 * Math.random());
|
||||
rng_pool[rng_pptr++] = t >>> 8;
|
||||
rng_pool[rng_pptr++] = t & 255;
|
||||
}
|
||||
rng_pptr = 0;
|
||||
rng_seed_time();
|
||||
//rng_seed_int(window.screenX);
|
||||
//rng_seed_int(window.screenY);
|
||||
}
|
||||
|
||||
function rng_get_byte() {
|
||||
if(rng_state == null) {
|
||||
rng_seed_time();
|
||||
rng_state = prng_newstate();
|
||||
rng_state.init(rng_pool);
|
||||
for(rng_pptr = 0; rng_pptr < rng_pool.length; ++rng_pptr)
|
||||
rng_pool[rng_pptr] = 0;
|
||||
rng_pptr = 0;
|
||||
//rng_pool = null;
|
||||
}
|
||||
// TODO: allow reseeding after first request
|
||||
return rng_state.next();
|
||||
}
|
||||
|
||||
function rng_get_bytes(ba) {
|
||||
var i;
|
||||
for(i = 0; i < ba.length; ++i) ba[i] = rng_get_byte();
|
||||
}
|
||||
|
||||
function SecureRandom() {}
|
||||
|
||||
SecureRandom.prototype.nextBytes = rng_get_bytes;
|
||||
|
||||
@@ -0,0 +1,114 @@
|
||||
// ==== File: rsa.js
|
||||
// Depends on jsbn.js and rng.js
|
||||
|
||||
// Version 1.1: support utf-8 encoding in pkcs1pad2
|
||||
|
||||
// convert a (hex) string to a bignum object
|
||||
function parseBigInt(str,r) {
|
||||
return new BigInteger(str,r);
|
||||
}
|
||||
|
||||
function linebrk(s,n) {
|
||||
var ret = "";
|
||||
var i = 0;
|
||||
while(i + n < s.length) {
|
||||
ret += s.substring(i,i+n) + "\n";
|
||||
i += n;
|
||||
}
|
||||
return ret + s.substring(i,s.length);
|
||||
}
|
||||
|
||||
function byte2Hex(b) {
|
||||
if(b < 0x10)
|
||||
return "0" + b.toString(16);
|
||||
else
|
||||
return b.toString(16);
|
||||
}
|
||||
|
||||
// PKCS#1 (type 2, random) pad input string s to n bytes, and return a bigint
|
||||
function pkcs1pad2(s,n) {
|
||||
if(n < s.length + 11) { // TODO: fix for utf-8
|
||||
alert("Message too long for RSA");
|
||||
return null;
|
||||
}
|
||||
var ba = new Array();
|
||||
var i = s.length - 1;
|
||||
while(i >= 0 && n > 0) {
|
||||
var c = s.charCodeAt(i--);
|
||||
if(c < 128) { // encode using utf-8
|
||||
ba[--n] = c;
|
||||
}
|
||||
else if((c > 127) && (c < 2048)) {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = (c >> 6) | 192;
|
||||
}
|
||||
else {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = ((c >> 6) & 63) | 128;
|
||||
ba[--n] = (c >> 12) | 224;
|
||||
}
|
||||
}
|
||||
ba[--n] = 0;
|
||||
var rng = new SecureRandom();
|
||||
var x = new Array();
|
||||
while(n > 2) { // random non-zero pad
|
||||
x[0] = 0;
|
||||
while(x[0] == 0) rng.nextBytes(x);
|
||||
ba[--n] = x[0];
|
||||
}
|
||||
ba[--n] = 2;
|
||||
ba[--n] = 0;
|
||||
return new BigInteger(ba);
|
||||
}
|
||||
|
||||
// "empty" RSA key constructor
|
||||
function RSAKey() {
|
||||
this.n = null;
|
||||
this.e = 0;
|
||||
this.d = null;
|
||||
this.p = null;
|
||||
this.q = null;
|
||||
this.dmp1 = null;
|
||||
this.dmq1 = null;
|
||||
this.coeff = null;
|
||||
}
|
||||
|
||||
// Set the public key fields N and e from hex strings
|
||||
function RSASetPublic(N,E) {
|
||||
if(N != null && E != null && N.length > 0 && E.length > 0) {
|
||||
this.n = parseBigInt(N,16);
|
||||
this.e = parseInt(E,16);
|
||||
}
|
||||
else
|
||||
alert("Invalid RSA public key");
|
||||
}
|
||||
|
||||
// Perform raw public operation on "x": return x^e (mod n)
|
||||
function RSADoPublic(x) {
|
||||
return x.modPowInt(this.e, this.n);
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as an even-length hex string
|
||||
function RSAEncrypt(text) {
|
||||
var m = pkcs1pad2(text,(this.n.bitLength()+7)>>3);
|
||||
if(m == null) return null;
|
||||
var c = this.doPublic(m);
|
||||
if(c == null) return null;
|
||||
var h = c.toString(16);
|
||||
if((h.length & 1) == 0) return h; else return "0" + h;
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as a Base64-encoded string
|
||||
//function RSAEncryptB64(text) {
|
||||
// var h = this.encrypt(text);
|
||||
// if(h) return hex2b64(h); else return null;
|
||||
//}
|
||||
|
||||
// protected
|
||||
RSAKey.prototype.doPublic = RSADoPublic;
|
||||
|
||||
// public
|
||||
RSAKey.prototype.setPublic = RSASetPublic;
|
||||
RSAKey.prototype.encrypt = RSAEncrypt;
|
||||
//RSAKey.prototype.encrypt_b64 = RSAEncryptB64;
|
||||
|
||||
@@ -0,0 +1,71 @@
|
||||
var b64map="ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789+/";
|
||||
var b64padchar="=";
|
||||
|
||||
function hex2b64(h) {
|
||||
var i;
|
||||
var c;
|
||||
var ret = "";
|
||||
for(i = 0; i+3 <= h.length; i+=3) {
|
||||
c = parseInt(h.substring(i,i+3),16);
|
||||
ret += b64map.charAt(c >> 6) + b64map.charAt(c & 63);
|
||||
}
|
||||
if(i+1 == h.length) {
|
||||
c = parseInt(h.substring(i,i+1),16);
|
||||
ret += b64map.charAt(c << 2);
|
||||
}
|
||||
else if(i+2 == h.length) {
|
||||
c = parseInt(h.substring(i,i+2),16);
|
||||
ret += b64map.charAt(c >> 2) + b64map.charAt((c & 3) << 4);
|
||||
}
|
||||
while((ret.length & 3) > 0) ret += b64padchar;
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to hex
|
||||
function b64tohex(s) {
|
||||
var ret = ""
|
||||
var i;
|
||||
var k = 0; // b64 state, 0-3
|
||||
var slop;
|
||||
for(i = 0; i < s.length; ++i) {
|
||||
if(s.charAt(i) == b64padchar) break;
|
||||
v = b64map.indexOf(s.charAt(i));
|
||||
if(v < 0) continue;
|
||||
if(k == 0) {
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 1;
|
||||
}
|
||||
else if(k == 1) {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
slop = v & 0xf;
|
||||
k = 2;
|
||||
}
|
||||
else if(k == 2) {
|
||||
ret += int2char(slop);
|
||||
ret += int2char(v >> 2);
|
||||
slop = v & 3;
|
||||
k = 3;
|
||||
}
|
||||
else {
|
||||
ret += int2char((slop << 2) | (v >> 4));
|
||||
ret += int2char(v & 0xf);
|
||||
k = 0;
|
||||
}
|
||||
}
|
||||
if(k == 1)
|
||||
ret += int2char(slop << 2);
|
||||
return ret;
|
||||
}
|
||||
|
||||
// convert a base64 string to a byte/number array
|
||||
function b64toBA(s) {
|
||||
//piggyback on b64tohex for now, optimize later
|
||||
var h = b64tohex(s);
|
||||
var i;
|
||||
var a = new Array();
|
||||
for(i = 0; 2*i < h.length; ++i) {
|
||||
a[i] = parseInt(h.substring(2*i,2*i+2),16);
|
||||
}
|
||||
return a;
|
||||
}
|
||||
@@ -0,0 +1,559 @@
|
||||
// Copyright (c) 2005 Tom Wu
|
||||
// All Rights Reserved.
|
||||
// See "LICENSE" for details.
|
||||
|
||||
// Basic JavaScript BN library - subset useful for RSA encryption.
|
||||
|
||||
// Bits per digit
|
||||
var dbits;
|
||||
|
||||
// JavaScript engine analysis
|
||||
var canary = 0xdeadbeefcafe;
|
||||
var j_lm = ((canary&0xffffff)==0xefcafe);
|
||||
|
||||
// (public) Constructor
|
||||
function BigInteger(a,b,c) {
|
||||
if(a != null)
|
||||
if("number" == typeof a) this.fromNumber(a,b,c);
|
||||
else if(b == null && "string" != typeof a) this.fromString(a,256);
|
||||
else this.fromString(a,b);
|
||||
}
|
||||
|
||||
// return new, unset BigInteger
|
||||
function nbi() { return new BigInteger(null); }
|
||||
|
||||
// am: Compute w_j += (x*this_i), propagate carries,
|
||||
// c is initial carry, returns final carry.
|
||||
// c < 3*dvalue, x < 2*dvalue, this_i < dvalue
|
||||
// We need to select the fastest one that works in this environment.
|
||||
|
||||
// am1: use a single mult and divide to get the high bits,
|
||||
// max digit bits should be 26 because
|
||||
// max internal value = 2*dvalue^2-2*dvalue (< 2^53)
|
||||
function am1(i,x,w,j,c,n) {
|
||||
while(--n >= 0) {
|
||||
var v = x*this[i++]+w[j]+c;
|
||||
c = Math.floor(v/0x4000000);
|
||||
w[j++] = v&0x3ffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// am2 avoids a big mult-and-extract completely.
|
||||
// Max digit bits should be <= 30 because we do bitwise ops
|
||||
// on values up to 2*hdvalue^2-hdvalue-1 (< 2^31)
|
||||
function am2(i,x,w,j,c,n) {
|
||||
var xl = x&0x7fff, xh = x>>15;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x7fff;
|
||||
var h = this[i++]>>15;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x7fff)<<15)+w[j]+(c&0x3fffffff);
|
||||
c = (l>>>30)+(m>>>15)+xh*h+(c>>>30);
|
||||
w[j++] = l&0x3fffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
// Alternately, set max digit bits to 28 since some
|
||||
// browsers slow down when dealing with 32-bit numbers.
|
||||
function am3(i,x,w,j,c,n) {
|
||||
var xl = x&0x3fff, xh = x>>14;
|
||||
while(--n >= 0) {
|
||||
var l = this[i]&0x3fff;
|
||||
var h = this[i++]>>14;
|
||||
var m = xh*l+h*xl;
|
||||
l = xl*l+((m&0x3fff)<<14)+w[j]+c;
|
||||
c = (l>>28)+(m>>14)+xh*h;
|
||||
w[j++] = l&0xfffffff;
|
||||
}
|
||||
return c;
|
||||
}
|
||||
if(j_lm && (navigator.appName == "Microsoft Internet Explorer")) {
|
||||
BigInteger.prototype.am = am2;
|
||||
dbits = 30;
|
||||
}
|
||||
else if(j_lm && (navigator.appName != "Netscape")) {
|
||||
BigInteger.prototype.am = am1;
|
||||
dbits = 26;
|
||||
}
|
||||
else { // Mozilla/Netscape seems to prefer am3
|
||||
BigInteger.prototype.am = am3;
|
||||
dbits = 28;
|
||||
}
|
||||
|
||||
BigInteger.prototype.DB = dbits;
|
||||
BigInteger.prototype.DM = ((1<<dbits)-1);
|
||||
BigInteger.prototype.DV = (1<<dbits);
|
||||
|
||||
var BI_FP = 52;
|
||||
BigInteger.prototype.FV = Math.pow(2,BI_FP);
|
||||
BigInteger.prototype.F1 = BI_FP-dbits;
|
||||
BigInteger.prototype.F2 = 2*dbits-BI_FP;
|
||||
|
||||
// Digit conversions
|
||||
var BI_RM = "0123456789abcdefghijklmnopqrstuvwxyz";
|
||||
var BI_RC = new Array();
|
||||
var rr,vv;
|
||||
rr = "0".charCodeAt(0);
|
||||
for(vv = 0; vv <= 9; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "a".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
rr = "A".charCodeAt(0);
|
||||
for(vv = 10; vv < 36; ++vv) BI_RC[rr++] = vv;
|
||||
|
||||
function int2char(n) { return BI_RM.charAt(n); }
|
||||
function intAt(s,i) {
|
||||
var c = BI_RC[s.charCodeAt(i)];
|
||||
return (c==null)?-1:c;
|
||||
}
|
||||
|
||||
// (protected) copy this to r
|
||||
function bnpCopyTo(r) {
|
||||
for(var i = this.t-1; i >= 0; --i) r[i] = this[i];
|
||||
r.t = this.t;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) set from integer value x, -DV <= x < DV
|
||||
function bnpFromInt(x) {
|
||||
this.t = 1;
|
||||
this.s = (x<0)?-1:0;
|
||||
if(x > 0) this[0] = x;
|
||||
else if(x < -1) this[0] = x+this.DV;
|
||||
else this.t = 0;
|
||||
}
|
||||
|
||||
// return bigint initialized to value
|
||||
function nbv(i) { var r = nbi(); r.fromInt(i); return r; }
|
||||
|
||||
// (protected) set from string and radix
|
||||
function bnpFromString(s,b) {
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 256) k = 8; // byte array
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else { this.fromRadix(s,b); return; }
|
||||
this.t = 0;
|
||||
this.s = 0;
|
||||
var i = s.length, mi = false, sh = 0;
|
||||
while(--i >= 0) {
|
||||
var x = (k==8)?s[i]&0xff:intAt(s,i);
|
||||
if(x < 0) {
|
||||
if(s.charAt(i) == "-") mi = true;
|
||||
continue;
|
||||
}
|
||||
mi = false;
|
||||
if(sh == 0)
|
||||
this[this.t++] = x;
|
||||
else if(sh+k > this.DB) {
|
||||
this[this.t-1] |= (x&((1<<(this.DB-sh))-1))<<sh;
|
||||
this[this.t++] = (x>>(this.DB-sh));
|
||||
}
|
||||
else
|
||||
this[this.t-1] |= x<<sh;
|
||||
sh += k;
|
||||
if(sh >= this.DB) sh -= this.DB;
|
||||
}
|
||||
if(k == 8 && (s[0]&0x80) != 0) {
|
||||
this.s = -1;
|
||||
if(sh > 0) this[this.t-1] |= ((1<<(this.DB-sh))-1)<<sh;
|
||||
}
|
||||
this.clamp();
|
||||
if(mi) BigInteger.ZERO.subTo(this,this);
|
||||
}
|
||||
|
||||
// (protected) clamp off excess high words
|
||||
function bnpClamp() {
|
||||
var c = this.s&this.DM;
|
||||
while(this.t > 0 && this[this.t-1] == c) --this.t;
|
||||
}
|
||||
|
||||
// (public) return string representation in given radix
|
||||
function bnToString(b) {
|
||||
if(this.s < 0) return "-"+this.negate().toString(b);
|
||||
var k;
|
||||
if(b == 16) k = 4;
|
||||
else if(b == 8) k = 3;
|
||||
else if(b == 2) k = 1;
|
||||
else if(b == 32) k = 5;
|
||||
else if(b == 4) k = 2;
|
||||
else return this.toRadix(b);
|
||||
var km = (1<<k)-1, d, m = false, r = "", i = this.t;
|
||||
var p = this.DB-(i*this.DB)%k;
|
||||
if(i-- > 0) {
|
||||
if(p < this.DB && (d = this[i]>>p) > 0) { m = true; r = int2char(d); }
|
||||
while(i >= 0) {
|
||||
if(p < k) {
|
||||
d = (this[i]&((1<<p)-1))<<(k-p);
|
||||
d |= this[--i]>>(p+=this.DB-k);
|
||||
}
|
||||
else {
|
||||
d = (this[i]>>(p-=k))&km;
|
||||
if(p <= 0) { p += this.DB; --i; }
|
||||
}
|
||||
if(d > 0) m = true;
|
||||
if(m) r += int2char(d);
|
||||
}
|
||||
}
|
||||
return m?r:"0";
|
||||
}
|
||||
|
||||
// (public) -this
|
||||
function bnNegate() { var r = nbi(); BigInteger.ZERO.subTo(this,r); return r; }
|
||||
|
||||
// (public) |this|
|
||||
function bnAbs() { return (this.s<0)?this.negate():this; }
|
||||
|
||||
// (public) return + if this > a, - if this < a, 0 if equal
|
||||
function bnCompareTo(a) {
|
||||
var r = this.s-a.s;
|
||||
if(r != 0) return r;
|
||||
var i = this.t;
|
||||
r = i-a.t;
|
||||
if(r != 0) return (this.s<0)?-r:r;
|
||||
while(--i >= 0) if((r=this[i]-a[i]) != 0) return r;
|
||||
return 0;
|
||||
}
|
||||
|
||||
// returns bit length of the integer x
|
||||
function nbits(x) {
|
||||
var r = 1, t;
|
||||
if((t=x>>>16) != 0) { x = t; r += 16; }
|
||||
if((t=x>>8) != 0) { x = t; r += 8; }
|
||||
if((t=x>>4) != 0) { x = t; r += 4; }
|
||||
if((t=x>>2) != 0) { x = t; r += 2; }
|
||||
if((t=x>>1) != 0) { x = t; r += 1; }
|
||||
return r;
|
||||
}
|
||||
|
||||
// (public) return the number of bits in "this"
|
||||
function bnBitLength() {
|
||||
if(this.t <= 0) return 0;
|
||||
return this.DB*(this.t-1)+nbits(this[this.t-1]^(this.s&this.DM));
|
||||
}
|
||||
|
||||
// (protected) r = this << n*DB
|
||||
function bnpDLShiftTo(n,r) {
|
||||
var i;
|
||||
for(i = this.t-1; i >= 0; --i) r[i+n] = this[i];
|
||||
for(i = n-1; i >= 0; --i) r[i] = 0;
|
||||
r.t = this.t+n;
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this >> n*DB
|
||||
function bnpDRShiftTo(n,r) {
|
||||
for(var i = n; i < this.t; ++i) r[i-n] = this[i];
|
||||
r.t = Math.max(this.t-n,0);
|
||||
r.s = this.s;
|
||||
}
|
||||
|
||||
// (protected) r = this << n
|
||||
function bnpLShiftTo(n,r) {
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<cbs)-1;
|
||||
var ds = Math.floor(n/this.DB), c = (this.s<<bs)&this.DM, i;
|
||||
for(i = this.t-1; i >= 0; --i) {
|
||||
r[i+ds+1] = (this[i]>>cbs)|c;
|
||||
c = (this[i]&bm)<<bs;
|
||||
}
|
||||
for(i = ds-1; i >= 0; --i) r[i] = 0;
|
||||
r[ds] = c;
|
||||
r.t = this.t+ds+1;
|
||||
r.s = this.s;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this >> n
|
||||
function bnpRShiftTo(n,r) {
|
||||
r.s = this.s;
|
||||
var ds = Math.floor(n/this.DB);
|
||||
if(ds >= this.t) { r.t = 0; return; }
|
||||
var bs = n%this.DB;
|
||||
var cbs = this.DB-bs;
|
||||
var bm = (1<<bs)-1;
|
||||
r[0] = this[ds]>>bs;
|
||||
for(var i = ds+1; i < this.t; ++i) {
|
||||
r[i-ds-1] |= (this[i]&bm)<<cbs;
|
||||
r[i-ds] = this[i]>>bs;
|
||||
}
|
||||
if(bs > 0) r[this.t-ds-1] |= (this.s&bm)<<cbs;
|
||||
r.t = this.t-ds;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this - a
|
||||
function bnpSubTo(a,r) {
|
||||
var i = 0, c = 0, m = Math.min(a.t,this.t);
|
||||
while(i < m) {
|
||||
c += this[i]-a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
if(a.t < this.t) {
|
||||
c -= a.s;
|
||||
while(i < this.t) {
|
||||
c += this[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c += this.s;
|
||||
}
|
||||
else {
|
||||
c += this.s;
|
||||
while(i < a.t) {
|
||||
c -= a[i];
|
||||
r[i++] = c&this.DM;
|
||||
c >>= this.DB;
|
||||
}
|
||||
c -= a.s;
|
||||
}
|
||||
r.s = (c<0)?-1:0;
|
||||
if(c < -1) r[i++] = this.DV+c;
|
||||
else if(c > 0) r[i++] = c;
|
||||
r.t = i;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) r = this * a, r != this,a (HAC 14.12)
|
||||
// "this" should be the larger one if appropriate.
|
||||
function bnpMultiplyTo(a,r) {
|
||||
var x = this.abs(), y = a.abs();
|
||||
var i = x.t;
|
||||
r.t = i+y.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < y.t; ++i) r[i+x.t] = x.am(0,y[i],r,i,0,x.t);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
if(this.s != a.s) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (protected) r = this^2, r != this (HAC 14.16)
|
||||
function bnpSquareTo(r) {
|
||||
var x = this.abs();
|
||||
var i = r.t = 2*x.t;
|
||||
while(--i >= 0) r[i] = 0;
|
||||
for(i = 0; i < x.t-1; ++i) {
|
||||
var c = x.am(i,x[i],r,2*i,0,1);
|
||||
if((r[i+x.t]+=x.am(i+1,2*x[i],r,2*i+1,c,x.t-i-1)) >= x.DV) {
|
||||
r[i+x.t] -= x.DV;
|
||||
r[i+x.t+1] = 1;
|
||||
}
|
||||
}
|
||||
if(r.t > 0) r[r.t-1] += x.am(i,x[i],r,2*i,0,1);
|
||||
r.s = 0;
|
||||
r.clamp();
|
||||
}
|
||||
|
||||
// (protected) divide this by m, quotient and remainder to q, r (HAC 14.20)
|
||||
// r != q, this != m. q or r may be null.
