Changed trait page tables to load JSON

Also fixed such that sorting works with user-updated values

8 files changed, 1370 insertions, 1361 deletions

diff --git a/wqflask/wqflask/show_trait/show_trait.py b/wqflask/wqflask/show_trait/show_trait.py
index 2955f69a..0d1ed345 100644
--- a/wqflask/wqflask/show_trait/show_trait.py
+++ b/wqflask/wqflask/show_trait/show_trait.py
@@ -168,6 +168,7 @@ class ShowTrait(object):
         hddn['maf'] = 0.01
         hddn['compare_traits'] = []
         hddn['export_data'] = ""
+        hddn['export_format'] = "excel"
 
         # We'll need access to this_trait and hddn in the Jinja2 Template, so we put it inside self
         self.hddn = hddn
@@ -224,6 +225,7 @@ class ShowTrait(object):
                        sample_lists = sample_lists,
                        attribute_names = self.sample_groups[0].attributes,
                        num_values = self.num_values,
+                       qnorm_values = self.qnorm_vals,
                        sample_column_width = sample_column_width,
                        temp_uuid = self.temp_uuid)
         self.js_data = js_data
diff --git a/wqflask/wqflask/static/new/javascript/show_trait.js b/wqflask/wqflask/static/new/javascript/show_trait.js
index 2f846642..74706f98 100644
--- a/wqflask/wqflask/static/new/javascript/show_trait.js
+++ b/wqflask/wqflask/static/new/javascript/show_trait.js
@@ -1,1195 +1,1194 @@
-// Generated by CoffeeScript 1.8.0
-(function() {
-  var Stat_Table_Rows, is_number,
-    __hasProp = {}.hasOwnProperty,
-    __slice = [].slice;
-
-  console.log("start_b");
-
-  is_number = function(o) {
-    return !isNaN((o - 0) && o !== null);
+var Stat_Table_Rows, is_number,
+  __hasProp = {}.hasOwnProperty,
+  __slice = [].slice;
+
+console.log("start_b");
+
+is_number = function(o) {
+  return !isNaN((o - 0) && o !== null);
+};
+
+Stat_Table_Rows = [
+  {
+    vn: "n_of_samples",
+    pretty: "N of Samples",
+    digits: 0
+  }, {
+    vn: "mean",
+    pretty: "Mean",
+    digits: 3
+  }, {
+    vn: "median",
+    pretty: "Median",
+    digits: 3
+  }, {
+    vn: "std_error",
+    pretty: "Standard Error (SE)",
+    digits: 3
+  }, {
+    vn: "std_dev",
+    pretty: "Standard Deviation (SD)",
+    digits: 3
+  }, {
+    vn: "min",
+    pretty: "Minimum",
+    digits: 2
+  }, {
+    vn: "max",
+    pretty: "Maximum",
+    digits: 2
+  }, {
+    vn: "range",
+    pretty: "Range (log2)",
+    digits: 3
+  }, {
+    vn: "range_fold",
+    pretty: "Range (fold)",
+    digits: 3
+  }, {
+    vn: "interquartile",
+    pretty: "Interquartile Range",
+    url: "http://www.genenetwork.org/glossary.html#Interquartile",
+    digits: 3
+  }, {
+    vn: "skewness",
+    pretty: "Skewness",
+    digits: 3
+  }, {
+    vn: "kurtosis",
+    pretty: "Kurtosis",
+    digits: 3
+  }
+];
+
+var add, block_by_attribute_value, block_by_index, block_outliers, change_stats_value, create_value_dropdown, edit_data_change, export_sample_table_data, get_sample_table_data, hide_no_value, hide_tabs, make_table, on_corr_method_change, open_trait_selection, populate_sample_attributes_values_dropdown, process_id, redraw_bar_chart, redraw_histogram, redraw_prob_plot, reset_samples_table, sample_group_types, sample_lists, show_hide_outliers, stats_mdp_change, update_stat_values;
+add = function() {
+  var trait;
+  trait = $("input[name=trait_hmac]").val();
+  console.log("trait is:", trait);
+  return $.colorbox({
+    href: "/collections/add?traits=" + trait
+  });
+};
+$('#add_to_collection').click(add);
+sample_lists = js_data.sample_lists;
+sample_group_types = js_data.sample_group_types;
+d3.select("#select_compare_trait").on("click", (function(_this) {
+  return function() {
+    $('.scatter-matrix-container').remove();
+    return open_trait_selection();
   };
-
-  Stat_Table_Rows = [
-    {
-      vn: "n_of_samples",
-      pretty: "N of Samples",
-      digits: 0
-    }, {
-      vn: "mean",
-      pretty: "Mean",
-      digits: 3
-    }, {
-      vn: "median",
-      pretty: "Median",
-      digits: 3
-    }, {
-      vn: "std_error",
-      pretty: "Standard Error (SE)",
-      digits: 3
-    }, {
-      vn: "std_dev",
-      pretty: "Standard Deviation (SD)",
-      digits: 3
-    }, {
-      vn: "min",
-      pretty: "Minimum",
-      digits: 2
-    }, {
-      vn: "max",
-      pretty: "Maximum",
-      digits: 2
-    }, {
-      vn: "range",
-      pretty: "Range (log2)",
-      digits: 3
-    }, {
-      vn: "range_fold",
-      pretty: "Range (fold)",
-      digits: 3
-    }, {
-      vn: "interquartile",
-      pretty: "Interquartile Range",
-      url: "http://www.genenetwork.org/glossary.html#Interquartile",
