Angular solution:
HTML
    <!doctype html>
    <html ng-app='app'>
        <head>
            <title>
            </title>
            <link rel="stylesheet" href="http://maxcdn.bootstrapcdn.com/bootstrap/3.3.6/css/bootstrap.min.css">
            <link rel="stylesheet" href="style.css">
        </head>
        <body ng-cloack>        
            <div class="container" ng-controller='FirstCtrl'>           
              <table class="table table-bordered table-downloads">
                <thead>
                  <tr>
                    <th>Select</th>
                    <th>File name</th>
                    <th>Downloads</th>
                  </tr>
                </thead>
                <tbody>
                  <tr ng-repeat = 'tableData in tableDatas'>
                    <td>
                        <div class="checkbox">
                          <input type="checkbox" name="{{tableData.name}}" id="{{tableData.name}}" value="{{tableData.name}}" ng-model= 'tableData.checked' ng-change="selected()">
                        </div>
                    </td>
                    <td>{{tableData.fileName}}</td>
                    <td>
                        <a target="_self" id="download-{{tableData.name}}" ng-href="{{tableData.filePath}}" class="btn btn-success pull-right downloadable" download>download</a>
                    </td>
                  </tr>              
                </tbody>
              </table>
                <a class="btn btn-success pull-right" ng-click='downloadAll()'>download selected</a>
                <p>{{selectedone}}</p>
            </div>
            <script src="https://ajax.googleapis.com/ajax/libs/jquery/1.12.0/jquery.min.js"></script>
            <script src="https://ajax.googleapis.com/ajax/libs/angularjs/1.4.8/angular.min.js"></script>
            <script src="script.js"></script>
        </body>
    </html>
app.js
var app = angular.module('app', []);            
app.controller('FirstCtrl', ['$scope','$http', '$filter', function($scope, $http, $filter){
$scope.tableDatas = [
    {name: 'value1', fileName:'file1', filePath: 'data/file1.txt', selected: true},
    {name: 'value2', fileName:'file2', filePath: 'data/file2.txt', selected: true},
    {name: 'value3', fileName:'file3', filePath: 'data/file3.txt', selected: false},
    {name: 'value4', fileName:'file4', filePath: 'data/file4.txt', selected: true},
    {name: 'value5', fileName:'file5', filePath: 'data/file5.txt', selected: true},
    {name: 'value6', fileName:'file6', filePath: 'data/file6.txt', selected: false},
  ];  
$scope.application = [];   
$scope.selected = function() {
    $scope.application = $filter('filter')($scope.tableDatas, {
      checked: true
    });
}
$scope.downloadAll = function(){
    $scope.selectedone = [];     
    angular.forEach($scope.application,function(val){
       $scope.selectedone.push(val.name);
       $scope.id = val.name;        
       angular.element('#'+val.name).closest('tr').find('.downloadable')[0].click();
    });
}         
}]);
working example: https://plnkr.co/edit/XynXRS7c742JPfCA3IpE?p=preview