|
||||
function bnpDivRemTo(m,q,r) {
|
||||
var pm = m.abs();
|
||||
if(pm.t <= 0) return;
|
||||
var pt = this.abs();
|
||||
if(pt.t < pm.t) {
|
||||
if(q != null) q.fromInt(0);
|
||||
if(r != null) this.copyTo(r);
|
||||
return;
|
||||
}
|
||||
if(r == null) r = nbi();
|
||||
var y = nbi(), ts = this.s, ms = m.s;
|
||||
var nsh = this.DB-nbits(pm[pm.t-1]); // normalize modulus
|
||||
if(nsh > 0) { pm.lShiftTo(nsh,y); pt.lShiftTo(nsh,r); }
|
||||
else { pm.copyTo(y); pt.copyTo(r); }
|
||||
var ys = y.t;
|
||||
var y0 = y[ys-1];
|
||||
if(y0 == 0) return;
|
||||
var yt = y0*(1<<this.F1)+((ys>1)?y[ys-2]>>this.F2:0);
|
||||
var d1 = this.FV/yt, d2 = (1<<this.F1)/yt, e = 1<<this.F2;
|
||||
var i = r.t, j = i-ys, t = (q==null)?nbi():q;
|
||||
y.dlShiftTo(j,t);
|
||||
if(r.compareTo(t) >= 0) {
|
||||
r[r.t++] = 1;
|
||||
r.subTo(t,r);
|
||||
}
|
||||
BigInteger.ONE.dlShiftTo(ys,t);
|
||||
t.subTo(y,y); // "negative" y so we can replace sub with am later
|
||||
while(y.t < ys) y[y.t++] = 0;
|
||||
while(--j >= 0) {
|
||||
// Estimate quotient digit
|
||||
var qd = (r[--i]==y0)?this.DM:Math.floor(r[i]*d1+(r[i-1]+e)*d2);
|
||||
if((r[i]+=y.am(0,qd,r,j,0,ys)) < qd) { // Try it out
|
||||
y.dlShiftTo(j,t);
|
||||
r.subTo(t,r);
|
||||
while(r[i] < --qd) r.subTo(t,r);
|
||||
}
|
||||
}
|
||||
if(q != null) {
|
||||
r.drShiftTo(ys,q);
|
||||
if(ts != ms) BigInteger.ZERO.subTo(q,q);
|
||||
}
|
||||
r.t = ys;
|
||||
r.clamp();
|
||||
if(nsh > 0) r.rShiftTo(nsh,r); // Denormalize remainder
|
||||
if(ts < 0) BigInteger.ZERO.subTo(r,r);
|
||||
}
|
||||
|
||||
// (public) this mod a
|
||||
function bnMod(a) {
|
||||
var r = nbi();
|
||||
this.abs().divRemTo(a,null,r);
|
||||
if(this.s < 0 && r.compareTo(BigInteger.ZERO) > 0) a.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// Modular reduction using "classic" algorithm
|
||||
function Classic(m) { this.m = m; }
|
||||
function cConvert(x) {
|
||||
if(x.s < 0 || x.compareTo(this.m) >= 0) return x.mod(this.m);
|
||||
else return x;
|
||||
}
|
||||
function cRevert(x) { return x; }
|
||||
function cReduce(x) { x.divRemTo(this.m,null,x); }
|
||||
function cMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
function cSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
Classic.prototype.convert = cConvert;
|
||||
Classic.prototype.revert = cRevert;
|
||||
Classic.prototype.reduce = cReduce;
|
||||
Classic.prototype.mulTo = cMulTo;
|
||||
Classic.prototype.sqrTo = cSqrTo;
|
||||
|
||||
// (protected) return "-1/this % 2^DB"; useful for Mont. reduction
|
||||
// justification:
|
||||
// xy == 1 (mod m)
|
||||
// xy = 1+km
|
||||
// xy(2-xy) = (1+km)(1-km)
|
||||
// x[y(2-xy)] = 1-k^2m^2
|
||||
// x[y(2-xy)] == 1 (mod m^2)
|
||||
// if y is 1/x mod m, then y(2-xy) is 1/x mod m^2
|
||||
// should reduce x and y(2-xy) by m^2 at each step to keep size bounded.
|
||||
// JS multiply "overflows" differently from C/C++, so care is needed here.
|
||||
function bnpInvDigit() {
|
||||
if(this.t < 1) return 0;
|
||||
var x = this[0];
|
||||
if((x&1) == 0) return 0;
|
||||
var y = x&3; // y == 1/x mod 2^2
|
||||
y = (y*(2-(x&0xf)*y))&0xf; // y == 1/x mod 2^4
|
||||
y = (y*(2-(x&0xff)*y))&0xff; // y == 1/x mod 2^8
|
||||
y = (y*(2-(((x&0xffff)*y)&0xffff)))&0xffff; // y == 1/x mod 2^16
|
||||
// last step - calculate inverse mod DV directly;
|
||||
// assumes 16 < DB <= 32 and assumes ability to handle 48-bit ints
|
||||
y = (y*(2-x*y%this.DV))%this.DV; // y == 1/x mod 2^dbits
|
||||
// we really want the negative inverse, and -DV < y < DV
|
||||
return (y>0)?this.DV-y:-y;
|
||||
}
|
||||
|
||||
// Montgomery reduction
|
||||
function Montgomery(m) {
|
||||
this.m = m;
|
||||
this.mp = m.invDigit();
|
||||
this.mpl = this.mp&0x7fff;
|
||||
this.mph = this.mp>>15;
|
||||
this.um = (1<<(m.DB-15))-1;
|
||||
this.mt2 = 2*m.t;
|
||||
}
|
||||
|
||||
// xR mod m
|
||||
function montConvert(x) {
|
||||
var r = nbi();
|
||||
x.abs().dlShiftTo(this.m.t,r);
|
||||
r.divRemTo(this.m,null,r);
|
||||
if(x.s < 0 && r.compareTo(BigInteger.ZERO) > 0) this.m.subTo(r,r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x/R mod m
|
||||
function montRevert(x) {
|
||||
var r = nbi();
|
||||
x.copyTo(r);
|
||||
this.reduce(r);
|
||||
return r;
|
||||
}
|
||||
|
||||
// x = x/R mod m (HAC 14.32)
|
||||
function montReduce(x) {
|
||||
while(x.t <= this.mt2) // pad x so am has enough room later
|
||||
x[x.t++] = 0;
|
||||
for(var i = 0; i < this.m.t; ++i) {
|
||||
// faster way of calculating u0 = x[i]*mp mod DV
|
||||
var j = x[i]&0x7fff;
|
||||
var u0 = (j*this.mpl+(((j*this.mph+(x[i]>>15)*this.mpl)&this.um)<<15))&x.DM;
|
||||
// use am to combine the multiply-shift-add into one call
|
||||
j = i+this.m.t;
|
||||
x[j] += this.m.am(0,u0,x,i,0,this.m.t);
|
||||
// propagate carry
|
||||
while(x[j] >= x.DV) { x[j] -= x.DV; x[++j]++; }
|
||||
}
|
||||
x.clamp();
|
||||
x.drShiftTo(this.m.t,x);
|
||||
if(x.compareTo(this.m) >= 0) x.subTo(this.m,x);
|
||||
}
|
||||
|
||||
// r = "x^2/R mod m"; x != r
|
||||
function montSqrTo(x,r) { x.squareTo(r); this.reduce(r); }
|
||||
|
||||
// r = "xy/R mod m"; x,y != r
|
||||
function montMulTo(x,y,r) { x.multiplyTo(y,r); this.reduce(r); }
|
||||
|
||||
Montgomery.prototype.convert = montConvert;
|
||||
Montgomery.prototype.revert = montRevert;
|
||||
Montgomery.prototype.reduce = montReduce;
|
||||
Montgomery.prototype.mulTo = montMulTo;
|
||||
Montgomery.prototype.sqrTo = montSqrTo;
|
||||
|
||||
// (protected) true iff this is even
|
||||
function bnpIsEven() { return ((this.t>0)?(this[0]&1):this.s) == 0; }
|
||||
|
||||
// (protected) this^e, e < 2^32, doing sqr and mul with "r" (HAC 14.79)
|
||||
function bnpExp(e,z) {
|
||||
if(e > 0xffffffff || e < 1) return BigInteger.ONE;
|
||||
var r = nbi(), r2 = nbi(), g = z.convert(this), i = nbits(e)-1;
|
||||
g.copyTo(r);
|
||||
while(--i >= 0) {
|
||||
z.sqrTo(r,r2);
|
||||
if((e&(1<<i)) > 0) z.mulTo(r2,g,r);
|
||||
else { var t = r; r = r2; r2 = t; }
|
||||
}
|
||||
return z.revert(r);
|
||||
}
|
||||
|
||||
// (public) this^e % m, 0 <= e < 2^32
|
||||
function bnModPowInt(e,m) {
|
||||
var z;
|
||||
if(e < 256 || m.isEven()) z = new Classic(m); else z = new Montgomery(m);
|
||||
return this.exp(e,z);
|
||||
}
|
||||
|
||||
// protected
|
||||
BigInteger.prototype.copyTo = bnpCopyTo;
|
||||
BigInteger.prototype.fromInt = bnpFromInt;
|
||||
BigInteger.prototype.fromString = bnpFromString;
|
||||
BigInteger.prototype.clamp = bnpClamp;
|
||||
BigInteger.prototype.dlShiftTo = bnpDLShiftTo;
|
||||
BigInteger.prototype.drShiftTo = bnpDRShiftTo;
|
||||
BigInteger.prototype.lShiftTo = bnpLShiftTo;
|
||||
BigInteger.prototype.rShiftTo = bnpRShiftTo;
|
||||
BigInteger.prototype.subTo = bnpSubTo;
|
||||
BigInteger.prototype.multiplyTo = bnpMultiplyTo;
|
||||
BigInteger.prototype.squareTo = bnpSquareTo;
|
||||
BigInteger.prototype.divRemTo = bnpDivRemTo;
|
||||
BigInteger.prototype.invDigit = bnpInvDigit;
|
||||
BigInteger.prototype.isEven = bnpIsEven;
|
||||
BigInteger.prototype.exp = bnpExp;
|
||||
|
||||
// public
|
||||
BigInteger.prototype.toString = bnToString;
|
||||
BigInteger.prototype.negate = bnNegate;
|
||||
BigInteger.prototype.abs = bnAbs;
|
||||
BigInteger.prototype.compareTo = bnCompareTo;
|
||||
BigInteger.prototype.bitLength = bnBitLength;
|
||||
BigInteger.prototype.mod = bnMod;
|
||||
BigInteger.prototype.modPowInt = bnModPowInt;
|
||||
|
||||
// "constants"
|
||||
BigInteger.ZERO = nbv(0);
|
||||
BigInteger.ONE = nbv(1);
|
||||
@@ -0,0 +1,45 @@
|
||||
// prng4.js - uses Arcfour as a PRNG
|
||||
|
||||
function Arcfour() {
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
this.S = new Array();
|
||||
}
|
||||
|
||||
// Initialize arcfour context from key, an array of ints, each from [0..255]
|
||||
function ARC4init(key) {
|
||||
var i, j, t;
|
||||
for(i = 0; i < 256; ++i)
|
||||
this.S[i] = i;
|
||||
j = 0;
|
||||
for(i = 0; i < 256; ++i) {
|
||||
j = (j + this.S[i] + key[i % key.length]) & 255;
|
||||
t = this.S[i];
|
||||
this.S[i] = this.S[j];
|
||||
this.S[j] = t;
|
||||
}
|
||||
this.i = 0;
|
||||
this.j = 0;
|
||||
}
|
||||
|
||||
function ARC4next() {
|
||||
var t;
|
||||
this.i = (this.i + 1) & 255;
|
||||
this.j = (this.j + this.S[this.i]) & 255;
|
||||
t = this.S[this.i];
|
||||
this.S[this.i] = this.S[this.j];
|
||||
this.S[this.j] = t;
|
||||
return this.S[(t + this.S[this.i]) & 255];
|
||||
}
|
||||
|
||||
Arcfour.prototype.init = ARC4init;
|
||||
Arcfour.prototype.next = ARC4next;
|
||||
|
||||
// Plug in your RNG constructor here
|
||||
function prng_newstate() {
|
||||
return new Arcfour();
|
||||
}
|
||||
|
||||
// Pool size must be a multiple of 4 and greater than 32.
|
||||
// An array of bytes the size of the pool will be passed to init()
|
||||
var rng_psize = 256;
|
||||
@@ -0,0 +1,75 @@
|
||||
// Random number generator - requires a PRNG backend, e.g. prng4.js
|
||||
|
||||
// For best results, put code like
|
||||
// <body onClick='rng_seed_time();' onKeyPress='rng_seed_time();'>
|
||||
// in your main HTML document.
|
||||
|
||||
var rng_state;
|
||||
var rng_pool;
|
||||
var rng_pptr;
|
||||
|
||||
// Mix in a 32-bit integer into the pool
|
||||
function rng_seed_int(x) {
|
||||
rng_pool[rng_pptr++] ^= x & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 8) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 16) & 255;
|
||||
rng_pool[rng_pptr++] ^= (x >> 24) & 255;
|
||||
if(rng_pptr >= rng_psize) rng_pptr -= rng_psize;
|
||||
}
|
||||
|
||||
// Mix in the current time (w/milliseconds) into the pool
|
||||
function rng_seed_time() {
|
||||
rng_seed_int(new Date().getTime());
|
||||
}
|
||||
|
||||
// Initialize the pool with junk if needed.
|
||||
if(rng_pool == null) {
|
||||
rng_pool = new Array();
|
||||
rng_pptr = 0;
|
||||
var t;
|
||||
if(window.crypto && window.crypto.getRandomValues) {
|
||||
// Use webcrypto if available
|
||||
var ua = new Uint8Array(32);
|
||||
window.crypto.getRandomValues(ua);
|
||||
for(t = 0; t < 32; ++t)
|
||||
rng_pool[rng_pptr++] = ua[t];
|
||||
}
|
||||
if(navigator.appName == "Netscape" && navigator.appVersion < "5" && window.crypto) {
|
||||
// Extract entropy (256 bits) from NS4 RNG if available
|
||||
var z = window.crypto.random(32);
|
||||
for(t = 0; t < z.length; ++t)
|
||||
rng_pool[rng_pptr++] = z.charCodeAt(t) & 255;
|
||||
}
|
||||
while(rng_pptr < rng_psize) { // extract some randomness from Math.random()
|
||||
t = Math.floor(65536 * Math.random());
|
||||
rng_pool[rng_pptr++] = t >>> 8;
|
||||
rng_pool[rng_pptr++] = t & 255;
|
||||
}
|
||||
rng_pptr = 0;
|
||||
rng_seed_time();
|
||||
//rng_seed_int(window.screenX);
|
||||
//rng_seed_int(window.screenY);
|
||||
}
|
||||
|
||||
function rng_get_byte() {
|
||||
if(rng_state == null) {
|
||||
rng_seed_time();
|
||||
rng_state = prng_newstate();
|
||||
rng_state.init(rng_pool);
|
||||
for(rng_pptr = 0; rng_pptr < rng_pool.length; ++rng_pptr)
|
||||
rng_pool[rng_pptr] = 0;
|
||||
rng_pptr = 0;
|
||||
//rng_pool = null;
|
||||
}
|
||||
// TODO: allow reseeding after first request
|
||||
return rng_state.next();
|
||||
}
|
||||
|
||||
function rng_get_bytes(ba) {
|
||||
var i;
|
||||
for(i = 0; i < ba.length; ++i) ba[i] = rng_get_byte();
|
||||
}
|
||||
|
||||
function SecureRandom() {}
|
||||
|
||||
SecureRandom.prototype.nextBytes = rng_get_bytes;
|
||||
@@ -0,0 +1,112 @@
|
||||
// Depends on jsbn.js and rng.js
|
||||
|
||||
// Version 1.1: support utf-8 encoding in pkcs1pad2
|
||||
|
||||
// convert a (hex) string to a bignum object
|
||||
function parseBigInt(str,r) {
|
||||
return new BigInteger(str,r);
|
||||
}
|
||||
|
||||
function linebrk(s,n) {
|
||||
var ret = "";
|
||||
var i = 0;
|
||||
while(i + n < s.length) {
|
||||
ret += s.substring(i,i+n) + "\n";
|
||||
i += n;
|
||||
}
|
||||
return ret + s.substring(i,s.length);
|
||||
}
|
||||
|
||||
function byte2Hex(b) {
|
||||
if(b < 0x10)
|
||||
return "0" + b.toString(16);
|
||||
else
|
||||
return b.toString(16);
|
||||
}
|
||||
|
||||
// PKCS#1 (type 2, random) pad input string s to n bytes, and return a bigint
|
||||
function pkcs1pad2(s,n) {
|
||||
if(n < s.length + 11) { // TODO: fix for utf-8
|
||||
alert("Message too long for RSA");
|
||||
return null;
|
||||
}
|
||||
var ba = new Array();
|
||||
var i = s.length - 1;
|
||||
while(i >= 0 && n > 0) {
|
||||
var c = s.charCodeAt(i--);
|
||||
if(c < 128) { // encode using utf-8
|
||||
ba[--n] = c;
|
||||
}
|
||||
else if((c > 127) && (c < 2048)) {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = (c >> 6) | 192;
|
||||
}
|
||||
else {
|
||||
ba[--n] = (c & 63) | 128;
|
||||
ba[--n] = ((c >> 6) & 63) | 128;
|
||||
ba[--n] = (c >> 12) | 224;
|
||||
}
|
||||
}
|
||||
ba[--n] = 0;
|
||||
var rng = new SecureRandom();
|
||||
var x = new Array();
|
||||
while(n > 2) { // random non-zero pad
|
||||
x[0] = 0;
|
||||
while(x[0] == 0) rng.nextBytes(x);
|
||||
ba[--n] = x[0];
|
||||
}
|
||||
ba[--n] = 2;
|
||||
ba[--n] = 0;
|
||||
return new BigInteger(ba);
|
||||
}
|
||||
|
||||
// "empty" RSA key constructor
|
||||
function RSAKey() {
|
||||
this.n = null;
|
||||
this.e = 0;
|
||||
this.d = null;
|
||||
this.p = null;
|
||||
this.q = null;
|
||||
this.dmp1 = null;
|
||||
this.dmq1 = null;
|
||||
this.coeff = null;
|
||||
}
|
||||
|
||||
// Set the public key fields N and e from hex strings
|
||||
function RSASetPublic(N,E) {
|
||||
if(N != null && E != null && N.length > 0 && E.length > 0) {
|
||||
this.n = parseBigInt(N,16);
|
||||
this.e = parseInt(E,16);
|
||||
}
|
||||
else
|
||||
alert("Invalid RSA public key");
|
||||
}
|
||||
|
||||
// Perform raw public operation on "x": return x^e (mod n)
|
||||
function RSADoPublic(x) {
|
||||
return x.modPowInt(this.e, this.n);
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as an even-length hex string
|
||||
function RSAEncrypt(text) {
|
||||
var m = pkcs1pad2(text,(this.n.bitLength()+7)>>3);
|
||||
if(m == null) return null;
|
||||
var c = this.doPublic(m);
|
||||
if(c == null) return null;
|
||||
var h = c.toString(16);
|
||||
if((h.length & 1) == 0) return h; else return "0" + h;
|
||||
}
|
||||
|
||||
// Return the PKCS#1 RSA encryption of "text" as a Base64-encoded string
|
||||
//function RSAEncryptB64(text) {
|
||||
// var h = this.encrypt(text);
|
||||
// if(h) return hex2b64(h); else return null;
|
||||
//}
|
||||
|
||||
// protected
|
||||
RSAKey.prototype.doPublic = RSADoPublic;
|
||||
|
||||
// public
|
||||
RSAKey.prototype.setPublic = RSASetPublic;
|
||||
RSAKey.prototype.encrypt = RSAEncrypt;
|
||||
//RSAKey.prototype.encrypt_b64 = RSAEncryptB64;
|
||||
@@ -0,0 +1,106 @@
|
||||
function message_failed_auth(password){
|
||||
toastr.info(
|
||||
"Automatic authorization failed. You can manually login with:<br>" + password + "<br> <a href='https://github.com/bgruening/galaxy-ipython/wiki/Automatic-Authorization-Failed' target='_blank'>More details ...</a>",
|
||||
"Please login manually",
|
||||
{'closeButton': true, 'timeOut': 100000, 'tapToDismiss': false}
|
||||
);
|
||||
}
|
||||
|
||||
function message_failed_connection(){
|
||||
toastr.error(
|
||||
"Could not connect to IPython Notebook. Please contact your administrator. <a href='https://github.com/bgruening/galaxy-ipython/wiki/Could-not-connect-to-IPython-Notebook' target='_blank'>More details ...</a>",
|
||||
"Security warning",
|
||||
{'closeButton': true, 'timeOut': 20000, 'tapToDismiss': true}
|
||||
);
|
||||
}
|
||||
|
||||
|
||||
/**
|
||||
* Load an interactive environment (IE) from a remote URL
|
||||
* @param {String} password: password used to authenticate to the remote resource
|
||||
* @param {String} notebook_login_url: URL that should be POSTed to for login
|
||||
* @param {String} notebook_access_url: the URL embeded in the page and loaded
|
||||
*
|
||||
*/
|
||||
function load_notebook(notebook_login_url, notebook_access_url, notebook_pubkey_url, username){
|
||||
$( document ).ready(function() {
|
||||
// Test notebook_login_url for accessibility, executing the login+load function whenever
|
||||
// we've successfully connected to the IE.
|
||||
test_ie_availability(notebook_pubkey_url, function(){
|
||||
var payload = username + "\n" + ie_password;
|
||||
$.ajax({
|
||||
type: 'GET',
|
||||
url: notebook_pubkey_url,
|
||||
xhrFields: {
|
||||
withCredentials: true
|
||||
},
|
||||
success: function(response_text){
|
||||
var chunks = response_text.split(':', 2);
|
||||
var exp = chunks[0];
|
||||
var mod = chunks[1];
|
||||
console.log("Found " + exp +" and " + mod);
|
||||
var rsa = new RSAKey();
|
||||
rsa.setPublic(mod, exp);
|
||||
console.log("Encrypting '" + username + "', '" + ie_password + "'");
|
||||
var enc_hex = rsa.encrypt(payload);
|
||||
var encrypted = hex2b64(enc_hex);
|
||||
console.log("E: " + encrypted);
|
||||
_handle_notebook_loading(encrypted, notebook_login_url, notebook_access_url);
|
||||
}
|
||||
});
|
||||
|
||||
});
|
||||
});
|
||||
}
|
||||
|
||||
/**
|
||||
* Must be implemented by IEs
|
||||
*/
|
||||
function _handle_notebook_loading(password, notebook_login_url, notebook_access_url){
|
||||
if ( ie_password_auth ) {
|
||||
$.ajax({
|
||||
type: "POST",
|
||||
// to the Login URL
|
||||
url: notebook_login_url,
|
||||
// With our password
|
||||
data: {
|
||||
'v': password,
|
||||
'persist': 1,
|
||||
'clientPath': '/rstudio/auth-sign-in',
|
||||
'appUri': '',
|
||||
},
|
||||
contentType: "application/x-www-form-urlencoded",
|
||||
xhrFields: {
|
||||
withCredentials: true
|
||||
},
|
||||
// If that is successful, load the notebook
|
||||
success: function(){
|
||||
append_notebook(notebook_access_url);
|
||||
},
|
||||
error: function(jqxhr, status, error){
|
||||
if(ie_password_auth && !ie_apache_urls){
|
||||
// Failure now happens because the redirect that RStudio gives us includes the
|
||||
// port internal to nginx. (E.g. localhost:NNNN/rstudio/NNNN/)
|
||||
// so disabling the message here makes sense as long as it's working correctly
|
||||
//
|
||||
// Additionally:
|
||||
// XMLHttpRequest cannot load http://localhost:46725/rstudio/46725/. The
|
||||
// 'Access-Control-Allow-Origin' header has a value 'http://localhost:8081' that
|
||||
// is not equal to the supplied origin. Origin 'null' is therefore not allowed
|
||||
// access.