-      digits: 3
-    }, {
-      vn: "skewness",
-      pretty: "Skewness",
-      digits: 3
-    }, {
-      vn: "kurtosis",
-      pretty: "Kurtosis",
-      digits: 3
-    }
-  ];
-
-  $(function() {
-    var add, block_by_attribute_value, block_by_index, block_outliers, change_stats_value, create_value_dropdown, edit_data_change, export_sample_table_data, get_sample_table_data, hide_no_value, hide_tabs, make_table, on_corr_method_change, open_trait_selection, populate_sample_attributes_values_dropdown, process_id, redraw_bar_chart, redraw_histogram, redraw_prob_plot, reset_samples_table, sample_group_types, sample_lists, show_hide_outliers, stats_mdp_change, update_stat_values;
-    add = function() {
-      var trait;
-      trait = $("input[name=trait_hmac]").val();
-      console.log("trait is:", trait);
-      return $.colorbox({
-        href: "/collections/add?traits=" + trait
+})(this));
+d3.select("#select_covariates").on("click", (function(_this) {
+  return function() {
+    return open_covariate_selection();
+  };
+})(this));
+$("#remove_covariates").click(function () {
+    $("input[name=covariates]").val("")
+    $(".selected_covariates").val("")
+});
+d3.select("#clear_compare_trait").on("click", (function(_this) {
+  return function() {
+    return $('.scatter-matrix-container').remove();
+  };
+})(this));
+open_trait_selection = function() {
+  return $('#collections_holder').load('/collections/list?color_by_trait #collections_list', (function(_this) {
+    return function() {
+      $.colorbox({
+        inline: true,
+        href: "#collections_holder",
+        onComplete: function(){
+            console.log("before get script")
+            $.getScript("/static/new/javascript/get_traits_from_collection.js");
+            console.log("after get script")
+        }
       });
+      return $('a.collection_name').attr('onClick', 'return false');
     };
-    $('#add_to_collection').click(add);
-    sample_lists = js_data.sample_lists;
-    sample_group_types = js_data.sample_group_types;
-    d3.select("#select_compare_trait").on("click", (function(_this) {
-      return function() {
-        $('.scatter-matrix-container').remove();
-        return open_trait_selection();
-      };
-    })(this));
-    d3.select("#select_covariates").on("click", (function(_this) {
-      return function() {
-        return open_covariate_selection();
-      };
-    })(this));
-    $("#remove_covariates").click(function () {
-        $("input[name=covariates]").val("")
-        $(".selected_covariates").val("")
-    });
-    d3.select("#clear_compare_trait").on("click", (function(_this) {
-      return function() {
-        return $('.scatter-matrix-container').remove();
-      };
-    })(this));
-    open_trait_selection = function() {
-      return $('#collections_holder').load('/collections/list?color_by_trait #collections_list', (function(_this) {
-        return function() {
-          $.colorbox({
-            inline: true,
-            href: "#collections_holder",
-            onComplete: function(){
-                console.log("before get script")
-                $.getScript("/static/new/javascript/get_traits_from_collection.js");
-                console.log("after get script")
-            }
-          });
-          return $('a.collection_name').attr('onClick', 'return false');
-        };
-      })(this));
-    };
-    open_covariate_selection = function() {
-      return $('#collections_holder').load('/collections/list #collections_list', (function(_this) {
-        return function() {
-          $.colorbox({
-            inline: true,
-            href: "#collections_holder",
-            onComplete: function(){
-                console.log("before get cov script")
-                $.getScript("/static/new/javascript/get_covariates_from_collection.js");
-                console.log("after get cov script")
-            }
-          });
-          return $('a.collection_name').attr('onClick', 'return false');
-        };
-      })(this));
-    };
-    hide_tabs = function(start) {
-      var x, _i, _results;
-      _results = [];
-      for (x = _i = start; start <= 10 ? _i <= 10 : _i >= 10; x = start <= 10 ? ++_i : --_i) {
-        _results.push($("#stats_tabs" + x).hide());
-      }
-      return _results;
-    };
-    stats_mdp_change = function() {
-      var selected;
-      selected = $(this).val();
-      hide_tabs(0);
-      return $("#stats_tabs" + selected).show();
-    };
-    change_stats_value = function(sample_sets, category, value_type, decimal_places, effects) {
-      var current_value, id, in_box, the_value, title_value;
