avadordi/mass-spectrometry

File z.jquery.fileupload.js has 1110 lines of code (exceeds 250 allowed). Consider refactoring.

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/*
 * jQuery File Upload Plugin 5.42.3
 * https://github.com/blueimp/jQuery-File-Upload
 *
 * Copyright 2010, Sebastian Tschan

File jquery.ui.widget.js has 497 lines of code (exceeds 250 allowed). Consider refactoring.

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/*!
 * jQuery UI Widget @VERSION
 * http://jqueryui.com
 *
 * Copyright jQuery Foundation and other contributors

Similar blocks of code found in 2 locations. Consider refactoring.

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    _focusable: function( element ) {
        this.focusable = this.focusable.add( element );
        this._on( element, {
            focusin: function( event ) {
                this._addClass( $( event.currentTarget ), null, "ui-state-focus" );

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Similar blocks of code found in 2 locations. Consider refactoring.

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    _hoverable: function( element ) {
        this.hoverable = this.hoverable.add( element );
        this._on( element, {
            mouseenter: function( event ) {
                this._addClass( $( event.currentTarget ), null, "ui-state-hover" );

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Function _chunkedUpload has 85 lines of code (exceeds 25 allowed). Consider refactoring.

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        _chunkedUpload: function (options, testOnly) {
            options.uploadedBytes = options.uploadedBytes || 0;
            var that = this,
                file = options.files[0],
                fs = file.size,

Function _onSend has 75 lines of code (exceeds 25 allowed). Consider refactoring.

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        _onSend: function (e, data) {
            if (!data.submit) {
                this._addConvenienceMethods(e, data);
            }
            var that = this,

Function widget has 73 lines of code (exceeds 25 allowed). Consider refactoring.

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$.widget = function( name, base, prototype ) {
    var fullName, existingConstructor, constructor, basePrototype,
        // proxiedPrototype allows the provided prototype to remain unmodified
        // so that it can be used as a mixin for multiple widgets (#8876)
        proxiedPrototype = {},

Function _onAdd has 70 lines of code (exceeds 25 allowed). Consider refactoring.

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        _onAdd: function (e, data) {
            var that = this,
                result = true,
                options = $.extend({}, this.options, data),
                files = data.files,

Function _initXHRData has 62 lines of code (exceeds 25 allowed). Consider refactoring.

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        _initXHRData: function (options) {
            var that = this,
                formData,
                file = options.files[0],
                // Ignore non-multipart setting if not supported:

Function _addConvenienceMethods has 56 lines of code (exceeds 25 allowed). Consider refactoring.

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        _addConvenienceMethods: function (e, data) {
            var that = this,
                getPromise = function (args) {
                    return $.Deferred().resolveWith(that, args).promise();
                };

Function s3_upload_file has 54 lines of code (exceeds 25 allowed). Consider refactoring.

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var s3_upload_file = function(url, formData) {
  $('.directUpload').find("input:file").each(function(i, elem) {

    var fileInput    = $(elem);
    var form         = $('.directUpload').find('form:first');

Function bridge has 46 lines of code (exceeds 25 allowed). Consider refactoring.

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$.widget.bridge = function( name, object ) {
    var fullName = object.prototype.widgetFullName || name;
    $.fn[ name ] = function( options ) {
        var isMethodCall = typeof options === "string",
            args = widget_slice.call( arguments, 1 ),

Function _handleFileTreeEntry has 45 lines of code (exceeds 25 allowed). Consider refactoring.

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        _handleFileTreeEntry: function (entry, path) {
            var that = this,
                dfd = $.Deferred(),
                errorHandler = function (e) {
                    if (e && !e.entry) {

Function send has 44 lines of code (exceeds 25 allowed). Consider refactoring.

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        send: function (data) {
            if (data && !this.options.disabled) {
                if (data.fileInput && !data.files) {
                    var that = this,
                        dfd = $.Deferred(),

Function name has 43 lines of code (exceeds 25 allowed). Consider refactoring.

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    $.fn[ name ] = function( options ) {
        var isMethodCall = typeof options === "string",
            args = widget_slice.call( arguments, 1 ),
            returnValue = this;

Function send has 39 lines of code (exceeds 25 allowed). Consider refactoring.

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                send = function () {
                    that._sending += 1;
                    // Set timer for bitrate progress calculation:
                    options._bitrateTimer = new that._BitrateTimer();
                    jqXHR = jqXHR || (

Function _on has 38 lines of code (exceeds 25 allowed). Consider refactoring.

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    _on: function( suppressDisabledCheck, element, handlers ) {
        var delegateElement,
            instance = this;

        // no suppressDisabledCheck flag, shuffle arguments

Function _onProgress has 35 lines of code (exceeds 25 allowed). Consider refactoring.

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        _onProgress: function (e, data) {
            if (e.lengthComputable) {
                var now = ((Date.now) ? Date.now() : (new Date()).getTime()),
                    loaded;
                if (data._time && data.progressInterval &&

Method start_ssh has 34 lines of code (exceeds 25 allowed). Consider refactoring.

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  def start_ssh

    rand_dir = SecureRandom.uuid
    mass_datum = MassDatum.find(self.mass_data_id)
    mass_param = MassParam.find(self.mass_params_id)

Function option has 31 lines of code (exceeds 25 allowed). Consider refactoring.

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    option: function( key, value ) {
        var options = key,
            parts,
            curOption,
            i;