|
||||
// message_failed_auth(ie_password);
|
||||
append_notebook(notebook_access_url);
|
||||
}else{
|
||||
message_failed_connection();
|
||||
// Do we want to try and load the notebook anyway? Just in case?
|
||||
append_notebook(notebook_access_url);
|
||||
}
|
||||
}
|
||||
});
|
||||
}
|
||||
else {
|
||||
// Not using password auth, just embed it to avoid content-origin issues.
|
||||
message_no_auth();
|
||||
append_notebook(notebook_access_url);
|
||||
}
|
||||
}
|
||||
@@ -0,0 +1,67 @@
|
||||
<%namespace file="ie.mako" name="ie"/>
|
||||
<%
|
||||
import os
|
||||
import shutil
|
||||
import time
|
||||
|
||||
# Sets ID and sets up a lot of other variables
|
||||
ie_request.load_deploy_config()
|
||||
ie_request.attr.docker_port = 80
|
||||
# Create tempdir in galaxy
|
||||
temp_dir = ie_request.temp_dir
|
||||
PASSWORD = ie_request.notebook_pw
|
||||
USERNAME = "galaxy"
|
||||
|
||||
## General IE specific
|
||||
# Access URLs for the notebook from within galaxy.
|
||||
# TODO: Make this work without pointing directly to IE. Currently does not work
|
||||
# through proxy.
|
||||
notebook_pubkey_url = ie_request.url_template('${PROXY_URL}/rstudio/${PORT}/auth-public-key')
|
||||
notebook_access_url = ie_request.url_template('${PROXY_URL}/rstudio/${PORT}/')
|
||||
notebook_login_url = ie_request.url_template('${PROXY_URL}/rstudio/${PORT}/auth-do-sign-in')
|
||||
|
||||
# Did the user give us an RData file?
|
||||
if hda.datatype.__class__.__name__ == "RData":
|
||||
shutil.copy( hda.file_name, os.path.join(temp_dir, '.RData') )
|
||||
|
||||
ie_request.launch(env_override={
|
||||
'notebook_username': USERNAME,
|
||||
'notebook_password': PASSWORD,
|
||||
'cors_origin': ie_request.attr.proxy_url,
|
||||
})
|
||||
%>
|
||||
<html>
|
||||
<head>
|
||||
${ ie.load_default_js() }
|
||||
</head>
|
||||
<body style="margin:0px">
|
||||
<script type="text/javascript">
|
||||
${ ie.default_javascript_variables() }
|
||||
var notebook_login_url = '${ notebook_login_url }';
|
||||
var notebook_access_url = '${ notebook_access_url }';
|
||||
var notebook_pubkey_url = '${ notebook_pubkey_url }';
|
||||
var notebook_username = '${ USERNAME }';
|
||||
require.config({
|
||||
baseUrl: app_root,
|
||||
paths: {
|
||||
"interactive_environments": "${h.url_for('/static/scripts/galaxy.interactive_environments')}",
|
||||
"plugin" : app_root + "js/",
|
||||
"crypto" : app_root + "js/crypto/",
|
||||
},
|
||||
});
|
||||
requirejs([
|
||||
'interactive_environments',
|
||||
'crypto/prng4',
|
||||
'crypto/rng',
|
||||
'crypto/rsa',
|
||||
'crypto/jsbn',
|
||||
'crypto/base64',
|
||||
'plugin/rstudio'
|
||||
], function(){
|
||||
load_notebook(notebook_login_url, notebook_access_url, notebook_pubkey_url, "${ USERNAME }");
|
||||
});
|
||||
</script>
|
||||
<div id="main">
|
||||
</div>
|
||||
</body>
|
||||
</html>
|
||||
@@ -8,9 +8,6 @@ Properly configured and written visualizations will be accessible to
|
||||
the user when they click the 'visualizations' icon for a dataset
|
||||
in their history panel.
|
||||
|
||||
The framework must be enabled in your 'galaxy.ini' file by uncommenting (and
|
||||
having a valid path for) the 'visualizations_plugin_directory' entry.
|
||||
|
||||
For more information, see http://wiki.galaxyproject.org/VisualizationsRegistry
|
||||
|
||||
|
||||
|
||||
@@ -85,9 +85,9 @@
|
||||
</param>
|
||||
<param type="template" name="redirect_url" strip="True" >
|
||||
#if $site_id.startswith( 'local_' )
|
||||
${site_link}?file=${bam_file.qp}&genome=${site_organism}&merge=true&name=${qp( $bam_file.name )}
|
||||
${site_link}?file=${bam_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $bam_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#elif $site_id.startswith( 'web_link_' ):
|
||||
${site_link}?sessionURL=${bam_file.qp}&genome=${site_organism}&merge=true&name=${qp( $bam_file.name )}
|
||||
${site_link}?sessionURL=${bam_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $bam_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#else:
|
||||
${jnlp.url}
|
||||
#end if
|
||||
@@ -101,7 +101,7 @@
|
||||
<filter>${ $dataset.dbkey == $value }</filter>
|
||||
|
||||
<!-- We define url and params as normal, but values defined in dynamic_param are available by specified name -->
|
||||
<url>http://www.broadinstitute.org/igv/projects/current/igv.php?sessionURL=${bam_file.qp}&genome=${bam_file.dbkey}&merge=true&name=${qp( $bam_file.name )}</url>
|
||||
<url>http://www.broadinstitute.org/igv/projects/current/igv.php?sessionURL=${bam_file.qp}&genome=${bam_file.dbkey}&merge=true&name=${qp( ( $bam_file.name or $DATASET_HASH ).replace( ',', ';' ) )}</url>
|
||||
|
||||
<param type="data" name="bam_file" url="galaxy_${DATASET_HASH}.bam" />
|
||||
<param type="data" name="bai_file" url="galaxy_${DATASET_HASH}.bam.bai" metadata="bam_index" />
|
||||
|
||||
@@ -84,9 +84,9 @@
|
||||
</param>
|
||||
<param type="template" name="redirect_url" strip="True" >
|
||||
#if $site_id.startswith( 'local_' )
|
||||
${site_link}?file=${gff_file.qp}&genome=${site_organism}&merge=true&name=${qp( $gff_file.name )}
|
||||
${site_link}?file=${gff_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $gff_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#elif $site_id.startswith( 'web_link_' ):
|
||||
${site_link}?sessionURL=${gff_file.qp}&genome=${site_organism}&merge=true&name=${qp( $gff_file.name )}
|
||||
${site_link}?sessionURL=${gff_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $gff_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#else:
|
||||
${jnlp.url}
|
||||
#end if
|
||||
@@ -100,7 +100,7 @@
|
||||
<filter>${ $dataset.dbkey == $value }</filter>
|
||||
|
||||
<!-- We define url and params as normal, but values defined in dynamic_param are available by specified name -->
|
||||
<url>http://www.broadinstitute.org/igv/projects/current/igv.php?sessionURL=${gff_file.qp}&genome=${gff_file.dbkey}&merge=true&name=${qp( $gff_file.name )}</url>
|
||||
<url>http://www.broadinstitute.org/igv/projects/current/igv.php?sessionURL=${gff_file.qp}&genome=${gff_file.dbkey}&merge=true&name=${qp( ( $gff_file.name or $DATASET_HASH ).replace( ',', ';' ) )}</url>
|
||||
|
||||
<param type="data" name="gff_file" url="galaxy_${DATASET_HASH}.${dataset.ext}" />
|
||||
|
||||
|
||||
@@ -0,0 +1,110 @@
|
||||
<?xml version="1.0"?>
|
||||
<display id="igv_interval_as_bed" version="1.0.0" name="display with IGV">
|
||||
|
||||
<!-- Load links from file: one line to one link -->
|
||||
<dynamic_links site_type="igv" skip_startswith="#" id="0" name="1">
|
||||
|
||||
<!-- Define parameters by column from file, allow splitting on builds -->
|
||||
<dynamic_param name="site_id" value="0"/>
|
||||
<dynamic_param name="site_name" value="1"/>
|
||||
<dynamic_param name="site_link" value="2"/>
|
||||
<dynamic_param name="site_dbkeys" value="3" split="True" separator="," />
|
||||
<dynamic_param name="site_organisms" value="4" split="True" separator="," />
|
||||
|
||||
<!-- Filter out some of the links based upon matching site_dbkeys to dataset dbkey -->
|
||||
<filter>${$site_id.startswith( 'local_' ) or $dataset.dbkey in $site_dbkeys}</filter>
|
||||
|
||||
<!-- We define url and params as normal, but values defined in dynamic_param are available by specified name -->
|
||||
<url>${redirect_url}</url>
|
||||
|
||||
<param type="data" name="bed_file" url="galaxy_${DATASET_HASH}.bed" format="bedstrict" />
|
||||
<param type="template" name="site_organism" strip="True" >
|
||||
#if ($dataset.dbkey in $site_dbkeys)
|
||||
$site_organisms[ $site_dbkeys.index( $bed_file.dbkey ) ]
|
||||
#else:
|
||||
$bed_file.dbkey
|
||||
#end if
|
||||
</param>
|
||||
|
||||
<param type="template" name="jnlp" url="galaxy_${DATASET_HASH}.jnlp" viewable="True" mimetype="application/x-java-jnlp-file"><?xml version="1.0" encoding="utf-8"?>
|
||||
<jnlp
|
||||
spec="1.0+"
|
||||
codebase="${site_link}">
|
||||
<information>
|
||||
<title>IGV 1.5</title>
|
||||
<vendor>The Broad Institute</vendor>
|
||||
<homepage href="http://www.broadinstitute.org/igv"/>
|
||||
<description>IGV Software</description>
|
||||
<description kind="short">IGV</description>
|
||||
</information>
|
||||
<security>
|
||||
<all-permissions/>
|
||||
</security>
|
||||
<resources>
|
||||
|
||||
<j2se version="1.5+" initial-heap-size="256m" max-heap-size="1100m"/>
|
||||
<jar href="igv.jar" download="eager" main="true"/>
|
||||
<jar href="batik-codec.jar" download="eager"/>
|
||||
<property name="apple.laf.useScreenMenuBar" value="true"/>
|
||||
<property name="com.apple.mrj.application.growbox.intrudes" value="false"/>
|
||||
<property name="com.apple.mrj.application.live-resize" value="true"/>
|
||||
<property name="com.apple.macos.smallTabs" value="true"/>
|
||||
</resources>
|
||||
|
||||
<resources os="Mac" arch="i386">
|
||||
<property name="apple.awt.graphics.UseQuartz" value="false"/>
|
||||
<nativelib href="hdfnative-macintel.jar"/>
|
||||
</resources>
|
||||
|
||||
<resources os="Mac" arch="ppc">
|
||||
<property name="apple.awt.graphics.UseQuartz" value="false"/>
|
||||
<nativelib href="hdfnative-macppc.jar"/>
|
||||
</resources>
|
||||
|
||||
<resources os="Mac" arch="PowerPC">
|
||||
<property name="apple.awt.graphics.UseQuartz" value="false"/>
|
||||
<nativelib href="hdfnative-macppc.jar"/>
|
||||
</resources>
|
||||
|
||||
<resources os="Windows">
|
||||
<property name="sun.java2d.noddraw" value="true"/>
|
||||
<nativelib href="hdfnative-win.jar"/>
|
||||
</resources>
|
||||
|
||||
<resources os="Linux">
|
||||
<nativelib href="hdfnative-linux64.jar"/>
|
||||
</resources>
|
||||
|
||||
<application-desc main-class="org.broad.igv.ui.IGVMainFrame">
|
||||
<argument>-g</argument>
|
||||
<argument>${site_organism}</argument>
|
||||
<argument>${bed_file.url}</argument>
|
||||
</application-desc>
|
||||
</jnlp>
|
||||
</param>
|
||||
<param type="template" name="redirect_url" strip="True" >
|
||||
#if $site_id.startswith( 'local_' )
|
||||
${site_link}?file=${bed_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $bed_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#elif $site_id.startswith( 'web_link_' ):
|
||||
${site_link}?sessionURL=${bed_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $bed_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#else:
|
||||
${jnlp.url}
|
||||
#end if
|
||||
</param>
|
||||
</dynamic_links>
|
||||
|
||||
|
||||
<dynamic_links from_data_table="igv_broad_genomes" skip_startswith="#" id="value" name="name">
|
||||
|
||||
<!-- Our input data table is one line per dbkey -->
|
||||
<filter>${ $dataset.dbkey == $value }</filter>
|
||||
|
||||
<!-- We define url and params as normal, but values defined in dynamic_param are available by specified name -->
|
||||
<url>http://www.broadinstitute.org/igv/projects/current/igv.php?sessionURL=${bed_file.qp}&genome=${bed_file.dbkey}&merge=true&name=${qp( ( $bed_file.name or $DATASET_HASH ).replace( ',', ';' ) )}</url>
|
||||
|
||||
<param type="data" name="bed_file" url="galaxy_${DATASET_HASH}.bed" format="bedstrict" />
|
||||
|
||||
</dynamic_links>
|
||||
|
||||
</display>
|
||||
<!-- Dan Blankenberg -->
|
||||
@@ -85,9 +85,9 @@
|
||||
</param>
|
||||
<param type="template" name="redirect_url" strip="True" >
|
||||
#if $site_id.startswith( 'local_' )
|
||||
${site_link}?file=${bgzip_file.qp}&genome=${site_organism}&merge=true&name=${qp( $bgzip_file.name )}
|
||||
${site_link}?file=${bgzip_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $bgzip_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#elif $site_id.startswith( 'web_link_' ):
|
||||
${site_link}?sessionURL=${bgzip_file.qp}&genome=${site_organism}&merge=true&name=${qp( $bgzip_file.name )}
|
||||
${site_link}?sessionURL=${bgzip_file.qp}&genome=${site_organism}&merge=true&name=${qp( ( $bgzip_file.name or $DATASET_HASH ).replace( ',', ';' ) )}
|
||||
#else:
|
||||
${jnlp.url}
|
||||
#end if
|
||||
@@ -101,7 +101,7 @@
|
||||
<filter>${ $dataset.dbkey == $value }</filter>
|
||||
|
||||
<!-- We define url and params as normal, but values defined in dynamic_param are available by specified name -->
|
||||
<url>http://www.broadinstitute.org/igv/projects/current/igv.php?sessionURL=${bgzip_file.qp}&genome=$bgzip_file.dbkey&merge=true&name=${qp( $bgzip_file.name )}</url>
|
||||
<url>http://www.broadinstitute.org/igv/projects/current/igv.php?sessionURL=${bgzip_file.qp}&genome=$bgzip_file.dbkey&merge=true&name=${qp( ( $bgzip_file.name or $DATASET_HASH ).replace( ',', ';' ) )}</url>
|
||||
|
||||
<param type="data" name="bgzip_file" url="galaxy_${DATASET_HASH}.vcf.gz" format="vcf_bgzip" />
|
||||
<param type="data" name="tabix_file" dataset="bgzip_file" url="galaxy_${DATASET_HASH}.vcf.gz.tbi" format="tabix" />
|
||||
|
||||
@@ -0,0 +1,3 @@
|
||||
div.floatright {
|
||||
float: right;
|
||||
}
|
||||
@@ -0,0 +1,5 @@
|
||||
{# layout.html #}
|
||||
{# Import the theme's layout. #}
|
||||
{% extends "!layout.html" %}
|
||||
|
||||
{% set css_files = css_files + ['_static/style.css'] %}
|
||||
@@ -46,6 +46,8 @@ Contents
|
||||
|
||||
Application Documentation <lib/modules>
|
||||
|
||||
Releases <releases/index>
|
||||
|
||||
Indices and tables
|
||||
==================
|
||||
|
||||
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
January 2013 Galaxy Release (v 13.01)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2013_01_11_DistributionNewsBrief
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
February 2013 Galaxy Release (v 13.02)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2013_02_08_GalaxyNewsBrief
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
April 2013 Galaxy Release (v 13.04)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2013_04_01_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
June 2013 Galaxy Release (v 13.06)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2013_06_03_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
August 2013 Galaxy Release (v 13.08)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2013_08_12_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
November 2013 Galaxy Release (v 13.11)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2013_11_04_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
February 2014 Galaxy Release (v 14.02)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2014_02_10_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
April 2014 Galaxy Release (v 14.04)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2014_04_14_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
June 2014 Galaxy Release (v 14.06)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2014_06_02_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
August 2014 Galaxy Release (v 14.08)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2014_08_11_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
October 2014 Galaxy Release (v 14.10)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2014_10_06_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
January 2015 Galaxy Release (v 15.01)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2015_01_13_Galaxy_Distribution
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
March 2015 Galaxy Release (v 15.03)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/News/2015_03_GalaxyRelease
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,358 @@
|
||||
.. to_doc
|
||||
|
||||
-------------------------------
|
||||
15.05
|
||||
-------------------------------
|
||||
|
||||
.. enhancements
|
||||
|
||||
Enhancements
|
||||
-------------------------------
|
||||
|
||||
.. starthighlight
|
||||
* Pluggable framework to custom authentication (including new LDAP/Active
|
||||
Directory integration). Thanks to many including Andrew Robinson,
|
||||
Nicola Soranzo, and David Trudgian. `Pull Request 1`_, `Pull Request 33`_,
|
||||
`Pull Request 51`_, `Pull Request 75`_, `Pull Request 98`_,
|
||||
`Pull Request 216`_
|
||||
* Implement a new ``section`` tag for tool parameters. `Pull Request 35`_,
|
||||
`Trello <https://trello.com/c/KxlQK0FB>`__
|
||||
* New UI widgets allowing much more flexibility when creating simple dataset
|
||||
pair and list collections. `Pull Request 134`_,
|
||||
`Trello <https://trello.com/c/xCdFQPBW>`__
|
||||
.. endhighlight
|
||||
* Improved JavaScript build system for client code and libraries (now
|
||||
using uglify_ and featuring `Source Maps`_). 72c876c_, 9a7f5fc_, 648a623_,
|
||||
22f280f_, `Trello <https://trello.com/c/7midE7Bx>`__
|
||||
* Add an `External Display Application`_ for viewing GFF/GTF files with IGV_.
|
||||
`Pull Request 70`_, `Trello <https://trello.com/c/Hfg3gYsL>`__
|
||||
* Use TravisCI_ and Tox_ for continuous integration testing.
|
||||
`Pull Request 40`_, `Pull Request 62`_, `Pull Request 97`_,
|
||||
`Pull Request 99`_, `Pull Request 123`_, `Pull Request 222`_,
|
||||
`Pull Request 235`_,
|
||||
* Infrastructure for improved toolbox and Tool Shed searching.
|
||||
`Pull Request 9`_, `Pull Request 116`_, `Pull Request 142`_,
|
||||
`Pull Request 226`_, c2eb74c_, 2bf52fe_, ec549db_,
|
||||
`Trello <https://trello.com/c/YJW1dCkB>`__, `Trello <https://trello.com/c/AG3qYRZe>`__
|
||||
* Enhance UI to allow renaming dataset collections. 21d1d6b_
|
||||
* Improve highlighting of current/active content history panel.
|
||||
`Pull Request 126`_
|
||||
* Improvements to UI and API for histories and collections. e36e51e_,
|
||||
1e55206_, 0c79680_
|
||||
* Update history dataset API to account for job re-submission. b4cf49a_
|
||||
* Allow recalculating user disk usage from the admin interface. 964e081_
|
||||
* Collect significantly more metadata for BAM files. `Pull Request 107`_,
|
||||
`Pull Request 108`_
|
||||
* Implement ``detect_errors`` attribute on command of tool XML.
|
||||
`Pull Request 117`_
|
||||
* Allow setting ``auto_format="True"`` on tool ``output`` tags.
|
||||
`Pull Request 130`_
|
||||
* Allow testing tool outputs based on MD5 hashes. `Pull Request 125`_
|
||||
* Improved Cheetah type casting for int/float values. `Pull Request 121`_
|
||||
* Add option to pass arbitrary parameters to gem install as part of
|
||||
the tool shed ``setup_ruby_environment`` Tool Shed install action -
|
||||
thanks to Björn Grüning. `Pull Request 118`_
|
||||
* Add ``argument`` attribute to tool parameters. `Pull Request 8`_
|
||||
* Improve link and message that appears after workflows are run.
|
||||
`Pull Request 143`_
|
||||
* Add NCBI SRA datatype - thanks to Matt Shirley. `Pull Request 87`_
|
||||
* Stronger toolbox filtering. `Pull Request 119`_
|
||||
* Allow updating Tool Shed repositories via the API - thanks to Eric Rasche.
|
||||
`Pull Request 30`_
|
||||
* Expose category list in show call for Tool Shed repositories - thanks to
|
||||
Eric Rasche. `Pull Request 29`_
|
||||
* Add API endpoint to create Tool Shed repositories. `Pull Request 2`_
|
||||
* Do not configure Galaxy to use the test Tool Shed by default.
|
||||
`Pull Request 38`_
|
||||
* Add fields and improve display of Tool Shed repositories.
|
||||
a24e206_, d6d61bc_, `Trello <https://trello.com/c/g1dt8WhA>`__
|
||||
* Enhance multi-selection widgets to allow key combinations ``Ctrl-A``
|
||||
and ``Ctrl-X``. e8564d7_, `Trello <https://trello.com/c/3QhD5l5h>`__
|
||||
* New, consistent button for displaying citation BibTeX. `Pull Request 19`_
|
||||
* Improved ``README`` reflecting move to Github - thanks in part to Eric
|
||||
Rasche. `PR #2 (old repo)
|
||||
<https://github.com/galaxyproject/galaxy-beta1/pull/2>`__,
|
||||
226e826_, 2650d09_, 7d5dde8_
|
||||
* Update application to use new logo. 2748f9d_, `Pull Request 187`_,
|
||||
`Pull Request 206`_
|
||||
* Update many documentation links to use https sites - thanks to
|
||||
Nicola Soranzo. 8254cab_
|
||||
* Sync report options config with ``galaxy.ini`` - thanks to Björn Grüning.