-      id = "#" + process_id(category, value_type);
-      console.log("the_id:", id);
-      in_box = $(id).html;
-      current_value = parseFloat($(in_box)).toFixed(decimal_places);
-      the_value = sample_sets[category][value_type]();
-      console.log("After running sample_sets, the_value is:", the_value);
-      if (decimal_places > 0) {
-        title_value = the_value.toFixed(decimal_places * 2);
-        the_value = the_value.toFixed(decimal_places);
-      } else {
-        title_value = null;
-      }
-      console.log("*-* the_value:", the_value);
-      console.log("*-* current_value:", current_value);
-      if (the_value !== current_value) {
-        console.log("object:", $(id).html(the_value));
-        if (effects) {
-          $(id).html(the_value).effect("highlight");
-        } else {
-          $(id).html(the_value);
+  })(this));
+};
+open_covariate_selection = function() {
+  return $('#collections_holder').load('/collections/list #collections_list', (function(_this) {
+    return function() {
+      $.colorbox({
+        inline: true,
+        href: "#collections_holder",
+        onComplete: function(){
+            console.log("before get cov script")
+            $.getScript("/static/new/javascript/get_covariates_from_collection.js");
+            console.log("after get cov script")
         }
-      }
-      if (title_value) {
-        return $(id).attr('title', title_value);
-      }
+      });
+      return $('a.collection_name').attr('onClick', 'return false');
     };
-    update_stat_values = function(sample_sets) {
-      var category, row, show_effects, _i, _len, _ref, _results;
-      show_effects = $(".tab-pane.active").attr("id") === "stats_tab";
-      _ref = ['samples_primary', 'samples_other', 'samples_all'];
-      _results = [];
-      for (_i = 0, _len = _ref.length; _i < _len; _i++) {
-        category = _ref[_i];
-        _results.push((function() {
-          var _j, _len1, _results1;
-          _results1 = [];
-          for (_j = 0, _len1 = Stat_Table_Rows.length; _j < _len1; _j++) {
-            row = Stat_Table_Rows[_j];
-            console.log("Calling change_stats_value");
-            _results1.push(change_stats_value(sample_sets, category, row.vn, row.digits, show_effects));
-          }
-          return _results1;
-        })());
+  })(this));
+};
+hide_tabs = function(start) {
+  var x, _i, _results;
+  _results = [];
+  for (x = _i = start; start <= 10 ? _i <= 10 : _i >= 10; x = start <= 10 ? ++_i : --_i) {
+    _results.push($("#stats_tabs" + x).hide());
+  }
+  return _results;
+};
+stats_mdp_change = function() {
+  var selected;
+  selected = $(this).val();
+  hide_tabs(0);
+  return $("#stats_tabs" + selected).show();
+};
+change_stats_value = function(sample_sets, category, value_type, decimal_places, effects) {
+  var current_value, id, in_box, the_value, title_value;
+  id = "#" + process_id(category, value_type);
+  console.log("the_id:", id);
+  in_box = $(id).html;
+  current_value = parseFloat($(in_box)).toFixed(decimal_places);
+  the_value = sample_sets[category][value_type]();
+  console.log("After running sample_sets, the_value is:", the_value);
+  if (decimal_places > 0) {
+    title_value = the_value.toFixed(decimal_places * 2);
+    the_value = the_value.toFixed(decimal_places);
+  } else {
+    title_value = null;
+  }
+  console.log("*-* the_value:", the_value);
+  console.log("*-* current_value:", current_value);
+  if (the_value !== current_value) {
+    console.log("object:", $(id).html(the_value));
+    if (effects) {
+      $(id).html(the_value).effect("highlight");
+    } else {
+      $(id).html(the_value);
+    }
+  }
+  if (title_value) {
+    return $(id).attr('title', title_value);
+  }
+};
+update_stat_values = function(sample_sets) {
+  var category, row, show_effects, _i, _len, _ref, _results;
+  show_effects = $(".tab-pane.active").attr("id") === "stats_tab";
+  _ref = ['samples_primary', 'samples_other', 'samples_all'];
+  _results = [];
+  for (_i = 0, _len = _ref.length; _i < _len; _i++) {
+    category = _ref[_i];
+    _results.push((function() {
+      var _j, _len1, _results1;
+      _results1 = [];
+      for (_j = 0, _len1 = Stat_Table_Rows.length; _j < _len1; _j++) {
+        row = Stat_Table_Rows[_j];
+        console.log("Calling change_stats_value");
+        _results1.push(change_stats_value(sample_sets, category, row.vn, row.digits, show_effects));
       }
-      return _results;
-    };
-
-    update_histogram_width = function() {
-      num_bins = $('#histogram').find('g.trace.bars').find('g.point').length
+      return _results1;
+    })());
+  }
+  return _results;
+};
 