|
||||
`Pull Request 12`_
|
||||
* Eliminate need to use API key to list tools via API. cd7abe8_
|
||||
* Restore function necessary for splitting sequence datatypes - thanks to
|
||||
Roberto Alonso. `Pull Request 5`_
|
||||
* Suppress filenames in SAM merge using ``egrep`` - thanks to Peter Cock
|
||||
and Roberto Alonso. `Pull Request 4`_
|
||||
* Option to sort counts in ``Count1`` tool (``tools/filters/uniq.xml``) -
|
||||
thanks to Peter Cock. `Pull Request 16`_
|
||||
* Preserve spaces in ``Count1`` tool (``tools/filters/uniq.xml``) - thanks to
|
||||
Peter Cock. `Pull Request 13`_
|
||||
* `Interactive Environments`_ improvements and fixes from multiple
|
||||
developers including Eric Rasche and Björn Grüning. `Pull Request 69`_,
|
||||
`Pull Request 73`_, `Pull Request 131`_, `Pull Request 135`_,
|
||||
`Pull Request 152`_, `Pull Request 197`_
|
||||
* Enable multi-part upload for exporting files with the GenomeSpace export
|
||||
tool. `Pull Request 74`_, `Trello <https://trello.com/c/28O46iln>`__
|
||||
* Large refactoring, expansion, and increase in test coverage for "managers".
|
||||
`Pull Request 76`_
|
||||
* Improved display of headers in tool help. 157eba6_,
|
||||
`Biostar <https://biostar.usegalaxy.org/p/11211/>`__
|
||||
* Uniform configuration of "From" field for sent emails - thanks to Nicola
|
||||
Soranzo. `Pull Request 23`_
|
||||
* Allow setting ``job_conf.xml`` params via environment variables &
|
||||
``galaxy.ini``. dde2fc9_
|
||||
* Allow a tool data table to declare that duplicate entries are not
|
||||
allowed. `Pull Request 245`_
|
||||
* Add verbose test error flag option in run_tests.sh. 62f0495_
|
||||
* Update ``.gitignore`` to include ``run_api_tests.html``. b52cc98_
|
||||
* Add experimental options to run tests in Docker. e99adb5_
|
||||
* Improve ``run_test.sh --help`` documentation to detail running specific
|
||||
tests. `Pull Request 86`_
|
||||
* Remove older, redundant history tests. `Pull Request 120`_,
|
||||
`Trello <https://trello.com/c/p6oOVhGp>`__
|
||||
* Add test tool demonstrating citing a Github repository. 65def71_
|
||||
* Add option to track all automated changes to the integrated tool panel.
|
||||
10bb492_
|
||||
* Make tool version explicit in all distribution tool - thanks to Peter Cock.
|
||||
`Pull Request 14`_.
|
||||
* Relocate the external metadata setting script. `Pull Request 7`_
|
||||
* Parameterize script used to pull new builds from the UCSC Browser.
|
||||
e4e5df0_
|
||||
* Enhance jobs and workflow logging to report timings. 06346a4_
|
||||
* Add debug message for dynamic options exceptions. `Pull Request 91`_
|
||||
* Remove demo sequencer app. 3af3bf5_
|
||||
* Tweaks to the Pulsar's handling of async messages. `Pull Request 109`_
|
||||
* Return more specific API authentication errors. 71a64ca_
|
||||
* Upgrade Python dependency sqlalchemy to 1.0.0. d725aab_, `Pull Request 129`_
|
||||
* Upgrade Python dependency amqp to 1.4.6. `Pull Request 128`_
|
||||
* Upgrade Python dependency kombu to 3.0.24. `Pull Request 128`_
|
||||
* Upgrade JavaScript dependency raven.js to 1.1.17. bcd1701_
|
||||
|
||||
.. fixes
|
||||
|
||||
Fixes
|
||||
-------------------------------
|
||||
|
||||
* During the 15.05 development cycle dozens of fixes were pushed to the
|
||||
``release_15.03`` branch of Galaxy. These are all included in 15.05 and
|
||||
summarized `here
|
||||
<https://github.com/galaxyproject/galaxy/compare/v15.03...release_15.03>`__
|
||||
(with special thanks to Björn Grüning and Marius van den Beek).
|
||||
* Fix race condition that would occasionally prevent Galaxy from starting
|
||||
properly. `Pull Request 198`_, `Trello <https://trello.com/c/WVlaLsOh>`__
|
||||
* Fix scatter plot API communications for certain proxied Galaxy instances -
|
||||
thanks to @yhoogstrate. `Pull Request 89`_
|
||||
* Fix bug in collectl_ job metrics plugin - thanks to Carrie Ganote.
|
||||
`Pull Request 231`_
|
||||
* Fix late validation of tool parameters. `Pull Request 115`_
|
||||
* Fix ``fasta_to_tabular_converter.py`` (for implicit conversion) - thanks to
|
||||
Peter Cock. `Pull Request 11`_
|
||||
* Fix to eliminate race condition by collecting extra files before declaring
|
||||
dataset's OK. `Pull Request 48`_
|
||||
* Fix setting current history for certain proxied Galaxy instances - thanks
|
||||
to @wezen. 6946e46_.
|
||||
* Fix typo in tool failure testing example - thanks to Peter Cock.
|
||||
`Pull Request 18`_.
|
||||
* Fix Galaxy to default to using SSL for communicating with Tool Sheds.
|
||||
0b037a2_
|
||||
* Fix data source tools to open in ``_top`` window.
|
||||
`Pull Request 17`_
|
||||
* Fix to fallback to name for tool parameters without labels.
|
||||
`Pull Request 189`_, `Trello <https://trello.com/c/Y2xbXqzZ>`__
|
||||
* Fix to remove redundant version ids in tool version selector.
|
||||
`Pull Request 244`_
|
||||
* Fix for downloading metadata files. `Pull Request 234`_
|
||||
* Fix for history failing to render if it contains more exotic dataset
|
||||
collection types. `Pull Request 196`_
|
||||
* Fixes for BaseURLToolParameter. `Pull Request 247`_
|
||||
* Fix to suppress pysam binary incompatibility warning when using datatypes
|
||||
in ``binary.py``. `Pull Request 252`_
|
||||
* Fix for library UI duplication bug. `Pull Request 179`_
|
||||
* Fix for `Backbone.js`_ loading as AMD_. 4e5218f_
|
||||
* Other small Tool Shed fixes. 815f86f_, 76e0915_
|
||||
* Fix file closing in ``lped_to_pbed_converter``. 182b67f_
|
||||
* Fix undefined variables in Tool Shed ``add_repository_entry`` API script.
|
||||
47e6f08_
|
||||
* Fix user registration to respect use_panels when in the Galaxy app.
|
||||
7ac8631_, `Trello <https://trello.com/c/lA1mdDrP>`__
|
||||
* Fix bug in scramble exception, incorrect reference to source_path 79d50d8_
|
||||
* Fix error handling in ``pbed_to_lped``. 7aecd7a_
|
||||
* Fix error handling in Tool Shed step handler for ``chmod`` action. 1454396_
|
||||
* Fix ``__safe_string_wrapper`` in tool evaluation object_wrapper. ab6f13e_
|
||||
* Fixes for data types and data providers. c1d2d1f_, 8da70bb_, 0b83b1e_
|
||||
* Fixes for Tool Shed commit and mercurial handling modules. 6102edf_,
|
||||
b639bc0_, debea9d_
|
||||
* Fix to clean working directory during job re-submission. `Pull Request 236`_
|
||||
* Fix bug when task splitting jobs fail. `Pull Request 214`_
|
||||
* Fix some minor typos in comment docs in ``config/galaxy.ini.sample``.
|
||||
`Pull Request 210`_
|
||||
* Fix admin disk usage message. `Pull Request 205`_,
|
||||
`Trello <https://trello.com/c/2pdw2dK8>`__
|
||||
* Fix to sessionStorage Model to suppress QUOTA DOMExceptions when Safari
|
||||
users are in private browsing mode. 0c94f04_
|
||||
|
||||
.. _IGV: https://www.broadinstitute.org/igv/
|
||||
.. _External Display Application: https://wiki.galaxyproject.org/Admin/Tools/External%20Display%20Applications%20Tutorial
|
||||
.. _Interactive Environments: https://wiki.galaxyproject.org/Admin/IEs
|
||||
.. _TravisCI: https://travis-ci.org/
|
||||
.. _Tox: https://testrun.org/tox/latest/
|
||||
.. _Source Maps: https://developer.chrome.com/devtools/docs/javascript-debugging#source-maps
|
||||
.. _uglify: https://developer.chrome.com/devtools/docs/javascript-debugging#source-maps
|
||||
.. _collectl: http://collectl.sourceforge.net/
|
||||
.. _Backbone.js: http://backbonejs.org/
|
||||
.. _AMD: http://requirejs.org/docs/whyamd.html
|
||||
|
||||
.. github_links
|
||||
.. _Pull Request 129: https://github.com/galaxyproject/galaxy/pull/129
|
||||
.. _Pull Request 128: https://github.com/galaxyproject/galaxy/pull/128
|
||||
.. _Pull Request 2: https://github.com/galaxyproject/galaxy/pull/2
|
||||
.. _Pull Request 247: https://github.com/galaxyproject/galaxy/pull/247
|
||||
.. _Pull Request 252: https://github.com/galaxyproject/galaxy/pull/252
|
||||
.. _Pull Request 245: https://github.com/galaxyproject/galaxy/pull/245
|
||||
.. _Pull Request 244: https://github.com/galaxyproject/galaxy/pull/244
|
||||
.. _Pull Request 236: https://github.com/galaxyproject/galaxy/pull/236
|
||||
.. _Pull Request 235: https://github.com/galaxyproject/galaxy/pull/235
|
||||
.. _Pull Request 222: https://github.com/galaxyproject/galaxy/pull/222
|
||||
.. _Pull Request 234: https://github.com/galaxyproject/galaxy/pull/234
|
||||
.. _Pull Request 231: https://github.com/galaxyproject/galaxy/pull/231
|
||||
.. _Pull Request 226: https://github.com/galaxyproject/galaxy/pull/226
|
||||
.. _Pull Request 216: https://github.com/galaxyproject/galaxy/pull/216
|
||||
.. _Pull Request 215: https://github.com/galaxyproject/galaxy/pull/215
|
||||
.. _Pull Request 214: https://github.com/galaxyproject/galaxy/pull/214
|
||||
.. _Pull Request 198: https://github.com/galaxyproject/galaxy/pull/198
|
||||
.. _Pull Request 210: https://github.com/galaxyproject/galaxy/pull/210
|
||||
.. _Pull Request 206: https://github.com/galaxyproject/galaxy/pull/206
|
||||
.. _Pull Request 205: https://github.com/galaxyproject/galaxy/pull/205
|
||||
.. _Pull Request 197: https://github.com/galaxyproject/galaxy/pull/197
|
||||
.. _Pull Request 196: https://github.com/galaxyproject/galaxy/pull/196
|
||||
.. _Pull Request 189: https://github.com/galaxyproject/galaxy/pull/189
|
||||
.. _Pull Request 187: https://github.com/galaxyproject/galaxy/pull/187
|
||||
.. _Pull Request 179: https://github.com/galaxyproject/galaxy/pull/179
|
||||
.. _Pull Request 153: https://github.com/galaxyproject/galaxy/pull/153
|
||||
.. _Pull Request 152: https://github.com/galaxyproject/galaxy/pull/152
|
||||
.. _5abb8ad: https://github.com/galaxyproject/galaxy/commit/5abb8ad
|
||||
.. _Pull Request 130: https://github.com/galaxyproject/galaxy/pull/130
|
||||
.. _Pull Request 146: https://github.com/galaxyproject/galaxy/pull/146
|
||||
.. _Pull Request 135: https://github.com/galaxyproject/galaxy/pull/135
|
||||
.. _Pull Request 143: https://github.com/galaxyproject/galaxy/pull/143
|
||||
.. _Pull Request 142: https://github.com/galaxyproject/galaxy/pull/142
|
||||
.. _Pull Request 131: https://github.com/galaxyproject/galaxy/pull/131
|
||||
.. _d725aab: https://github.com/galaxyproject/galaxy/commit/d725aab
|
||||
.. _Pull Request 126: https://github.com/galaxyproject/galaxy/pull/126
|
||||
.. _e09761e: https://github.com/galaxyproject/galaxy/commit/e09761e
|
||||
.. _8d3c531: https://github.com/galaxyproject/galaxy/commit/8d3c531
|
||||
.. _Pull Request 125: https://github.com/galaxyproject/galaxy/pull/125
|
||||
.. _Pull Request 123: https://github.com/galaxyproject/galaxy/pull/123
|
||||
.. _Pull Request 121: https://github.com/galaxyproject/galaxy/pull/121
|
||||
.. _Pull Request 120: https://github.com/galaxyproject/galaxy/pull/120
|
||||
.. _Pull Request 119: https://github.com/galaxyproject/galaxy/pull/119
|
||||
.. _Pull Request 117: https://github.com/galaxyproject/galaxy/pull/117
|
||||
.. _Pull Request 118: https://github.com/galaxyproject/galaxy/pull/118
|
||||
.. _Pull Request 134: https://github.com/galaxyproject/galaxy/pull/134
|
||||
.. _Pull Request 116: https://github.com/galaxyproject/galaxy/pull/116
|
||||
.. _Pull Request 109: https://github.com/galaxyproject/galaxy/pull/109
|
||||
.. _647cf55: https://github.com/galaxyproject/galaxy/commit/647cf55
|
||||
.. _Pull Request 108: https://github.com/galaxyproject/galaxy/pull/108
|
||||
.. _Pull Request 107: https://github.com/galaxyproject/galaxy/pull/107
|
||||
.. _8254cab: https://github.com/galaxyproject/galaxy/commit/8254cab
|
||||
.. _Pull Request 99: https://github.com/galaxyproject/galaxy/pull/99
|
||||
.. _Pull Request 98: https://github.com/galaxyproject/galaxy/pull/98
|
||||
.. _Pull Request 115: https://github.com/galaxyproject/galaxy/pull/115
|
||||
.. _Pull Request 97: https://github.com/galaxyproject/galaxy/pull/97
|
||||
.. _Pull Request 91: https://github.com/galaxyproject/galaxy/pull/91
|
||||
.. _Pull Request 89: https://github.com/galaxyproject/galaxy/pull/89
|
||||
.. _Pull Request 86: https://github.com/galaxyproject/galaxy/pull/86
|
||||
.. _Pull Request 87: https://github.com/galaxyproject/galaxy/pull/87
|
||||
.. _Pull Request 73: https://github.com/galaxyproject/galaxy/pull/73
|
||||
.. _Pull Request 74: https://github.com/galaxyproject/galaxy/pull/74
|
||||
.. _Pull Request 75: https://github.com/galaxyproject/galaxy/pull/75
|
||||
.. _Pull Request 70: https://github.com/galaxyproject/galaxy/pull/70
|
||||
.. _Pull Request 69: https://github.com/galaxyproject/galaxy/pull/69
|
||||
.. _Pull Request 62: https://github.com/galaxyproject/galaxy/pull/62
|
||||
.. _Pull Request 51: https://github.com/galaxyproject/galaxy/pull/51
|
||||
.. _Pull Request 76: https://github.com/galaxyproject/galaxy/pull/76
|
||||
.. _2650d09: https://github.com/galaxyproject/galaxy/commit/2650d09
|
||||
.. _7d5dde8: https://github.com/galaxyproject/galaxy/commit/7d5dde8
|
||||
.. _2748f9d: https://github.com/galaxyproject/galaxy/commit/2748f9d
|
||||
.. _d6d61bc: https://github.com/galaxyproject/galaxy/commit/d6d61bc
|
||||
.. _815f86f: https://github.com/galaxyproject/galaxy/commit/815f86f
|
||||
.. _76e0915: https://github.com/galaxyproject/galaxy/commit/76e0915
|
||||
.. _bce8171: https://github.com/galaxyproject/galaxy/commit/bce8171
|
||||
.. _06346a4: https://github.com/galaxyproject/galaxy/commit/06346a4
|
||||
.. _b4cf49a: https://github.com/galaxyproject/galaxy/commit/b4cf49a
|
||||
.. _Pull Request 40: https://github.com/galaxyproject/galaxy/pull/40
|
||||
.. _Pull Request 38: https://github.com/galaxyproject/galaxy/pull/38
|
||||
.. _a24e206: https://github.com/galaxyproject/galaxy/commit/a24e206
|
||||
.. _Pull Request 35: https://github.com/galaxyproject/galaxy/pull/35
|
||||
.. _e36e51e: https://github.com/galaxyproject/galaxy/commit/e36e51e
|
||||
.. _1e55206: https://github.com/galaxyproject/galaxy/commit/1e55206
|
||||
.. _0c79680: https://github.com/galaxyproject/galaxy/commit/0c79680
|
||||
.. _Pull Request 1: https://github.com/galaxyproject/galaxy/pull/1
|
||||
.. _Pull Request 33: https://github.com/galaxyproject/galaxy/pull/33
|
||||
.. _Pull Request 48: https://github.com/galaxyproject/galaxy/pull/48
|
||||
.. _21d1d6b: https://github.com/galaxyproject/galaxy/commit/21d1d6b
|
||||
.. _Pull Request 30: https://github.com/galaxyproject/galaxy/pull/30
|
||||
.. _Pull Request 29: https://github.com/galaxyproject/galaxy/pull/29
|
||||
.. _c0e5509: https://github.com/galaxyproject/galaxy/commit/c0e5509
|
||||
.. _157eba6: https://github.com/galaxyproject/galaxy/commit/157eba6
|
||||
.. _72c876c: https://github.com/galaxyproject/galaxy/commit/72c876c
|
||||
.. _9a7f5fc: https://github.com/galaxyproject/galaxy/commit/9a7f5fc
|
||||
.. _648a623: https://github.com/galaxyproject/galaxy/commit/648a623
|
||||
.. _59028c0: https://github.com/galaxyproject/galaxy/commit/59028c0
|
||||
.. _bcd1701: https://github.com/galaxyproject/galaxy/commit/bcd1701
|
||||
.. _22f280f: https://github.com/galaxyproject/galaxy/commit/22f280f
|
||||
.. _6946e46: https://github.com/galaxyproject/galaxy/commit/6946e46
|
||||
.. _65def71: https://github.com/galaxyproject/galaxy/commit/65def71
|
||||
.. _4e5218f: https://github.com/galaxyproject/galaxy/commit/4e5218f
|
||||
.. _Pull Request 16: https://github.com/galaxyproject/galaxy/pull/16
|
||||
.. _Pull Request 13: https://github.com/galaxyproject/galaxy/pull/13
|
||||
.. _e8564d7: https://github.com/galaxyproject/galaxy/commit/e8564d7
|
||||
.. _Pull Request 23: https://github.com/galaxyproject/galaxy/pull/23
|
||||
.. _Pull Request 22: https://github.com/galaxyproject/galaxy/pull/22
|
||||
.. _10bb492: https://github.com/galaxyproject/galaxy/commit/10bb492
|
||||
.. _Pull Request 19: https://github.com/galaxyproject/galaxy/pull/19
|
||||
.. _Pull Request 18: https://github.com/galaxyproject/galaxy/pull/18
|
||||
.. _0b037a2: https://github.com/galaxyproject/galaxy/commit/0b037a2
|
||||
.. _Pull Request 17: https://github.com/galaxyproject/galaxy/pull/17
|
||||
.. _b29a5e9: https://github.com/galaxyproject/galaxy/commit/b29a5e9
|
||||
.. _Pull Request 14: https://github.com/galaxyproject/galaxy/pull/14
|
||||
.. _7aecd7a: https://github.com/galaxyproject/galaxy/commit/7aecd7a
|
||||
.. _Pull Request 12: https://github.com/galaxyproject/galaxy/pull/12
|
||||
.. _cd7abe8: https://github.com/galaxyproject/galaxy/commit/cd7abe8
|
||||
.. _62f0495: https://github.com/galaxyproject/galaxy/commit/62f0495
|
||||
.. _Pull Request 11: https://github.com/galaxyproject/galaxy/pull/11
|
||||
.. _Pull Request 9: https://github.com/galaxyproject/galaxy/pull/9
|
||||
.. _632ec4e: https://github.com/galaxyproject/galaxy/commit/632ec4e
|
||||
.. _Pull Request 8: https://github.com/galaxyproject/galaxy/pull/8
|
||||
.. _Pull Request 7: https://github.com/galaxyproject/galaxy/pull/7
|
||||
.. _b52cc98: https://github.com/galaxyproject/galaxy/commit/b52cc98
|
||||
.. _1454396: https://github.com/galaxyproject/galaxy/commit/1454396
|
||||
.. _8da70bb: https://github.com/galaxyproject/galaxy/commit/8da70bb
|
||||
.. _b639bc0: https://github.com/galaxyproject/galaxy/commit/b639bc0
|
||||
.. _ab6f13e: https://github.com/galaxyproject/galaxy/commit/ab6f13e
|
||||
.. _debea9d: https://github.com/galaxyproject/galaxy/commit/debea9d
|
||||
.. _6102edf: https://github.com/galaxyproject/galaxy/commit/6102edf
|
||||
.. _c1d2d1f: https://github.com/galaxyproject/galaxy/commit/c1d2d1f
|
||||
.. _0b83b1e: https://github.com/galaxyproject/galaxy/commit/0b83b1e
|
||||
.. _216fb95: https://github.com/galaxyproject/galaxy/commit/216fb95
|
||||
.. _182b67f: https://github.com/galaxyproject/galaxy/commit/182b67f
|
||||
.. _47e6f08: https://github.com/galaxyproject/galaxy/commit/47e6f08
|
||||
.. _7ac8631: https://github.com/galaxyproject/galaxy/commit/7ac8631
|
||||
.. _2bf52fe: https://github.com/galaxyproject/galaxy/commit/2bf52fe
|
||||
.. _e4e5df0: https://github.com/galaxyproject/galaxy/commit/e4e5df0
|
||||
.. _6e17bf4: https://github.com/galaxyproject/galaxy/commit/6e17bf4
|
||||
.. _0c94f04: https://github.com/galaxyproject/galaxy/commit/0c94f04
|
||||
.. _Pull Request 1: https://github.com/galaxyproject/galaxy/pull/1
|
||||
.. _ec549db: https://github.com/galaxyproject/galaxy/commit/ec549db
|
||||
.. _226e826: https://github.com/galaxyproject/galaxy/commit/226e826
|
||||
.. _79d50d8: https://github.com/galaxyproject/galaxy/commit/79d50d8
|
||||
.. _964e081: https://github.com/galaxyproject/galaxy/commit/964e081
|
||||
.. _Pull Request 5: https://github.com/galaxyproject/galaxy/pull/5
|
||||
.. _1f1bb29: https://github.com/galaxyproject/galaxy/commit/1f1bb29
|
||||
.. _Pull Request 4: https://github.com/galaxyproject/galaxy/pull/4
|
||||
.. _dde2fc9: https://github.com/galaxyproject/galaxy/commit/dde2fc9
|
||||
.. _c2eb74c: https://github.com/galaxyproject/galaxy/commit/c2eb74c
|
||||
.. _71a64ca: https://github.com/galaxyproject/galaxy/commit/71a64ca
|
||||
.. _3af3bf5: https://github.com/galaxyproject/galaxy/commit/3af3bf5
|
||||
.. _e99adb5: https://github.com/galaxyproject/galaxy/commit/e99adb5
|
||||
@@ -0,0 +1,58 @@
|
||||
===========================================================
|
||||
May 2015 Galaxy Release (v 15.05)
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Highlights
|
||||
===========================================================
|
||||
|
||||
**Authentication Plugins**
|
||||
Galaxy now has native support for LDAP and Active Directory via a new
|
||||
community developed authentication plugin system.
|
||||
|
||||
**Tool Sections**
|
||||
Tool parameters may now be groupped into collapsable sections.
|
||||
|
||||
**Collection Creators**
|
||||
New widgets have been added that allow much more flexibility when creating
|
||||
simple dataset pair and list collections.
|
||||
|
||||
`Github <https://github.com/galaxyproject/galaxy>`__
|
||||
===========================================================
|
||||
|
||||
New
|
||||
.. code-block:: shell
|
||||
|
||||
% git clone -b master https://github.com/galaxyproject/galaxy.git
|
||||
|
||||
Update to latest stable release
|
||||
.. code-block:: shell
|
||||
|
||||
% git checkout master && pull --ff-only origin master
|
||||
|
||||
Update to exact version
|
||||
.. code-block:: shell
|
||||
|
||||
% git checkout v15.05
|
||||
|
||||
|
||||
`BitBucket <https://bitbucket.org/galaxy/galaxy-dist>`__
|
||||
===========================================================
|
||||
|
||||
Upgrade
|
||||
.. code-block:: shell
|
||||
|
||||
% hg pull
|
||||
% hg update latest_15.05
|
||||
|
||||
|
||||
See `our wiki <https://wiki.galaxyproject.org/Develop/SourceCode>`__ for additional details regarding the source code locations.
|
||||
|
||||
Release Notes
|
||||
===========================================================
|
||||
|
||||
.. include:: 15.05.rst
|
||||
:start-after: enhancements
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -0,0 +1,3 @@
|
||||
.. image:: https://wiki.galaxyproject.org/Images/GalaxyLogo?action=AttachFile&do=get&target=galaxy_logo_25percent_transparent.png
|
||||
:alt: Get the Galaxy Release Your Way
|
||||
:target: http://getgalaxy.org
|
||||
@@ -0,0 +1,7 @@
|
||||
To stay up to date with Galaxy's progress watch our `screencasts <https://vimeo.com/galaxyproject>`__,
|
||||
read our `wiki <https://wiki.galaxyproject.org/>`__, and follow
|
||||
`@galaxyproject <https://twitter.com/galaxyproject>`__ on Twitter.
|
||||
|
||||
*Thanks for using Galaxy!*
|
||||
|
||||
`The Galaxy Team <https://wiki.galaxyproject.org/GalaxyTeam>`__
|
||||
@@ -0,0 +1,21 @@
|
||||
Releases
|
||||
========
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 1
|
||||
|
||||
15.05_announce
|
||||
15.03_announce
|
||||
15.01_announce
|
||||
14.10_announce
|
||||
14.08_announce
|
||||
14.06_announce
|
||||
14.04_announce
|
||||
14.02_announce
|
||||
13.11_announce
|
||||
13.08_announce
|
||||
13.06_announce
|
||||
13.04_announce
|
||||
13.02_announce
|
||||
13.01_announce
|
||||
older_releases
|
||||
@@ -0,0 +1,11 @@
|
||||
===========================================================
|
||||
Galaxy Releases older than v 13.01
|
||||
===========================================================
|
||||
|
||||
.. include:: _header.rst
|
||||
|
||||
Please see the `Galaxy wiki`_ for announcement and release notes.
|
||||
|
||||
.. _Galaxy wiki: https://wiki.galaxyproject.org/DevNewsBriefs
|
||||
|
||||
.. include:: _thanks.rst
|
||||
@@ -12,6 +12,7 @@ import struct
|
||||
import subprocess
|
||||
import tempfile
|
||||
import re
|
||||
import warnings
|
||||
import zipfile
|
||||
|
||||
from galaxy import eggs
|
||||
@@ -24,8 +25,11 @@ from galaxy.datatypes.metadata import MetadataElement, MetadataParameter, ListPa
|
||||
from galaxy.datatypes import metadata
|
||||
import dataproviders
|
||||
|
||||
eggs.require( "pysam" )
|
||||
from pysam import csamtools
|
||||
with warnings.catch_warnings():
|
||||
warnings.simplefilter( "ignore" )
|
||||
eggs.require( "pysam" )
|
||||
from pysam import csamtools
|
||||
|
||||
|
||||
log = logging.getLogger(__name__)
|
||||
|
||||
|
||||
@@ -8,6 +8,9 @@ import logging
|
||||
import socket
|
||||
from galaxy.util import send_mail
|
||||
from galaxy.util.json import dumps
|
||||
from galaxy import eggs
|
||||
eggs.require( "MarkupSafe" )
|
||||
from markupsafe import escape
|
||||
|
||||
log = logging.getLogger( __name__ )
|
||||
|
||||
@@ -50,7 +53,7 @@ class DefaultJobAction(object):
|
||||
@classmethod
|
||||
def get_short_str(cls, pja):
|
||||
if pja.action_arguments:
|
||||
return "%s -> %s" % (pja.action_type, pja.action_arguments)
|
||||
return "%s -> %s" % (pja.action_type, escape(pja.action_arguments))
|
||||
else:
|
||||
return "%s" % pja.action_type
|
||||
|
||||
@@ -91,7 +94,7 @@ class EmailAction(DefaultJobAction):
|
||||
@classmethod
|
||||
def get_short_str(cls, pja):
|
||||
if pja.action_arguments and 'host' in pja.action_arguments:
|
||||
return "Email the current user from server %s when this job is complete." % pja.action_arguments['host']
|
||||
return "Email the current user from server %s when this job is complete." % escape(pja.action_arguments['host'])
|
||||
else:
|
||||
return "Email the current user when this job is complete."
|
||||
|
||||
@@ -127,7 +130,8 @@ class ChangeDatatypeAction(DefaultJobAction):
|
||||
|
||||
@classmethod
|
||||
def get_short_str(cls, pja):
|
||||
return "Set the datatype of output '%s' to '%s'" % (pja.output_name, pja.action_arguments['newtype'])
|
||||
return "Set the datatype of output '%s' to '%s'" % (escape(pja.output_name),
|
||||
escape(pja.action_arguments['newtype']))
|
||||
|
||||
|
||||
class RenameDatasetAction(DefaultJobAction):
|
||||
@@ -235,7 +239,8 @@ class RenameDatasetAction(DefaultJobAction):
|
||||
def get_short_str(cls, pja):
|
||||
# Prevent renaming a dataset to the empty string.
|
||||
if pja.action_arguments and pja.action_arguments.get('newname', ''):
|
||||
return "Rename output '%s' to '%s'." % (pja.output_name, pja.action_arguments['newname'])
|
||||
return "Rename output '%s' to '%s'." % (escape(pja.output_name),
|
||||
escape(pja.action_arguments['newname']))
|
||||
else:
|
||||
return "Rename action used without a new name specified. Output name will be unchanged."
|
||||
|
||||
@@ -260,7 +265,7 @@ class HideDatasetAction(DefaultJobAction):
|
||||
|
||||
@classmethod
|
||||
def get_short_str(cls, pja):
|
||||
return "Hide output '%s'." % pja.output_name
|
||||
return "Hide output '%s'." % escape(pja.output_name)
|
||||
|
||||
|
||||
class DeleteDatasetAction(DefaultJobAction):
|
||||
@@ -336,7 +341,7 @@ class ColumnSetAction(DefaultJobAction):
|
||||
|
||||
@classmethod
|
||||
def get_short_str(cls, pja):
|
||||
return "Set the following metadata values:<br/>" + "<br/>".join(['%s : %s' % (k, v) for k, v in pja.action_arguments.iteritems()])
|
||||
return "Set the following metadata values:<br/>" + "<br/>".join(['%s : %s' % (escape(k), escape(v)) for k, v in pja.action_arguments.iteritems()])
|
||||
|
||||
|
||||
class SetMetadataAction(DefaultJobAction):
|
||||
@@ -455,7 +460,8 @@ class TagDatasetAction(DefaultJobAction):
|
||||
@classmethod
|
||||
def get_short_str(cls, pja):
|
||||
if pja.action_arguments and pja.action_arguments.get('tags', ''):
|
||||
return "Add tag(s) '%s' to '%s'." % (pja.action_arguments['tags'], pja.output_name)
|
||||
return "Add tag(s) '%s' to '%s'." % (escape(pja.action_arguments['tags']),
|
||||
escape(pja.output_name))
|
||||
else:
|
||||
return "Tag addition action used without a tag specified. No tag will be added."
|
||||
|
||||
|
||||
@@ -73,7 +73,9 @@ class DatasetCollectionManager( object ):
|
||||
for input_name, input_collection in implicit_collection_info[ "implicit_inputs" ]:
|
||||
dataset_collection_instance.add_implicit_input_collection( input_name, input_collection )
|
||||
for output_dataset in implicit_collection_info.get( "outputs" ):
|
||||
if isinstance( output_dataset, model.HistoryDatasetCollectionAssociation ):
|
||||
if isinstance( output_dataset, model.HistoryDatasetAssociation ):
|
||||
output_dataset.hidden_beneath_collection_instance = dataset_collection_instance
|
||||
elif isinstance( output_dataset, model.HistoryDatasetCollectionAssociation ):
|
||||
dataset_collection_instance.add_implicit_input_collection( input_name, input_collection )
|
||||
else:
|
||||
# dataset collection, don't need to do anything...
|
||||
|
||||
@@ -139,7 +139,11 @@ class ProvidesUserContext( object ):
|
||||
@property
|
||||
def user_ftp_dir( self ):
|
||||
identifier = self.app.config.ftp_upload_dir_identifier
|
||||
return os.path.join( self.app.config.ftp_upload_dir, getattr( self.user, identifier ) )
|
||||
base_dir = self.app.config.ftp_upload_dir
|
||||
if base_dir is None:
|
||||
return None
|
||||
else:
|
||||
return os.path.join( base_dir, getattr( self.user, identifier ) )
|
||||
|
||||
|
||||
class ProvidesHistoryContext( object ):
|
||||
|
||||
@@ -282,21 +282,21 @@ class HistorySerializer( sharable.SharableModelSerializer, deletable.PurgableSer
|
||||
state = states.ERROR
|
||||
# TODO: history_state and state_counts are classically calc'd at the same time
|
||||
# so this is rel. ineff. - if we keep this...
|
||||
hda_state_counts = self.serialize_state_counts( history, 'counts', exclude_deleted=False, **context )
|
||||
hda_state_counts = self.serialize_state_counts( history, 'counts', exclude_deleted=True, **context )
|
||||
num_hdas = sum( hda_state_counts.values() )
|
||||
if num_hdas == 0:
|
||||
state = states.NEW
|
||||
|
||||
else:
|
||||
if ( hda_state_counts[ states.RUNNING ] > 0
|
||||
or hda_state_counts[ states.SETTING_METADATA ] > 0
|
||||
or hda_state_counts[ states.UPLOAD ] > 0 ):
|
||||
or hda_state_counts[ states.SETTING_METADATA ] > 0
|
||||
or hda_state_counts[ states.UPLOAD ] > 0 ):
|
||||
state = states.RUNNING
|
||||
# TODO: this method may be more useful if we *also* polled the histories jobs here too
|
||||
elif hda_state_counts[ states.QUEUED ] > 0:
|
||||
state = states.QUEUED
|
||||
elif ( hda_state_counts[ states.ERROR ] > 0
|
||||
or hda_state_counts[ states.FAILED_METADATA ] > 0 ):
|
||||
or hda_state_counts[ states.FAILED_METADATA ] > 0 ):
|
||||
state = states.ERROR
|
||||
elif hda_state_counts[ states.OK ] == num_hdas:
|
||||
state = states.OK
|
||||
|
||||
@@ -60,16 +60,6 @@ from galaxy.model.item_attrs import Dictifiable
|
||||
from tool_shed.util import shed_util_common as suc
|
||||
from .loader import template_macro_params, raw_tool_xml_tree, imported_macro_paths
|
||||
from .execute import execute as execute_job
|
||||
from .wrappers import (
|
||||
ToolParameterValueWrapper,
|
||||
RawObjectWrapper,
|
||||
LibraryDatasetValueWrapper,
|
||||
InputValueWrapper,
|
||||
SelectToolParameterWrapper,
|
||||
DatasetFilenameWrapper,
|
||||
DatasetListWrapper,
|
||||
DatasetCollectionWrapper,
|
||||
)
|
||||
import galaxy.jobs
|
||||
|
||||
|
||||
@@ -1890,10 +1880,12 @@ class Tool( object, Dictifiable ):
|
||||
"""
|
||||
args = dict()
|
||||
for key, param in self.inputs.iteritems():
|
||||
if isinstance( param, HiddenToolParameter ):
|
||||
# BaseURLToolParameter is now a subclass of HiddenToolParameter, so
|
||||
# we must check if param is a BaseURLToolParameter first
|
||||
if isinstance( param, BaseURLToolParameter ):
|
||||
args[key] = param.get_initial_value( trans, None )
|
||||
elif isinstance( param, HiddenToolParameter ):
|
||||
args[key] = model.User.expand_user_properties( trans.user, param.value )
|
||||
elif isinstance( param, BaseURLToolParameter ):
|
||||
args[key] = param.get_value( trans )
|
||||
else:
|
||||
raise Exception( "Unexpected parameter type" )
|
||||
return args
|
||||
@@ -2332,6 +2324,12 @@ class Tool( object, Dictifiable ):
|
||||
'id' : trans.security.encode_id(v.id),
|
||||
'src' : 'hdca'
|
||||
}
|
||||
elif isinstance(v, trans.app.model.LibraryDatasetDatasetAssociation):
|
||||
return {
|
||||
'id' : trans.security.encode_id(v.id),
|
||||
'name': v.name,
|
||||
'src' : 'ldda'
|
||||
}
|
||||
elif isinstance(v, bool):
|
||||
if v is True:
|
||||
return 'true'
|
||||
@@ -2550,7 +2548,8 @@ class Tool( object, Dictifiable ):
|
||||
tool_versions = []
|
||||
tools = self.app.toolbox.get_loaded_tools_by_lineage(self.id)
|
||||
for t in tools:
|
||||
tool_versions.append(t.version)
|
||||
if not t.version in tool_versions:
|
||||
tool_versions.append(t.version)
|
||||
|
||||
# add information with underlying requirements and their versions
|
||||
tool_requirements = []
|
||||
|
||||
@@ -185,6 +185,7 @@ class ToolDataTable( object ):
|
||||
self.comment_char = config_element.get( 'comment_char' )
|
||||
self.empty_field_value = config_element.get( 'empty_field_value', '' )
|
||||
self.empty_field_values = {}
|
||||
self.allow_duplicate_entries = util.asbool( config_element.get( 'allow_duplicate_entries', True ) )
|
||||
self.here = filename and os.path.dirname(filename)
|
||||
self.filenames = odict()
|
||||
self.tool_data_path = tool_data_path
|
||||
@@ -354,6 +355,11 @@ class TabularToolDataTable( ToolDataTable, Dictifiable ):
|
||||
self.filenames[ filename ] = info
|
||||
#save info about table
|
||||
self._merged_load_info.append( ( other_table.__class__, other_table._load_info ) )
|
||||
# If we are merging in a data table that does not allow duplicates, enforce that upon the data table
|
||||
if self.allow_duplicate_entries and not other_table.allow_duplicate_entries:
|
||||
log.debug( 'While attempting to merge tool data table "%s", the other instance of the table specified that duplicate entries are not allowed, now deduplicating all previous entries.', self.name )
|
||||
self.allow_duplicate_entries = False
|
||||
self._deduplicate_data()
|
||||
#add data entries and return current data table version
|
||||
return self.add_entries( other_table.data, allow_duplicates=allow_duplicates, persist=persist, persist_on_error=persist_on_error, entry_source=entry_source, **kwd )
|
||||
|
||||
@@ -426,6 +432,8 @@ class TabularToolDataTable( ToolDataTable, Dictifiable ):
|
||||
def extend_data_with( self, filename, errors=None ):
|
||||
here = os.path.dirname(os.path.abspath(filename))
|
||||
self.data.extend( self.parse_file_fields( open( filename ), errors=errors, here=here ) )
|
||||
if not self.allow_duplicate_entries:
|
||||
self._deduplicate_data()
|
||||
|
||||
def parse_file_fields( self, reader, errors=None, here="__HERE__" ):
|
||||
"""
|
||||
@@ -536,7 +544,7 @@ class TabularToolDataTable( ToolDataTable, Dictifiable ):
|
||||
is_error = False
|
||||
if self.largest_index < len( fields ):
|
||||
fields = self._replace_field_separators( fields )
|
||||
if fields not in self.get_fields() or allow_duplicates:
|
||||
if fields not in self.get_fields() or ( allow_duplicates and self.allow_duplicate_entries ):
|
||||
self.data.append( fields )
|
||||
else:
|
||||
log.debug( "Attempted to add fields (%s) to data table '%s', but this entry already exists and allow_duplicates is False.", fields, self.name )
|
||||
@@ -624,6 +632,20 @@ class TabularToolDataTable( ToolDataTable, Dictifiable ):
|
||||
replace = " "
|
||||
return map( lambda x: x.replace( separator, replace ), fields )
|
||||
|
||||
def _deduplicate_data( self ):
|
||||
# Remove duplicate entries, without recreating self.data object
|
||||
dup_lines = []
|
||||
hash_list = []
|
||||
for i, fields in enumerate( self.data ):
|
||||
fields_hash = hash( self.separator.join( fields ) )
|
||||
if fields_hash in hash_list:
|
||||
dup_lines.append( i )
|
||||
log.debug( 'Found duplicate entry in tool data table "%s", but duplicates are not allowed, removing additional entry for: "%s"', self.name, fields )
|
||||
else:
|
||||
hash_list.append( fields_hash )
|
||||
for i in reversed( dup_lines ):
|
||||
self.data.pop( i )
|
||||
|
||||
@property
|
||||
def xml_string( self ):
|
||||
return util.xml_to_string( self.config_element )
|
||||
|
||||
@@ -11,7 +11,6 @@ from galaxy.tools.wrappers import (
|
||||
DatasetFilenameWrapper,
|
||||
DatasetListWrapper,
|
||||
DatasetCollectionWrapper,
|
||||
LibraryDatasetValueWrapper,
|
||||
SelectToolParameterWrapper,
|
||||
InputValueWrapper,
|
||||
RawObjectWrapper
|
||||
@@ -19,7 +18,6 @@ from galaxy.tools.wrappers import (
|
||||
from galaxy.tools.parameters.basic import (
|
||||
DataToolParameter,
|
||||
DataCollectionToolParameter,
|
||||
LibraryDatasetToolParameter,
|
||||
SelectToolParameter,
|
||||
)
|
||||
from galaxy.tools.parameters.grouping import Conditional, Repeat, Section
|
||||
@@ -228,10 +226,6 @@ class ToolEvaluator( object ):
|
||||
elif isinstance( input, SelectToolParameter ):
|
||||
input_values[ input.name ] = SelectToolParameterWrapper(
|
||||
input, input_values[ input.name ], self.app, other_values=param_dict, path_rewriter=self.unstructured_path_rewriter )
|
||||
elif isinstance( input, LibraryDatasetToolParameter ):
|
||||
# TODO: Handle input rewrites in here? How to test LibraryDatasetToolParameters?
|
||||
input_values[ input.name ] = LibraryDatasetValueWrapper(
|
||||
input, input_values[ input.name ], param_dict )
|
||||
else:
|
||||
input_values[ input.name ] = InputValueWrapper(
|
||||
input, input_values[ input.name ], param_dict )
|
||||
|
||||
@@ -113,12 +113,13 @@ class ToolExecutionTracker( object ):
|
||||
outputs=outputs
|
||||
)
|
||||
try:
|
||||
output_collection_name = self.tool_action.get_output_name(
|
||||
output_collection_name = self.tool.tool_action.get_output_name(
|
||||
output,
|
||||
dataset=None,
|
||||
tool=self.tool,
|
||||
on_text=on_text,
|
||||
trans=trans,
|
||||
history=history,
|
||||
params=params,
|
||||
incoming=None,
|
||||
job_params=None,
|
||||
|
||||
@@ -587,6 +587,14 @@ class FTPFileToolParameter( ToolParameter ):
|
||||
"""
|
||||
input_source = ensure_input_source(input_source)
|
||||
ToolParameter.__init__( self, tool, input_source )
|
||||
self.multiple = input_source.get_bool( 'multiple', True )
|
||||
self.user_ftp_dir = ''
|
||||
|
||||
def get_initial_value( self, trans, context, history=None ):
|
||||
if not trans is None:
|
||||
if not trans.user is None:
|
||||
self.user_ftp_dir = "%s/" % trans.user_ftp_dir
|
||||
return None
|
||||
|
||||
@property
|
||||
def visible( self ):
|
||||
@@ -601,28 +609,45 @@ class FTPFileToolParameter( ToolParameter ):
|
||||
user_ftp_dir = trans.user_ftp_dir
|
||||
return form_builder.FTPFileField( self.name, user_ftp_dir, trans.app.config.ftp_upload_site, value=value )
|
||||
|
||||
def to_param_dict_string( self, value, other_values={} ):
|
||||
if value is '':
|
||||
return 'None'
|
||||
lst = [ '%s%s' % (self.user_ftp_dir, dataset) for dataset in value ]
|
||||
if self.multiple:
|
||||
return lst
|
||||
else:
|
||||
return lst[ 0 ]
|
||||
|
||||
def from_html( self, value, trans=None, other_values={} ):
|
||||
try:
|
||||
assert type( value ) is list
|
||||
except:
|
||||
value = [ value ]
|
||||
return value
|
||||
return self.to_python( value, trans.app, validate=True )
|
||||
|
||||
def to_string( self, value, app ):
|
||||
if value in [ None, '' ]:
|
||||
return None
|
||||
elif isinstance( value, unicode ) or isinstance( value, str ) or isinstance( value, list ):
|
||||
return value
|
||||
return self.to_python( value, app )
|
||||
|
||||
def to_python( self, value, app ):
|
||||
if value is None:
|
||||
return None
|
||||
elif isinstance( value, unicode ) or isinstance( value, str ) or isinstance( value, list ):
|
||||
return value
|
||||
|
||||
def get_initial_value( self, trans, context, history=None ):
|
||||
return None
|
||||
def to_python( self, value, app, validate=False ):
|
||||
if validate and self.tool.app.config.ftp_upload_dir is None:
|
||||
raise ValueError( "The FTP directory is not configured." )
|
||||
if not isinstance( value, list ):
|
||||
value = [ value ]
|
||||
lst = []
|
||||
for val in value:
|
||||
if val is None:
|
||||
lst = []
|
||||
break
|
||||
if isinstance( val, dict ):
|
||||
lst.append( val[ 'name' ] )
|
||||
else:
|
||||
lst.append( val )
|
||||
if len( lst ) == 0:
|
||||
if not self.optional and validate:
|
||||
raise ValueError( "Please select a valid FTP file." )
|
||||
return ''
|
||||
return lst
|
||||
|
||||
def to_dict( self, trans, view='collection', value_mapper=None, other_values=None ):
|
||||
d = super( FTPFileToolParameter, self ).to_dict( trans )
|
||||
d['multiple'] = self.multiple
|
||||
return d
|
||||
|
||||
class HiddenToolParameter( ToolParameter ):
|
||||
"""
|
||||
@@ -652,6 +677,7 @@ class HiddenToolParameter( ToolParameter ):
|
||||
def get_label( self ):
|
||||
return None
|
||||
|
||||
|
||||
class ColorToolParameter( ToolParameter ):
|
||||
"""
|
||||
Parameter that stores a color.