-      if (num_bins < 10) {
-        width_update = {
-          width: 400
-        }
+update_histogram_width = function() {
+  num_bins = $('#histogram').find('g.trace.bars').find('g.point').length
 
-        Plotly.relayout('histogram', width_update)
-      }
+  if (num_bins < 10) {
+    width_update = {
+      width: 400
     }
 
-    redraw_histogram = function() {
-      var x;
-      var _i, _len, _ref, data;
-      _ref = _.values(root.selected_samples[root.stats_group]);
-      var trait_vals = [];
-      for (_i = 0, _len = _ref.length; _i < _len; _i++) {
-        x = _ref[_i];
-        trait_vals.push(x.value);
-      }
-      Plotly.restyle('histogram', 'x', [trait_vals])
-
-      update_histogram_width()
-    };
-
-    redraw_bar_chart = function() {
-      var x;
-      var _i, _len, _ref, data;
-      _ref = _.values(root.selected_samples[root.stats_group]);
-      names_and_values = []
-      for (i = 0; i < _ref.length; i++){
-          _ref[i]["name"] = Object.keys(root.selected_samples[root.stats_group])[i]
-      }
-      trait_vals = [];
-      trait_vars = [];
-      trait_samples = [];
+    Plotly.relayout('histogram', width_update)
+  }
+}
+
+redraw_histogram = function() {
+  var x;
+  var _i, _len, _ref, data;
+  _ref = _.values(root.selected_samples[root.stats_group]);
+  var trait_vals = [];
+  for (_i = 0, _len = _ref.length; _i < _len; _i++) {
+    x = _ref[_i];
+    trait_vals.push(x.value);
+  }
+  Plotly.restyle('histogram', 'x', [trait_vals])
+
+  update_histogram_width()
+};
+
+redraw_bar_chart = function() {
+  var x;
+  var _i, _len, _ref, data;
+  _ref = _.values(root.selected_samples[root.stats_group]);
+  names_and_values = []
+  for (i = 0; i < _ref.length; i++){
+      _ref[i]["name"] = Object.keys(root.selected_samples[root.stats_group])[i]
+  }
+  trait_vals = [];
+  trait_vars = [];
+  trait_samples = [];
 
-      function sortFunction(a, b) {
-        if (a.value === b.value) {
-          return 0;
-        }
-        else {
-          return (a.value < b.value) ? -1 : 1;
-        }
-      }
+  function sortFunction(a, b) {
+    if (a.value === b.value) {
+      return 0;
+    }
+    else {
+      return (a.value < b.value) ? -1 : 1;
+    }
+  }
 