|
||||
@@ -682,9 +708,23 @@ class BaseURLToolParameter( HiddenToolParameter ):
|
||||
super( BaseURLToolParameter, self ).__init__( tool, input_source )
|
||||
self.value = input_source.get( 'value', '' )
|
||||
|
||||
def get_initial_value( self, trans, context, history=None ):
|
||||
return self._get_value()
|
||||
|
||||
def get_html_field( self, trans=None, value=None, other_values={} ):
|
||||
return form_builder.HiddenField( self.name, self._get_value() )
|
||||
|
||||
def from_html( self, value=None, trans=None, context={} ):
|
||||
return self._get_value()
|
||||
|
||||
def _get_value( self ):
|
||||
return url_for( self.value, qualified=True )
|
||||
|
||||
def to_dict( self, trans, view='collection', value_mapper=None, other_values={} ):
|
||||
d = super( BaseURLToolParameter, self ).to_dict( trans )
|
||||
d[ 'value' ] = self._get_value()
|
||||
return d
|
||||
|
||||
|
||||
DEFAULT_VALUE_MAP = lambda x: x
|
||||
|
||||
@@ -1638,7 +1678,7 @@ class BaseDataToolParameter( ToolParameter ):
|
||||
class_name = self.__class__.__name__
|
||||
assert trans is not None, "%s requires a trans" % class_name
|
||||
if history is None:
|
||||
history = trans.get_history( create=True )
|
||||
history = trans.get_history()
|
||||
assert history is not None, "%s requires a history" % class_name
|
||||
return history
|
||||
|
||||
@@ -2360,8 +2400,10 @@ class LibraryDatasetToolParameter( ToolParameter ):
|
||||
Parameter that lets users select a LDDA from a modal window, then use it within the wrapper.
|
||||
"""
|
||||
|
||||
def __init__( self, tool, elem ):
|
||||
ToolParameter.__init__( self, tool, elem )
|
||||
def __init__( self, tool, input_source, context=None ):
|
||||
input_source = ensure_input_source( input_source )
|
||||
ToolParameter.__init__( self, tool, input_source )
|
||||
self.multiple = input_source.get_bool( 'multiple', True )
|
||||
|
||||
def get_html_field( self, trans=None, value=None, other_values={} ):
|
||||
return form_builder.LibraryField( self.name, value=value, trans=trans )
|
||||
@@ -2370,28 +2412,82 @@ class LibraryDatasetToolParameter( ToolParameter ):
|
||||
return None
|
||||
|
||||
def from_html( self, value, trans, other_values={} ):
|
||||
if not value:
|
||||
return None
|
||||
elif isinstance( value, list ):
|
||||
return value
|
||||
return self.to_python( value, trans.app, other_values=other_values, validate=True )
|
||||
|
||||
def to_param_dict_string( self, value, other_values={} ):
|
||||
if value is None:
|
||||
return 'None'
|
||||
elif self.multiple:
|
||||
return [ dataset.get_file_name() for dataset in value ]
|
||||
else:
|
||||
decoded_lst = []
|
||||
for encoded_id in value.split("||"):
|
||||
decoded_lst.append( trans.sa_session.query( trans.app.model.LibraryDatasetDatasetAssociation ).get( trans.security.decode_id( encoded_id ) ) )
|
||||
return decoded_lst
|
||||
return value[ 0 ].get_file_name()
|
||||
|
||||
# converts values to json representation:
|
||||
# { id: LibraryDatasetDatasetAssociation.id, name: LibraryDatasetDatasetAssociation.name, src: 'lda' }
|
||||
def to_string( self, value, app ):
|
||||
if not value:
|
||||
return value
|
||||
return [ldda.id for ldda in value]
|
||||
if not isinstance( value, list ):
|
||||
value = [value]
|
||||
lst = []
|
||||
for item in value:
|
||||
encoded_id = encoded_name = None
|
||||
if isinstance (item, app.model.LibraryDatasetDatasetAssociation):
|
||||
encoded_id = app.security.encode_id( item.id )
|
||||
encoded_name = item.name
|
||||
elif isinstance (item, dict):
|
||||
encoded_id = item.get('id')
|
||||
encoded_name = item.get('name')
|
||||
else:
|
||||
lst = []
|
||||
break
|
||||
if encoded_id is not None:
|
||||
lst.append( {
|
||||
'id' : encoded_id,
|
||||
'name' : encoded_name,
|
||||
'src' : 'ldda'
|
||||
} )
|
||||
if len( lst ) == 0:
|
||||
return None
|
||||
else:
|
||||
return lst
|
||||
|
||||
def to_python( self, value, app ):
|
||||
if not value:
|
||||
return value
|
||||
lddas = []
|
||||
for ldda_id in value:
|
||||
lddas.append( app.model.context.query( app.model.LibraryDatasetDatasetAssociation ).get( ldda_id ) )
|
||||
return lddas
|
||||
# converts values into python representation:
|
||||
# LibraryDatasetDatasetAssociation
|
||||
# valid input values (incl. arrays of mixed sets) are:
|
||||
# 1. LibraryDatasetDatasetAssociation
|
||||
# 2. LibraryDatasetDatasetAssociation.id
|
||||
# 3. { id: LibraryDatasetDatasetAssociation.id, ... }
|
||||
def to_python( self, value, app, other_values={}, validate=False ):
|
||||
if not isinstance( value, list ):
|
||||
value = [value]
|
||||
lst = []
|
||||
for item in value:
|
||||
if isinstance (item, app.model.LibraryDatasetDatasetAssociation):
|
||||
lst.append(item)
|
||||
else:
|
||||
encoded_id = None
|
||||
if isinstance (item, dict):
|
||||
encoded_id = item.get('id')
|
||||
elif isinstance (item, basestring):
|
||||
encoded_id = item
|
||||
else:
|
||||
lst = []
|
||||
break
|
||||
lda = app.model.context.query( app.model.LibraryDatasetDatasetAssociation ).get( app.security.decode_id( encoded_id ) )
|
||||
if lda is not None:
|
||||
lst.append( lda )
|
||||
elif validate:
|
||||
raise ValueError( "One of the selected library datasets is invalid or not available anymore." )
|
||||
if len( lst ) == 0:
|
||||
if not self.optional and validate:
|
||||
raise ValueError( "Please select a valid library dataset." )
|
||||
return None
|
||||
else:
|
||||
return lst
|
||||
|
||||
def to_dict( self, trans, view='collection', value_mapper=None, other_values=None ):
|
||||
d = super( LibraryDatasetToolParameter, self ).to_dict( trans )
|
||||
d['multiple'] = self.multiple
|
||||
return d
|
||||
|
||||
# class RawToolParameter( ToolParameter ):
|
||||
# """
|
||||
|
||||
@@ -116,7 +116,7 @@ class DataMetaFilter( Filter ):
|
||||
return file_value == dataset_value
|
||||
assert self.ref_name in other_values or ( trans is not None and trans.workflow_building_mode), "Required dependency '%s' not found in incoming values" % self.ref_name
|
||||
ref = other_values.get( self.ref_name, None )
|
||||
if not isinstance( ref, self.dynamic_option.tool_param.tool.app.model.HistoryDatasetAssociation ) and not ( isinstance( ref, galaxy.tools.DatasetFilenameWrapper ) ):
|
||||
if not isinstance( ref, self.dynamic_option.tool_param.tool.app.model.HistoryDatasetAssociation ) and not ( isinstance( ref, galaxy.tools.wrappers.DatasetFilenameWrapper ) ):
|
||||
return [] #not a valid dataset
|
||||
meta_value = ref.metadata.get( self.key, None )
|
||||
if meta_value is None: #assert meta_value is not None, "Required metadata value '%s' not found in referenced dataset" % self.key
|
||||
@@ -358,7 +358,7 @@ class RemoveValueFilter( Filter ):
|
||||
value = other_values.get( self.ref_name )
|
||||
else:
|
||||
data_ref = other_values.get( self.meta_ref )
|
||||
if not isinstance( data_ref, self.dynamic_option.tool_param.tool.app.model.HistoryDatasetAssociation ) and not ( isinstance( data_ref, galaxy.tools.DatasetFilenameWrapper ) ):
|
||||
if not isinstance( data_ref, self.dynamic_option.tool_param.tool.app.model.HistoryDatasetAssociation ) and not ( isinstance( data_ref, galaxy.tools.wrappers.DatasetFilenameWrapper ) ):
|
||||
return options #cannot modify options
|
||||
value = data_ref.metadata.get( self.metadata_key, None )
|
||||
return [ ( disp_name, optval, selected ) for disp_name, optval, selected in options if not compare_value( optval, value ) ]
|
||||
|
||||
@@ -3,7 +3,14 @@ import galaxy.tools
|
||||
from galaxy.tools.parameters.basic import (
|
||||
DataToolParameter,
|
||||
DataCollectionToolParameter,
|
||||
SelectToolParameter,
|
||||
SelectToolParameter
|
||||
)
|
||||
from galaxy.tools.wrappers import (
|
||||
InputValueWrapper,
|
||||
SelectToolParameterWrapper,
|
||||
DatasetFilenameWrapper,
|
||||
DatasetListWrapper,
|
||||
DatasetCollectionWrapper
|
||||
)
|
||||
from galaxy.tools.parameters.grouping import (
|
||||
Repeat,
|
||||
@@ -38,6 +45,7 @@ class WrappedParameters( object ):
|
||||
for input in inputs.itervalues():
|
||||
if input.name not in input_values and skip_missing_values:
|
||||
continue
|
||||
value = input_values[ input.name ]
|
||||
if isinstance( input, Repeat ):
|
||||
for d in input_values[ input.name ]:
|
||||
self.wrap_values( input.inputs, d, skip_missing_values=skip_missing_values )
|
||||
@@ -50,27 +58,27 @@ class WrappedParameters( object ):
|
||||
self.wrap_values( input.inputs, values, skip_missing_values=skip_missing_values )
|
||||
elif isinstance( input, DataToolParameter ) and input.multiple:
|
||||
input_values[ input.name ] = \
|
||||
galaxy.tools.DatasetListWrapper( input_values[ input.name ],
|
||||
DatasetListWrapper( input_values[ input.name ],
|
||||
datatypes_registry=trans.app.datatypes_registry,
|
||||
tool=tool,
|
||||
name=input.name )
|
||||
elif isinstance( input, DataToolParameter ):
|
||||
input_values[ input.name ] = \
|
||||
galaxy.tools.DatasetFilenameWrapper( input_values[ input.name ],
|
||||
DatasetFilenameWrapper( input_values[ input.name ],
|
||||
datatypes_registry=trans.app.datatypes_registry,
|
||||
tool=tool,
|
||||
name=input.name )
|
||||
elif isinstance( input, SelectToolParameter ):
|
||||
input_values[ input.name ] = galaxy.tools.SelectToolParameterWrapper( input, input_values[ input.name ], tool.app, other_values=incoming )
|
||||
input_values[ input.name ] = SelectToolParameterWrapper( input, input_values[ input.name ], tool.app, other_values=incoming )
|
||||
elif isinstance( input, DataCollectionToolParameter ):
|
||||
input_values[ input.name ] = galaxy.tools.DatasetCollectionWrapper(
|
||||
input_values[ input.name ] = DatasetCollectionWrapper(
|
||||
input_values[ input.name ],
|
||||
datatypes_registry=trans.app.datatypes_registry,
|
||||
tool=tool,
|
||||
name=input.name,
|
||||
)
|
||||
else:
|
||||
input_values[ input.name ] = galaxy.tools.InputValueWrapper( input, input_values[ input.name ], incoming )
|
||||
input_values[ input.name ] = InputValueWrapper( input, value, incoming )
|
||||
|
||||
|
||||
def make_dict_copy( from_dict ):
|
||||
|
||||
@@ -158,6 +158,7 @@ class XmlToolSource(ToolSource):
|
||||
|
||||
for collection_elem in out_elem.findall("collection"):
|
||||
name = collection_elem.get( "name" )
|
||||
label = xml_text( collection_elem, "label" )
|
||||
default_format = collection_elem.get( "format", "data" )
|
||||
collection_type = collection_elem.get( "type", None )
|
||||
structured_like = collection_elem.get( "structured_like", None )
|
||||
@@ -180,6 +181,7 @@ class XmlToolSource(ToolSource):
|
||||
output_collection = galaxy.tools.ToolOutputCollection(
|
||||
name,
|
||||
structure,
|
||||
label=label,
|
||||
default_format=default_format,
|
||||
inherit_format=inherit_format,
|
||||
inherit_metadata=inherit_metadata,
|
||||
|
||||
@@ -57,32 +57,6 @@ class RawObjectWrapper( ToolParameterValueWrapper ):
|
||||
return getattr( self.obj, key )
|
||||
|
||||
|
||||
class LibraryDatasetValueWrapper( ToolParameterValueWrapper ):
|
||||
"""
|
||||
Wraps an input so that __str__ gives the "param_dict" representation.
|
||||
"""
|
||||
def __init__( self, input, value, other_values={} ):
|
||||
self.input = input
|
||||
self.value = value
|
||||
self._other_values = other_values
|
||||
self.counter = 0
|
||||
|
||||
def __str__( self ):
|
||||
return self.value
|
||||
|
||||
def __iter__( self ):
|
||||
return self
|
||||
|
||||
def next( self ):
|
||||
if self.counter >= len(self.value):
|
||||
raise StopIteration
|
||||
self.counter += 1
|
||||
return self.value[ self.counter - 1 ]
|
||||
|
||||
def __getattr__( self, key ):
|
||||
return getattr( self.value, key )
|
||||
|
||||
|
||||
class InputValueWrapper( ToolParameterValueWrapper ):
|
||||
"""
|
||||
Wraps an input so that __str__ gives the "param_dict" representation.
|
||||
@@ -93,7 +67,18 @@ class InputValueWrapper( ToolParameterValueWrapper ):
|
||||
self._other_values = other_values
|
||||
|
||||
def __str__( self ):
|
||||
return self.input.to_param_dict_string( self.value, self._other_values )
|
||||
to_param_dict_string = self.input.to_param_dict_string( self.value, self._other_values )
|
||||
if isinstance( to_param_dict_string, list ):
|
||||
return ','.join( to_param_dict_string )
|
||||
else:
|
||||
return to_param_dict_string
|
||||
|
||||
def __iter__( self ):
|
||||
to_param_dict_string = self.input.to_param_dict_string( self.value, self._other_values )
|
||||
if not isinstance( to_param_dict_string, list ):
|
||||
return iter( [ to_param_dict_string ] )
|
||||
else:
|
||||
return iter( to_param_dict_string )
|
||||
|
||||
def __getattr__( self, key ):
|
||||
return getattr( self.value, key )
|
||||
|
||||
@@ -1,14 +1,12 @@
|
||||
import ConfigParser
|
||||
|
||||
import hashlib
|
||||
import os
|
||||
import random
|
||||
import tempfile
|
||||
import subprocess
|
||||
|
||||
from galaxy.util.bunch import Bunch
|
||||
from galaxy import web
|
||||
from galaxy import eggs
|
||||
eggs.require("PyYAML")
|
||||
import yaml
|
||||
from galaxy.managers import api_keys
|
||||
|
||||
import logging
|
||||
@@ -42,6 +40,13 @@ class InteractiveEnviornmentRequest(object):
|
||||
self.attr.HOST = trans.request.host.rsplit(':', 1)[0]
|
||||
self.attr.PORT = self.attr.proxy_request[ 'proxied_port' ]
|
||||
|
||||
# Generate per-request passwords the IE plugin can use to configure
|
||||
# the destination container.
|
||||
self.notebook_pw_salt = self.generate_password(length=12)
|
||||
self.notebook_pw = self.generate_password(length=24)
|
||||
|
||||
self.temp_dir = os.path.abspath( tempfile.mkdtemp() )
|
||||
|
||||
def load_deploy_config(self, default_dict={}):
|
||||
# For backwards compat, any new variables added to the base .ini file
|
||||
# will need to be recorded here. The ConfigParser doesn't provide a
|
||||
@@ -68,9 +73,9 @@ class InteractiveEnviornmentRequest(object):
|
||||
self.attr.APACHE_URLS = _boolean_option("apache_urls")
|
||||
self.attr.SSL_URLS = _boolean_option("ssl")
|
||||
|
||||
def write_conf_file(self, output_directory, extra={}):
|
||||
def get_conf_dict(self):
|
||||
"""
|
||||
Build up a configuration file that is standard for ALL IEs.
|
||||
Build up a configuration dictionary that is standard for ALL IEs.
|
||||
|
||||
TODO: replace hashed password with plaintext.
|
||||
"""
|
||||
@@ -92,27 +97,11 @@ class InteractiveEnviornmentRequest(object):
|
||||
else:
|
||||
conf_file['galaxy_url'] = request.application_url.rstrip('/') + '/'
|
||||
web_port = self.attr.galaxy_config.galaxy_infrastructure_web_port
|
||||
conf_file['galaxy_paster_port'] = web_port or self.attr.galaxy_config.guess_galaxy_port()
|
||||
conf_file['galaxy_web_port'] = web_port or self.attr.galaxy_config.guess_galaxy_port()
|
||||
# Galaxy paster port is deprecated
|
||||
conf_file['galaxy_paster_port'] = conf_file['galaxy_web_port']
|
||||
|
||||
if self.attr.PASSWORD_AUTH:
|
||||
# Generate a random password + salt
|
||||
notebook_pw_salt = self.generate_password(length=12)
|
||||
notebook_pw = self.generate_password(length=24)
|
||||
m = hashlib.sha1()
|
||||
m.update( notebook_pw + notebook_pw_salt )
|
||||
conf_file['notebook_password'] = 'sha1:%s:%s' % (notebook_pw_salt, m.hexdigest())
|
||||
# Should we use password based connection or "default" connection style in galaxy
|
||||
else:
|
||||
notebook_pw = "None"
|
||||
|
||||
# Some will need to pass extra data
|
||||
for extra_key in extra:
|
||||
conf_file[extra_key] = extra[extra_key]
|
||||
|
||||
self.attr.notebook_pw = notebook_pw
|
||||
# Write conf
|
||||
with open( os.path.join( output_directory, 'conf.yaml' ), 'wb' ) as handle:
|
||||
handle.write( yaml.dump(conf_file, default_flow_style=False) )
|
||||
return conf_file
|
||||
|
||||
def generate_hex(self, length):
|
||||
return ''.join(random.choice('0123456789abcdef') for _ in range(length))
|
||||
@@ -165,12 +154,26 @@ class InteractiveEnviornmentRequest(object):
|
||||
.replace('${PORT}', str(self.attr.PORT))
|
||||
return url
|
||||
|
||||
def docker_cmd(self, temp_dir):
|
||||
def docker_cmd(self, env_override={}):
|
||||
"""
|
||||
Generate and return the docker command to execute
|
||||
"""
|
||||
return '%s run -d %s -p %s:%s -v "%s:/import/" %s' % \
|
||||
temp_dir = self.temp_dir
|
||||
conf = self.get_conf_dict()
|
||||
conf.update(env_override)
|
||||
env_str = ' '.join(['-e "%s=%s"' % (key.upper(), item) for key, item in conf.items()])
|
||||
return '%s run %s -d %s -p %s:%s -v "%s:/import/" %s' % \
|
||||
(self.attr.viz_config.get("docker", "command"),
|
||||
env_str,
|
||||
self.attr.viz_config.get("docker", "command_inject"),
|
||||
self.attr.PORT, self.attr.docker_port,
|
||||
temp_dir, self.attr.viz_config.get("docker", "image"))
|
||||
|
||||
def launch(self, raw_cmd=None, env_override={}):
|
||||
if raw_cmd is None:
|
||||
raw_cmd = self.docker_cmd(env_override=env_override)
|
||||
log.info("Starting docker container for IE {0} with command [{1}]".format(
|
||||
self.attr.viz_id,
|
||||
raw_cmd
|
||||
))
|
||||
subprocess.call(raw_cmd, shell=True)
|
||||
|
||||
@@ -36,6 +36,23 @@ var DynamicProxy = function(options) {
|
||||
};
|
||||
|
||||
DynamicProxy.prototype.rewriteRequest = function(request) {
|
||||
if(request.url.indexOf('rstudio') != -1){
|
||||
var remap = {
|
||||
'content-type': 'Content-Type',
|
||||
'content-length': 'Content-Length',
|
||||
}
|
||||
// RStudio isn't spec compliant and pitches a fit on NodeJS's http module's lowercase HTTP headers
|
||||
for(var i = 0; i<Object.keys(remap).length; i++){
|
||||
var key = Object.keys(remap)[i];
|
||||
if(key in request.headers){
|
||||
request.headers[remap[key]] = request.headers[key];
|
||||
delete request.headers[key];
|
||||
}
|
||||
}
|
||||
if('Content-Type' in request.headers && request.headers['Content-Type'] == 'application/x-www-form-urlencoded; charset=UTF-8'){
|
||||
request.headers['Content-Type'] = 'application/x-www-form-urlencoded';
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
DynamicProxy.prototype.targetForRequest = function(request) {
|
||||
|
||||
@@ -899,7 +899,7 @@ class HistoryController( BaseUIController, SharableMixin, UsesAnnotations, UsesI
|
||||
for history_id in ids:
|
||||
history_id = self.decode_id( history_id )
|
||||
history = self.history_manager.get_owned( history_id, trans.user, current_history=trans.history )
|
||||
histories.append( )
|
||||
histories.append( history )
|
||||
return histories
|
||||
|
||||
def _get_users( self, trans, user, emails_or_ids ):
|
||||
|
||||
@@ -0,0 +1,90 @@
|
||||
#!/usr/bin/env python
|
||||
# Little script to make HISTORY.rst more easy to format properly, lots TODO
|
||||
# pull message down and embed, use arg parse, handle multiple, etc...
|
||||
import os
|
||||
import sys
|
||||
try:
|
||||
import requests
|
||||
except ImportError:
|
||||
requests = None
|
||||
import urlparse
|
||||
import textwrap
|
||||
|
||||
|
||||
PROJECT_DIRECTORY = os.path.join(os.path.dirname(__file__), "..")
|
||||
PROJECT_OWNER = "galaxyproject"
|
||||
PROJECT_NAME = "galaxy"
|
||||
PROJECT_URL = "https://github.com/%s/%s" % (PROJECT_OWNER, PROJECT_NAME)
|
||||
PROJECT_API = "https://api.github.com/repos/%s/%s/" % (PROJECT_OWNER, PROJECT_NAME)
|
||||
|
||||
|
||||
def main(argv):
|
||||
releases_path = os.path.join(PROJECT_DIRECTORY, "doc", "source", "releases")
|
||||
newest_release = sorted(os.listdir(releases_path))[-1]
|
||||
history_path = os.path.join(releases_path, newest_release)
|
||||
history = open(history_path, "r").read().decode("utf-8")
|
||||
|
||||
def extend(from_str, line):
|
||||
from_str += "\n"
|
||||
return history.replace(from_str, from_str + line + "\n" )
|
||||
|
||||
ident = argv[1]
|
||||
|
||||
message = ""
|
||||
if len(argv) > 2:
|
||||
message = argv[2]
|
||||
elif not (ident.startswith("pr") or ident.startswith("issue")):
|
||||
api_url = urlparse.urljoin(PROJECT_API, "commits/%s" % ident)
|
||||
req = requests.get(api_url).json()
|
||||
commit = req["commit"]
|
||||
message = commit["message"]
|
||||
message = get_first_sentence(message)
|
||||
elif requests is not None and ident.startswith("pr"):
|
||||
pull_request = ident[len("pr"):]
|
||||
api_url = urlparse.urljoin(PROJECT_API, "pulls/%s" % pull_request)
|
||||
req = requests.get(api_url).json()
|
||||
message = req["title"]
|
||||
elif requests is not None and ident.startswith("issue"):
|
||||
issue = ident[len("issue"):]
|
||||
api_url = urlparse.urljoin(PROJECT_API, "issues/%s" % pull_request)
|
||||
req = requests.get(api_url).json()
|
||||
message = req["title"]
|
||||
else:
|
||||
message = ""
|
||||
|
||||
to_doc = message + " "
|
||||
|
||||
if ident.startswith("pr"):
|
||||
pull_request = ident[len("pr"):]
|
||||
text = ".. _Pull Request {0}: {1}/pull/{0}".format(pull_request, PROJECT_URL)
|
||||
history = extend(".. github_links", text)
|
||||
to_doc += "`Pull Request {0}`_".format(pull_request)
|
||||
elif ident.startswith("issue"):
|
||||
issue = ident[len("issue"):]
|
||||
text = ".. _Issue {0}: {1}/issues/{0}".format(issue, PROJECT_URL)
|
||||
history = extend(".. github_links", text)
|
||||
to_doc += "`Issue {0}`_".format(issue)
|
||||
else:
|
||||
short_rev = ident[:7]
|
||||
text = ".. _{0}: {1}/commit/{0}".format(short_rev, PROJECT_URL)
|
||||
history = extend(".. github_links", text)
|
||||
to_doc += "{0}_".format(short_rev)
|
||||
|
||||
to_doc = wrap(to_doc)
|
||||
history = extend(".. to_doc", to_doc)
|
||||
open(history_path, "w").write(history.encode("utf-8"))
|
||||
|
||||
|
||||
def get_first_sentence(message):
|
||||
first_line = message.split("\n")[0]
|
||||
return first_line
|
||||
|
||||
|
||||
def wrap(message):
|
||||
wrapper = textwrap.TextWrapper(initial_indent="* ")
|
||||
wrapper.subsequent_indent = ' '
|
||||
wrapper.width = 78
|
||||
return "\n".join(wrapper.wrap(message))
|
||||
|
||||
if __name__ == "__main__":
|
||||
main(sys.argv)
|
||||
@@ -74,7 +74,10 @@ default_galaxy_test_port_max = 9999
|
||||
default_galaxy_locales = 'en'
|
||||
default_galaxy_test_file_dir = "test-data,https://github.com/galaxyproject/galaxy-test-data.git"
|
||||
migrated_tool_panel_config = 'config/migrated_tools_conf.xml'
|
||||
installed_tool_panel_configs = [ 'config/shed_tool_conf.xml' ]
|
||||
installed_tool_panel_configs = [
|
||||
os.environ.get('GALAXY_TEST_SHED_TOOL_CONF', 'config/shed_tool_conf.xml')
|
||||
]
|
||||
|
||||
|
||||
# should this serve static resources (scripts, images, styles, etc.)
|
||||
STATIC_ENABLED = True
|
||||
|
||||
@@ -1 +1 @@
|
||||
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|
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@@ -1,2 +1,2 @@
|
||||
define(["utils/utils","mvc/ui/ui-misc","mvc/form/form-select-content","mvc/ui/ui-select-library","mvc/ui/ui-color-picker"],function(a,b,c,d,e){return Backbone.Model.extend({types:{text:"_fieldText",select:"_fieldSelect",data_column:"_fieldSelect",genomebuild:"_fieldSelect",data:"_fieldData",data_collection:"_fieldData",integer:"_fieldSlider","float":"_fieldSlider","boolean":"_fieldBoolean",drill_down:"_fieldDrilldown",color:"_fieldColor",hidden:"_fieldHidden",hidden_data:"_fieldHidden",baseurl:"_fieldHidden",library_data:"_fieldLibrary"},initialize:function(a){this.app=a},create:function(a){void 0===a.value&&(a.value=null),void 0===a.default_value&&(a.default_value=a.value);var b=null,c=this.types[a.type];return c&&"function"==typeof this[c]&&(b=this[c].call(this,a)),b||(this.app.incompatible=!0,b=a.options?this._fieldSelect(a):this._fieldText(a),console.debug("tools-form::_addRow() : Auto matched field type ("+a.type+").")),void 0!==a.value&&b.value(a.value),b},_fieldData:function(b){if(this.app.options.is_workflow)return b.info="Data input '"+b.name+"' ("+a.textify(b.extensions.toString())+")",b.value=null,this._fieldHidden(b);var d=this;return new c.View(this.app,{id:"field-"+b.id,extensions:b.extensions,optional:b.optional,multiple:b.multiple,type:b.type,data:b.options,onchange:function(){d.app.trigger("change")}})},_fieldSelect:function(a){if(0==a.options.length&&this.app.options.is_workflow)return this._fieldText(a);"data_column"==a.type&&(a.error_text="Missing columns in referenced dataset.");var c=[];for(var d in a.options){var e=a.options[d];c.push({label:e[0],value:e[1]})}var f=b.Select;switch(a.display){case"checkboxes":f=b.Checkbox;break;case"radio":f=b.Radio}var g=this;return new f.View({id:"field-"+a.id,data:c,error_text:a.error_text||"No options available",optional:a.optional&&null===a.default_value,multiple:a.multiple,optional:a.optional,searchable:a.searchable,onchange:function(){g.app.trigger("change")}})},_fieldDrilldown:function(a){if(0==a.options.length&&this.app.options.is_workflow)return this._fieldText(a);var c=this;return new b.Drilldown.View({id:"field-"+a.id,data:a.options,display:a.display,onchange:function(){c.app.trigger("change")}})},_fieldText:function(c){if(c.options)if(c.area=c.multiple,a.validate(c.value)){if($.isArray(c.value)){var d="";for(var e in c.value){if(d+=String(c.value[e]),!c.multiple)break;d+="\n"}c.value=d}}else c.value="";var f=this;return new b.Input({id:"field-"+c.id,area:c.area,onchange:function(){f.app.trigger("change")}})},_fieldSlider:function(a){var c=this;return new b.Slider.View({id:"field-"+a.id,precise:"float"==a.type,min:a.min,max:a.max,onchange:function(){c.app.trigger("change")}})},_fieldHidden:function(a){return new b.Hidden({id:"field-"+a.id,info:a.info})},_fieldBoolean:function(a){var c=this;return new b.RadioButton.View({id:"field-"+a.id,data:[{label:"Yes",value:"true"},{label:"No",value:"false"}],onchange:function(){c.app.trigger("change")}})},_fieldColor:function(a){var b=this;return new e({id:"field-"+a.id,onchange:function(){b.app.trigger("change")}})},_fieldLibrary:function(a){var b=this;return new d.View({id:"field-"+a.id,optional:a.optional,multiple:a.multiple,onchange:function(){b.app.trigger("change")}})}})});
|
||||
define(["utils/utils","mvc/ui/ui-misc","mvc/form/form-select-content","mvc/ui/ui-select-library","mvc/ui/ui-select-ftp","mvc/ui/ui-color-picker"],function(a,b,c,d,e,f){return Backbone.Model.extend({types:{text:"_fieldText",select:"_fieldSelect",data_column:"_fieldSelect",genomebuild:"_fieldSelect",data:"_fieldData",data_collection:"_fieldData",integer:"_fieldSlider","float":"_fieldSlider","boolean":"_fieldBoolean",drill_down:"_fieldDrilldown",color:"_fieldColor",hidden:"_fieldHidden",hidden_data:"_fieldHidden",baseurl:"_fieldHidden",library_data:"_fieldLibrary",ftpfile:"_fieldFtp"},initialize:function(a){this.app=a},create:function(a){void 0===a.value&&(a.value=null),void 0===a.default_value&&(a.default_value=a.value);var b=null,c=this.types[a.type];return c&&"function"==typeof this[c]&&(b=this[c].call(this,a)),b||(this.app.incompatible=!0,b=a.options?this._fieldSelect(a):this._fieldText(a),console.debug("tools-form::_addRow() : Auto matched field type ("+a.type+").")),void 0!==a.value&&b.value(a.value),b},_fieldData:function(b){if(this.app.options.is_workflow)return b.info="Data input '"+b.name+"' ("+a.textify(b.extensions.toString())+")",b.value=null,this._fieldHidden(b);var d=this;return new c.View(this.app,{id:"field-"+b.id,extensions:b.extensions,optional:b.optional,multiple:b.multiple,type:b.type,data:b.options,onchange:function(){d.app.trigger("change")}})},_fieldSelect:function(a){if(0==a.options.length&&this.app.options.is_workflow)return this._fieldText(a);"data_column"==a.type&&(a.error_text="Missing columns in referenced dataset.");var c=[];for(var d in a.options){var e=a.options[d];c.push({label:e[0],value:e[1]})}var f=b.Select;switch(a.display){case"checkboxes":f=b.Checkbox;break;case"radio":f=b.Radio}var g=this;return new f.View({id:"field-"+a.id,data:c,error_text:a.error_text||"No options available",optional:a.optional&&null===a.default_value,multiple:a.multiple,optional:a.optional,searchable:a.searchable,onchange:function(){g.app.trigger("change")}})},_fieldDrilldown:function(a){if(0==a.options.length&&this.app.options.is_workflow)return this._fieldText(a);var c=this;return new b.Drilldown.View({id:"field-"+a.id,data:a.options,display:a.display,onchange:function(){c.app.trigger("change")}})},_fieldText:function(c){if(c.options)if(c.area=c.multiple,a.validate(c.value)){if($.isArray(c.value)){var d="";for(var e in c.value){if(d+=String(c.value[e]),!c.multiple)break;d+="\n"}c.value=d}}else c.value="";var f=this;return new b.Input({id:"field-"+c.id,area:c.area,onchange:function(){f.app.trigger("change")}})},_fieldSlider:function(a){var c=this;return new b.Slider.View({id:"field-"+a.id,precise:"float"==a.type,min:a.min,max:a.max,onchange:function(){c.app.trigger("change")}})},_fieldHidden:function(a){return new b.Hidden({id:"field-"+a.id,info:a.info})},_fieldBoolean:function(a){var c=this;return new b.RadioButton.View({id:"field-"+a.id,data:[{label:"Yes",value:"true"},{label:"No",value:"false"}],onchange:function(){c.app.trigger("change")}})},_fieldColor:function(a){var b=this;return new f({id:"field-"+a.id,onchange:function(){b.app.trigger("change")}})},_fieldLibrary:function(a){var b=this;return new d.View({id:"field-"+a.id,optional:a.optional,multiple:a.multiple,onchange:function(){b.app.trigger("change")}})},_fieldFtp:function(a){var b=this;return new e.View({id:"field-"+a.id,optional:a.optional,multiple:a.multiple,onchange:function(){b.app.trigger("change")}})}})});
|
||||
//# sourceMappingURL=../../../maps/mvc/form/form-parameters.js.map
|
||||
@@ -1,2 +1,2 @@
|
||||
define(["utils/utils","mvc/ui/ui-table","mvc/ui/ui-misc","mvc/ui/ui-portlet","mvc/form/form-repeat","mvc/form/form-input","mvc/form/form-parameters"],function(a,b,c,d,e,f,g){var h=Backbone.View.extend({initialize:function(a,c){this.app=a,this.inputs=c.inputs,c.cls="ui-table-plain",c.cls_tr="section-row",this.table=new b.View(c),this.parameters=new g(a,c),this.setElement(this.table.$el),this.render()},render:function(){this.table.delAll();for(var a in this.inputs)this.add(this.inputs[a])},add:function(b){var c=jQuery.extend(!0,{},b);c.id=b.id=a.uid(),this.app.input_list[c.id]=c;var d=c.type;switch(d){case"conditional":this._addConditional(c);break;case"repeat":this._addRepeat(c);break;case"section":this._addSection(c);break;default:this._addRow(c)}},_addConditional:function(a){var b=this;a.test_param.id=a.id;var c=this._addRow(a.test_param);c.options.onchange=function(c){var d=b.app.data.matchCase(a,c);for(var e in a.cases){var f=a.cases[e],g=a.id+"-section-"+e,h=b.table.get(g),i=!1;for(var j in f.inputs)if(!f.inputs[j].hidden){i=!0;break}e==d&&i?h.fadeIn("fast"):h.hide()}b.app.trigger("change")};for(var d in a.cases){var e=a.id+"-section-"+d,f=new h(this.app,{inputs:a.cases[d].inputs});f.$el.addClass("ui-table-section"),this.table.add(f.$el),this.table.append(e)}c.trigger("change")},_addRepeat:function(a){function b(b){var e=a.id+"-section-"+d++,f=new h(c.app,{inputs:b});g.add({id:e,$el:f.$el,ondel:function(){g.del(e),c.app.trigger("change")}})}for(var c=this,d=0,g=new e.View({title:a.title,title_new:a.title,min:a.min,max:a.max,onnew:function(){b(a.inputs),c.app.trigger("change")}}),i=a.min,j=_.size(a.cache),k=0;k<Math.max(j,i);k++){var l=null;l=j>k?a.cache[k]:a.inputs,b(l)}var m=new f(this.app,{label:a.title,help:a.help,field:g});this.table.add(m.$el),this.table.append(a.id)},_addSection:function(a){var b=this,e=new h(b.app,{inputs:a.inputs}),f=new c.ButtonIcon({icon:"fa-eye-slash",tooltip:"Show/hide section",cls:"ui-button-icon-plain"}),g=new d.View({title:a.title,cls:"ui-portlet-section",operations:{button_visible:f}});g.append(e.$el),g.append($("<div/>").addClass("ui-table-form-info").html(a.help));var i=!1;g.$content.hide(),g.$header.css("cursor","pointer"),g.$header.on("click",function(){i?(i=!1,g.$content.hide(),f.setIcon("fa-eye-slash")):(i=!0,g.$content.fadeIn("fast"),f.setIcon("fa-eye"))}),a.expanded&&g.$header.trigger("click"),this.table.add(g.$el),this.table.append(a.id)},_addRow:function(a){var b=a.id,c=this.parameters.create(a);this.app.field_list[b]=c;var d=new f(this.app,{label:a.label||a.name,default_value:a.default_value,collapsible:a.collapsible,help:a.help,field:c});return this.app.element_list[b]=d,this.table.add(d.$el),this.table.append(b),a.hidden&&this.table.get(b).hide(),c}});return{View:h}});
|
||||
define(["utils/utils","mvc/ui/ui-table","mvc/ui/ui-misc","mvc/ui/ui-portlet","mvc/form/form-repeat","mvc/form/form-input","mvc/form/form-parameters"],function(a,b,c,d,e,f,g){var h=Backbone.View.extend({initialize:function(a,c){this.app=a,this.inputs=c.inputs,c.cls="ui-table-plain",c.cls_tr="section-row",this.table=new b.View(c),this.parameters=new g(a,c),this.setElement(this.table.$el),this.render()},render:function(){this.table.delAll();for(var a in this.inputs)this.add(this.inputs[a])},add:function(b){var c=jQuery.extend(!0,{},b);c.id=b.id=a.uid(),this.app.input_list[c.id]=c;var d=c.type;switch(d){case"conditional":this._addConditional(c);break;case"repeat":this._addRepeat(c);break;case"section":this._addSection(c);break;default:this._addRow(c)}},_addConditional:function(a){var b=this;a.test_param.id=a.id;var c=this._addRow(a.test_param);c.options.onchange=function(c){var d=b.app.data.matchCase(a,c);for(var e in a.cases){var f=a.cases[e],g=a.id+"-section-"+e,h=b.table.get(g),i=!1;for(var j in f.inputs)if(!f.inputs[j].hidden){i=!0;break}e==d&&i?h.fadeIn("fast"):h.hide()}b.app.trigger("change")};for(var d in a.cases){var e=a.id+"-section-"+d,f=new h(this.app,{inputs:a.cases[d].inputs});f.$el.addClass("ui-table-section"),this.table.add(f.$el),this.table.append(e)}c.trigger("change")},_addRepeat:function(a){function b(b){var e=a.id+"-section-"+d++,f=new h(c.app,{inputs:b});g.add({id:e,$el:f.$el,ondel:function(){g.del(e),c.app.trigger("change")}})}for(var c=this,d=0,g=new e.View({title:a.title,title_new:a.title,min:a.min,max:a.max,onnew:function(){b(a.inputs),c.app.trigger("change")}}),i=a.min,j=_.size(a.cache),k=0;k<Math.max(j,i);k++){var l=null;l=j>k?a.cache[k]:a.inputs,b(l)}var m=new f(this.app,{label:a.title,help:a.help,field:g});this.table.add(m.$el),this.table.append(a.id)},_addSection:function(a){var b=this,e=new h(b.app,{inputs:a.inputs}),f=new c.ButtonIcon({icon:"fa-eye-slash",tooltip:"Show/hide section",cls:"ui-button-icon-plain"}),g=new d.View({title:a.title,cls:"ui-portlet-section",operations:{button_visible:f}});g.append(e.$el),g.append($("<div/>").addClass("ui-table-form-info").html(a.help));var i=!1;g.$content.hide(),g.$header.css("cursor","pointer"),g.$header.on("click",function(){i?(i=!1,g.$content.hide(),f.setIcon("fa-eye-slash")):(i=!0,g.$content.fadeIn("fast"),f.setIcon("fa-eye"))}),this.app.on("expand",function(a){g.$el.find("#"+a).length>0&&!i&&g.$header.trigger("click")}),a.expanded&&g.$header.trigger("click"),this.table.add(g.$el),this.table.append(a.id)},_addRow:function(a){var b=a.id,c=this.parameters.create(a);this.app.field_list[b]=c;var d=new f(this.app,{label:a.label||a.name,default_value:a.default_value,collapsible:a.collapsible,help:a.help,field:c});return this.app.element_list[b]=d,this.table.add(d.$el),this.table.append(b),a.hidden&&this.table.get(b).hide(),c}});return{View:h}});
|
||||
//# sourceMappingURL=../../../maps/mvc/form/form-section.js.map
|
||||
@@ -1,2 +1,2 @@
|
||||
define(["utils/utils","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/form/form-section","mvc/form/form-data"],function(a,b,c,d,e){return Backbone.View.extend({initialize:function(b){this.optionsDefault={is_workflow:!1,narrow:!1,initial_errors:!1,cls:"ui-portlet-limited"},this.options=a.merge(b,this.optionsDefault),console.debug(this.options);var d=parent.Galaxy;this.modal=d&&d.modal?d.modal:new c.Modal.View,this.setElement("<div/>"),this._build()},update:function(a){var b=this;this.data.matchModel(a,function(a,c){var d=b.input_list[a];if(d&&d.options&&!_.isEqual(d.options,c.options)){d.options=c.options;var e=b.field_list[a];if(e.update){var f=[];if(-1!=["data","data_collection","drill_down"].indexOf(d.type))f=d.options;else for(var g in c.options){var h=c.options[g];h.length>2&&f.push({label:h[0],value:h[1]})}e.update(f),e.trigger("change"),console.debug("Updating options for "+a)}}})},wait:function(a){for(var b in this.input_list){var c=this.field_list[b],d=this.input_list[b];d.is_dynamic&&c.wait&&c.unwait&&(a?c.wait():c.unwait())}},reciept:function(a){this.$el.empty(),this.$el.append(a)},highlight:function(a,b,c){var d=this.element_list[a];d&&(d.error(b||"Please verify this parameter."),c||$("html, body").animate({scrollTop:d.$el.offset().top-20},500))},errors:function(a){if(this.trigger("reset"),a&&a.errors){var b=this.data.matchResponse(a.errors);for(var c in this.element_list){{this.element_list[c]}b[c]&&this.highlight(c,b[c],!0)}}},_build:function(){var a=this;this.off("change"),this.off("reset"),this.field_list={},this.input_list={},this.element_list={},this.data=new e(this),this._renderForm(),this.data.create(),this.options.initial_errors&&this.errors(this.options);var b=this.data.checksum();this.on("change",function(){var c=a.data.checksum();c!=b&&(b=c,a.options.onchange&&a.options.onchange())}),this.on("reset",function(){for(var a in this.element_list)this.element_list[a].reset()})},_renderForm:function(){return this.message=new c.Message,this.section=new d.View(this,{inputs:this.options.inputs}),this.incompatible?(this.$el.hide(),void $("#tool-form-classic").show()):(this.portlet=new b.View({icon:"fa-wrench",title:this.options.title,cls:this.options.cls,operations:this.options.operations,buttons:this.options.buttons}),this.portlet.append(this.message.$el.addClass("ui-margin-top")),this.portlet.append(this.section.$el),this.$el.empty(),this.$el.append(this.portlet.$el),this.options.message&&this.message.update({persistent:!0,status:"warning",message:this.options.message}),void console.debug("tools-form-base::initialize() - Completed."))}})});
|
||||
define(["utils/utils","mvc/ui/ui-portlet","mvc/ui/ui-misc","mvc/form/form-section","mvc/form/form-data"],function(a,b,c,d,e){return Backbone.View.extend({initialize:function(b){this.optionsDefault={is_workflow:!1,narrow:!1,initial_errors:!1,cls:"ui-portlet-limited"},this.options=a.merge(b,this.optionsDefault),console.debug(this.options);var d=parent.Galaxy;this.modal=d&&d.modal?d.modal:new c.Modal.View,this.setElement("<div/>"),this._build()},update:function(a){var b=this;this.data.matchModel(a,function(a,c){var d=b.input_list[a];if(d&&d.options&&!_.isEqual(d.options,c.options)){d.options=c.options;var e=b.field_list[a];if(e.update){var f=[];if(-1!=["data","data_collection","drill_down"].indexOf(d.type))f=d.options;else for(var g in c.options){var h=c.options[g];h.length>2&&f.push({label:h[0],value:h[1]})}e.update(f),e.trigger("change"),console.debug("Updating options for "+a)}}})},wait:function(a){for(var b in this.input_list){var c=this.field_list[b],d=this.input_list[b];d.is_dynamic&&c.wait&&c.unwait&&(a?c.wait():c.unwait())}},reciept:function(a){this.$el.empty(),this.$el.append(a)},highlight:function(a,b,c){var d=this.element_list[a];d&&(d.error(b||"Please verify this parameter."),this.trigger("expand",a),c||$("html, body").animate({scrollTop:d.$el.offset().top-20},500))},errors:function(a){if(this.trigger("reset"),a&&a.errors){var b=this.data.matchResponse(a.errors);for(var c in this.element_list){{this.element_list[c]}b[c]&&this.highlight(c,b[c],!0)}}},_build:function(){var a=this;this.off("change"),this.off("reset"),this.field_list={},this.input_list={},this.element_list={},this.data=new e(this),this._renderForm(),this.data.create(),this.options.initial_errors&&this.errors(this.options);var b=this.data.checksum();this.on("change",function(){var c=a.data.checksum();c!=b&&(b=c,a.options.onchange&&a.options.onchange())}),this.on("reset",function(){for(var a in this.element_list)this.element_list[a].reset()})},_renderForm:function(){return this.message=new c.Message,this.section=new d.View(this,{inputs:this.options.inputs}),this.incompatible?(this.$el.hide(),void $("#tool-form-classic").show()):(this.portlet=new b.View({icon:"fa-wrench",title:this.options.title,cls:this.options.cls,operations:this.options.operations,buttons:this.options.buttons}),this.portlet.append(this.message.$el.addClass("ui-margin-top")),this.portlet.append(this.section.$el),this.$el.empty(),this.$el.append(this.portlet.$el),this.options.message&&this.message.update({persistent:!0,status:"warning",message:this.options.message}),void console.debug("tools-form-base::initialize() - Completed."))}})});
|
||||
//# sourceMappingURL=../../../maps/mvc/form/form-view.js.map
|
||||
@@ -0,0 +1,2 @@
|
||||
define(["utils/utils","mvc/ui/ui-portlet","mvc/ui/ui-misc"],function(a,b,c){var d=Backbone.View.extend({initialize:function(a){var d=this;this.options=a,this.name=a.name||"element",this.multiple=a.multiple||!1,this.message=new c.Message({cls:"ui-margin-top"}),this.portlet=new b.View({cls:"ui-portlet-section"}),this.select=new c.Select.View({optional:a.optional}),this.button=new c.ButtonIcon({icon:"fa fa-sign-in",floating:"left",tooltip:"Insert new "+this.name,onclick:function(){d.add({id:d.select.value(),name:d.select.text()})}}),this.setElement(this._template(a)),this.$(".ui-list-message").append(this.message.$el),this.$(".ui-list-portlet").append(this.portlet.$el),this.$(".ui-list-button").append(this.button.$el),this.$(".ui-list-select").append(this.select.$el)},value:function(a){if(void 0!==a){if(this.portlet.empty(),$.isArray(a))for(var b in a){var c=a[b],d=null,e=null;"string"!=$.type(c)?(d=c.id,e=c.name):d=e=c,null!=d&&this.add({id:d,name:e})}this._refresh()}var f=[];return this.$(".ui-list-id").each(function(){f.push({id:$(this).prop("id"),name:$(this).find(".ui-list-name").html()})}),0==f.length?null:f},add:function(b){var c=this;if(0===this.$('[id="'+b.id+'"]').length)if(a.validate(b.id)){var d=$(this._templateRow({id:b.id,name:b.name}));d.on("click",function(){d.remove(),c._refresh()}),d.on("mouseover",function(){d.addClass("portlet-highlight")}),d.on("mouseout",function(){d.removeClass("portlet-highlight")}),this.portlet.append(d),this._refresh()}else this.message.update({message:"Please select a valid "+this.name+".",status:"danger"});else this.message.update({message:"This "+this.name+" is already in the list."})},update:function(a){this.select.update(a)},_refresh:function(){this.$(".ui-list-id").length>0?(!this.multiple&&this.button.disable(),this.$(".ui-list-portlet").show()):(this.button.enable(),this.$(".ui-list-portlet").hide()),this.options.onchange&&this.options.onchange()},_template:function(){return'<div class="ui-list"><div class="ui-margin-top"><span class="ui-list-button"/><span class="ui-list-select"/></div><div class="ui-list-message"/><div class="ui-list-portlet"/></div>'},_templateRow:function(a){return'<div id="'+a.id+'" class="ui-list-id"><span class="ui-list-delete fa fa-trash"/><span class="ui-list-name">'+a.name+"</span></div>"}});return{View:d}});
|
||||
//# sourceMappingURL=../../../maps/mvc/ui/ui-list.js.map
|
||||
File diff suppressed because one or more lines are too long
@@ -1,2 +1,2 @@
|
||||
define(["utils/utils"],function(a){var b=Backbone.View.extend({visible:!1,optionsDefault:{id:a.uid(),title:"",icon:"",buttons:null,body:null,scrollable:!0,nopadding:!1,operations:null,placement:"bottom",cls:"ui-portlet",operations_flt:"right"},$title:null,$content:null,$buttons:null,$operations:null,$header:null,initialize:function(b){this.options=a.merge(b,this.optionsDefault),this.setElement(this._template(this.options)),this.$content=this.$el.find(".content"),this.$title=this.$el.find(".portlet-title-text"),this.$header=this.$el.find(".portlet-header");var c=this.$el.find(".portlet-content");if(this.options.nopadding&&(c.css("padding","0px"),this.$content.css("padding","0px")),this.$buttons=$(this.el).find(".buttons"),this.options.buttons){var d=this;$.each(this.options.buttons,function(a,b){b.$el.prop("id",a),d.$buttons.append(b.$el)})}else this.$buttons.remove();if(this.$operations=$(this.el).find(".portlet-operations"),this.options.operations){var d=this;$.each(this.options.operations,function(a,b){b.$el.prop("id",a),d.$operations.append(b.$el)})}this.options.body&&this.append(this.options.body)},append:function(a){this.$content.append(a)},content:function(){return this.$content},show:function(){this.$el.fadeIn("fast"),this.visible=!0},hide:function(){this.$el.fadeOut("fast"),this.visible=!1},enableButton:function(a){this.$buttons.find("#"+a).prop("disabled",!1)},disableButton:function(a){this.$buttons.find("#"+a).prop("disabled",!0)},hideOperation:function(a){this.$operations.find("#"+a).hide()},showOperation:function(a){this.$operations.find("#"+a).show()},setOperation:function(a,b){var c=this.$operations.find("#"+a);c.off("click"),c.on("click",b)},title:function(a){var b=this.$title;return a&&b.html(a),b.html()},disable:function(){this.$(".portlet-backdrop").show()},enable:function(){this.$(".portlet-backdrop").hide()},_template:function(a){var b='<div id="'+a.id+'" class="'+a.cls+'">';return a.title&&(b+='<div class="portlet-header"><div class="portlet-operations" style="float: '+a.operations_flt+';"></div><div class="portlet-title">',a.icon&&(b+='<i class="icon fa '+a.icon+'"> </i>'),b+='<span class="portlet-title-text">'+a.title+"</span></div></div>"),b+='<div class="portlet-content">',"top"==a.placement&&(b+='<div class="buttons"></div>'),b+='<div class="content"></div>',"bottom"==a.placement&&(b+='<div class="buttons"></div>'),b+='</div><div class="portlet-backdrop"/></div>'}});return{View:b}});
|
||||
define(["utils/utils"],function(a){var b=Backbone.View.extend({visible:!1,optionsDefault:{id:a.uid(),title:"",icon:"",buttons:null,body:null,scrollable:!0,nopadding:!1,operations:null,placement:"bottom",cls:"ui-portlet",operations_flt:"right"},$title:null,$content:null,$buttons:null,$operations:null,$header:null,initialize:function(b){this.options=a.merge(b,this.optionsDefault),this.setElement(this._template(this.options)),this.$content=this.$el.find(".content"),this.$title=this.$el.find(".portlet-title-text"),this.$header=this.$el.find(".portlet-header");var c=this.$el.find(".portlet-content");if(this.options.nopadding&&(c.css("padding","0px"),this.$content.css("padding","0px")),this.$buttons=$(this.el).find(".buttons"),this.options.buttons){var d=this;$.each(this.options.buttons,function(a,b){b.$el.prop("id",a),d.$buttons.append(b.$el)})}else this.$buttons.remove();if(this.$operations=$(this.el).find(".portlet-operations"),this.options.operations){var d=this;$.each(this.options.operations,function(a,b){b.$el.prop("id",a),d.$operations.append(b.$el)})}this.options.body&&this.append(this.options.body)},append:function(a){this.$content.append(a)},empty:function(){this.$content.empty()},content:function(){return this.$content},show:function(){this.$el.fadeIn("fast"),this.visible=!0},hide:function(){this.$el.fadeOut("fast"),this.visible=!1},enableButton:function(a){this.$buttons.find("#"+a).prop("disabled",!1)},disableButton:function(a){this.$buttons.find("#"+a).prop("disabled",!0)},hideOperation:function(a){this.$operations.find("#"+a).hide()},showOperation:function(a){this.$operations.find("#"+a).show()},setOperation:function(a,b){var c=this.$operations.find("#"+a);c.off("click"),c.on("click",b)},title:function(a){var b=this.$title;return a&&b.html(a),b.html()},disable:function(){this.$(".portlet-backdrop").show()},enable:function(){this.$(".portlet-backdrop").hide()},_template:function(a){var b='<div id="'+a.id+'" class="'+a.cls+'">';return a.title&&(b+='<div class="portlet-header"><div class="portlet-operations" style="float: '+a.operations_flt+';"></div><div class="portlet-title">',a.icon&&(b+='<i class="icon fa '+a.icon+'"> </i>'),b+='<span class="portlet-title-text">'+a.title+"</span></div></div>"),b+='<div class="portlet-content">',"top"==a.placement&&(b+='<div class="buttons"></div>'),b+='<div class="content"></div>',"bottom"==a.placement&&(b+='<div class="buttons"></div>'),b+='</div><div class="portlet-backdrop"/></div>'}});return{View:b}});
|
||||
//# sourceMappingURL=../../../maps/mvc/ui/ui-portlet.js.map
|
||||
@@ -0,0 +1,2 @@
|
||||
define(["utils/utils","mvc/ui/ui-list"],function(a,b){var c=Backbone.View.extend({initialize:function(c){var d=this;this.ftpfile_list=new b.View({name:"file",optional:c.optional,multiple:c.multiple,onchange:function(){c.onchange&&c.onchange(d.value())}}),this.setElement(this.ftpfile_list.$el),a.get({url:galaxy_config.root+"api/remote_files",success:function(a){var b=[];for(var c in a)b.push({value:a[c].path,label:a[c].path});d.ftpfile_list.update(b)}})},value:function(a){return this.ftpfile_list.value(a)}});return{View:c}});
|
||||
//# sourceMappingURL=../../../maps/mvc/ui/ui-select-ftp.js.map
|
||||
@@ -1,2 +1,2 @@
|
||||
define(["utils/utils","mvc/ui/ui-misc","mvc/ui/ui-tabs","mvc/tools/tools-template"],function(a,b){var c=Backbone.Collection.extend({url:galaxy_config.root+"api/libraries"}),d=Backbone.Collection.extend({initialize:function(){var a=this;this.config=new Backbone.Model({library_id:null}),this.config.on("change",function(){a.fetch({reset:!0})})},url:function(){return galaxy_config.root+"api/libraries/"+this.config.get("library_id")+"/contents"}}),e=Backbone.View.extend({initialize:function(a){var e=this;this.libraries=new c,this.datasets=new d,this.options=a,this.library_select=new b.Select.View({optional:a.optional,onchange:function(a){e.datasets.config.set("library_id",a)}}),this.dataset_select=new b.Select.View({optional:a.optional,multiple:a.multiple,onchange:function(){e.trigger("change")}}),this.libraries.on("reset",function(){var a=[];e.libraries.each(function(b){a.push({value:b.id,label:b.get("name")})}),e.library_select.update(a),e.trigger("change")}),this.datasets.on("reset",function(){var a=[],b=e.library_select.text();null!==b&&e.datasets.each(function(c){"file"===c.get("type")&&a.push({value:c.id,label:b+c.get("name")})}),e.dataset_select.update(a),e.trigger("change")}),this.on("change",function(){a.onchange&&a.onchange(e.value())}),this.setElement(this._template()),this.$(".library-select").append(this.library_select.$el),this.$(".dataset-select").append(this.dataset_select.$el),this.libraries.fetch({reset:!0,success:function(){e.library_select.trigger("change"),void 0!==e.options.value&&e.value(e.options.value)}})},value:function(){return this.dataset_select.value()},_template:function(){return'<div class="ui-select-library"><div class="library ui-margin-bottom"><span class="library-title">Select Library</span><span class="library-select"/></div><div class="dataset"><span class="dataset-title">Select Dataset</span><span class="dataset-select"/></div></div>'}});return{View:e}});
|
||||
define(["utils/utils","mvc/ui/ui-misc","mvc/ui/ui-table","mvc/ui/ui-list"],function(a,b,c,d){var e=Backbone.Collection.extend({url:galaxy_config.root+"api/libraries"}),f=Backbone.Collection.extend({initialize:function(){var a=this;this.config=new Backbone.Model({library_id:null}),this.config.on("change",function(){a.fetch({reset:!0})})},url:function(){return galaxy_config.root+"api/libraries/"+this.config.get("library_id")+"/contents"}}),g=Backbone.View.extend({initialize:function(a){var c=this;this.libraries=new e,this.datasets=new f,this.options=a,this.library_select=new b.Select.View({onchange:function(a){c.datasets.config.set("library_id",a)}}),this.dataset_list=new d.View({name:"dataset",optional:a.optional,multiple:a.multiple,onchange:function(){c.trigger("change")}}),this.libraries.on("reset",function(){var a=[];c.libraries.each(function(b){a.push({value:b.id,label:b.get("name")})}),c.library_select.update(a)}),this.datasets.on("reset",function(){var a=[],b=c.library_select.text();null!==b&&c.datasets.each(function(b){"file"===b.get("type")&&a.push({value:b.id,label:b.get("name")})}),c.dataset_list.update(a)}),this.on("change",function(){a.onchange&&a.onchange(c.value())}),this.setElement(this._template()),this.$(".library-select").append(this.library_select.$el),this.$el.append(this.dataset_list.$el),this.libraries.fetch({reset:!0,success:function(){c.library_select.trigger("change"),void 0!==c.options.value&&c.value(c.options.value)}})},value:function(a){return this.dataset_list.value(a)},_template:function(){return'<div class="ui-select-library"><div class="library ui-margin-bottom"><span class="library-title">Select Library</span><span class="library-select"/></div></div>'}});return{View:g}});
|
||||
//# sourceMappingURL=../../../maps/mvc/ui/ui-select-library.js.map
|
||||
@@ -1,2 +1,2 @@
|
||||
define(["libs/underscore"],function(a){function b(a,c){for(var d in a){var e=a[d];e&&"object"==typeof e&&(c(e),b(e,c))}}function c(a){return $("<div/>").text(a).html()}function d(a){if(a instanceof Array||(a=[a]),0===a.length)return!1;for(var b in a)if(["__null__","__undefined__","None",null,void 0].indexOf(a[b])>-1)return!1;return!0}function e(a){var a=a.toString();if(a){a=a.replace(/,/g,", ");var b=a.lastIndexOf(", ");return-1!=b&&(a=a.substr(0,b)+" or "+a.substr(b+1)),a}return""}function f(a){top.__utils__get__=top.__utils__get__||{},a.cache&&top.__utils__get__[a.url]?(a.success&&a.success(top.__utils__get__[a.url]),console.debug("utils.js::get() - Fetching from cache ["+a.url+"].")):g({url:a.url,data:a.data,success:function(b){top.__utils__get__[a.url]=b,a.success&&a.success(b)},error:function(b){a.error&&a.error(b)}})}function g(a){var b={contentType:"application/json",type:a.type||"GET",data:a.data||{},url:a.url};"GET"==b.type||"DELETE"==b.type?(b.url+=-1==b.url.indexOf("?")?"?":"&",b.url=b.url+$.param(b.data,!0),b.data=null):(b.dataType="json",b.url=b.url,b.data=JSON.stringify(b.data)),$.ajax(b).done(function(b){if("string"==typeof b)try{b=b.replace("Infinity,",'"Infinity",'),b=jQuery.parseJSON(b)}catch(c){console.debug(c)}a.success&&a.success(b)}).fail(function(b){var c=null;try{c=jQuery.parseJSON(b.responseText)}catch(d){c=b.responseText}a.error&&a.error(c,b)})}function h(a,b){var c=$('<div class="'+a+'"></div>');c.appendTo(":eq(0)");var d=c.css(b);return c.remove(),d}function i(a){$('link[href^="'+a+'"]').length||$('<link href="'+galaxy_config.root+a+'" rel="stylesheet">').appendTo("head")}function j(b,c){return b?a.defaults(b,c):c}function k(a,b){var c="";if(a>=1e11)a/=1e11,c="TB";else if(a>=1e8)a/=1e8,c="GB";else if(a>=1e5)a/=1e5,c="MB";else if(a>=100)a/=100,c="KB";else{if(!(a>0))return"<strong>-</strong>";a=10*a,c="b"}var d=Math.round(a)/10;return b?d+" "+c:"<strong>"+d+"</strong> "+c}function l(){return top.__utils__uid__=top.__utils__uid__||0,"uid-"+top.__utils__uid__++}function m(){var a=new Date,b=(a.getHours()<10?"0":"")+a.getHours(),c=(a.getMinutes()<10?"0":"")+a.getMinutes(),d=a.getDate()+"/"+(a.getMonth()+1)+"/"+a.getFullYear()+", "+b+":"+c;return d}return{cssLoadFile:i,cssGetAttribute:h,get:f,merge:j,bytesToString:k,uid:l,time:m,request:g,sanitize:c,textify:e,validate:d,deepeach:b}});
|
||||
define(["libs/underscore"],function(a){function b(a,c){for(var d in a){var e=a[d];e&&"object"==typeof e&&(c(e),b(e,c))}}function c(a){return $("<div/>").text(a).html()}function d(a){if(a instanceof Array||(a=[a]),0===a.length)return!1;for(var b in a)if(["__null__","__undefined__",null,void 0].indexOf(a[b])>-1)return!1;return!0}function e(a){var a=a.toString();if(a){a=a.replace(/,/g,", ");var b=a.lastIndexOf(", ");return-1!=b&&(a=a.substr(0,b)+" or "+a.substr(b+1)),a}return""}function f(a){top.__utils__get__=top.__utils__get__||{},a.cache&&top.__utils__get__[a.url]?(a.success&&a.success(top.__utils__get__[a.url]),console.debug("utils.js::get() - Fetching from cache ["+a.url+"].")):g({url:a.url,data:a.data,success:function(b){top.__utils__get__[a.url]=b,a.success&&a.success(b)},error:function(b){a.error&&a.error(b)}})}function g(a){var b={contentType:"application/json",type:a.type||"GET",data:a.data||{},url:a.url};"GET"==b.type||"DELETE"==b.type?(b.url+=-1==b.url.indexOf("?")?"?":"&",b.url=b.url+$.param(b.data,!0),b.data=null):(b.dataType="json",b.url=b.url,b.data=JSON.stringify(b.data)),$.ajax(b).done(function(b){if("string"==typeof b)try{b=b.replace("Infinity,",'"Infinity",'),b=jQuery.parseJSON(b)}catch(c){console.debug(c)}a.success&&a.success(b)}).fail(function(b){var c=null;try{c=jQuery.parseJSON(b.responseText)}catch(d){c=b.responseText}a.error&&a.error(c,b)})}function h(a,b){var c=$('<div class="'+a+'"></div>');c.appendTo(":eq(0)");var d=c.css(b);return c.remove(),d}function i(a){$('link[href^="'+a+'"]').length||$('<link href="'+galaxy_config.root+a+'" rel="stylesheet">').appendTo("head")}function j(b,c){return b?a.defaults(b,c):c}function k(a,b){var c="";if(a>=1e11)a/=1e11,c="TB";else if(a>=1e8)a/=1e8,c="GB";else if(a>=1e5)a/=1e5,c="MB";else if(a>=100)a/=100,c="KB";else{if(!(a>0))return"<strong>-</strong>";a=10*a,c="b"}var d=Math.round(a)/10;return b?d+" "+c:"<strong>"+d+"</strong> "+c}function l(){return top.__utils__uid__=top.__utils__uid__||0,"uid-"+top.__utils__uid__++}function m(){var a=new Date,b=(a.getHours()<10?"0":"")+a.getHours(),c=(a.getMinutes()<10?"0":"")+a.getMinutes(),d=a.getDate()+"/"+(a.getMonth()+1)+"/"+a.getFullYear()+", "+b+":"+c;return d}return{cssLoadFile:i,cssGetAttribute:h,get:f,merge:j,bytesToString:k,uid:l,time:m,request:g,sanitize:c,textify:e,validate:d,deepeach:b}});
|
||||
//# sourceMappingURL=../../maps/utils/utils.js.map
|
||||
Some files were not shown because too many files have changed in this diff Show More
Reference in New Issue
Block a user