-      if (root.bar_sort == "value") {
-        _ref.sort(sortFunction)
-      }
+  if (root.bar_sort == "value") {
+    _ref.sort(sortFunction)
+  }
 
-      for (_i = 0, _len = _ref.length; _i < _len; _i++) {
-        x = _ref[_i];
-        trait_samples.push(x.name)
-        trait_vals.push(x.value);
-        if (x["variance"] != undefined) {
-          trait_vars.push(x.variance);
-        } else{
-          trait_vars.push(null)
-        }
-      }
+  for (_i = 0, _len = _ref.length; _i < _len; _i++) {
+    x = _ref[_i];
+    trait_samples.push(x.name)
+    trait_vals.push(x.value);
+    if (x["variance"] != undefined) {
+      trait_vars.push(x.variance);
+    } else{
+      trait_vars.push(null)
+    }
+  }
 
-      root.bar_data[0]['y'] = trait_vals
-      root.bar_data[0]['error_y'] = {
-        type: 'data',
-        array: trait_vars,
-        visible: root.errors_exist
-      }
-      root.bar_data[0]['x'] = trait_samples
-      if (trait_vals.length < 256) {
-        Plotly.newPlot('bar_chart', root.bar_data, root.bar_layout);
-      }
-    };
+  root.bar_data[0]['y'] = trait_vals
+  root.bar_data[0]['error_y'] = {
+    type: 'data',
+    array: trait_vars,
+    visible: root.errors_exist
+  }
+  root.bar_data[0]['x'] = trait_samples
+  if (trait_vals.length < 256) {
+    Plotly.newPlot('bar_chart', root.bar_data, root.bar_layout);
+  }
+};
+
+redraw_box_plot = function() {
+  var y_value_list = []
+  for (var sample_group in root.selected_samples){
+    var trait_sample_data = _.values(root.selected_samples[sample_group])
+    var trait_vals = [];
+    for (i = 0, len = trait_sample_data.length; i < len; i++) {
+      this_sample_data = trait_sample_data[i];
+      trait_vals.push(this_sample_data.value);
+    }
+    y_value_list.push(trait_vals)
+  }
 
-    redraw_box_plot = function() {
-      var y_value_list = []
-      for (var sample_group in root.selected_samples){
-        var trait_sample_data = _.values(root.selected_samples[sample_group])
-        var trait_vals = [];
-        for (i = 0, len = trait_sample_data.length; i < len; i++) {
-          this_sample_data = trait_sample_data[i];
-          trait_vals.push(this_sample_data.value);
-        }
-        y_value_list.push(trait_vals)
+  if (Object.keys(js_data.sample_group_types).length > 1) {
+      var update = {
+        y: y_value_list
       }
-
-      if (Object.keys(js_data.sample_group_types).length > 1) {
-          var update = {
-            y: y_value_list
-          }
-          Plotly.restyle('box_plot', update, [0, 1, 2])
-      } else {
-          var update = {
-            y: y_value_list
-          }
-          Plotly.restyle('box_plot', update)
+      Plotly.restyle('box_plot', update, [0, 1, 2])
+  } else {
+      var update = {
+        y: y_value_list
       }
+      Plotly.restyle('box_plot', update)
+  }
+}
+
+redraw_violin_plot = function() {
+  var y_value_list = []
+  for (var sample_group in root.selected_samples){
+    var trait_sample_data = _.values(root.selected_samples[sample_group])
+    var trait_vals = [];
+    for (i = 0, len = trait_sample_data.length; i < len; i++) {
+      this_sample_data = trait_sample_data[i];
+      trait_vals.push(this_sample_data.value);
     }
+    y_value_list.push(trait_vals)
+  }
 
-    redraw_violin_plot = function() {
-      var y_value_list = []
-      for (var sample_group in root.selected_samples){
-        var trait_sample_data = _.values(root.selected_samples[sample_group])
-        var trait_vals = [];
-        for (i = 0, len = trait_sample_data.length; i < len; i++) {
-          this_sample_data = trait_sample_data[i];
-          trait_vals.push(this_sample_data.value);
-        }
-        y_value_list.push(trait_vals)
-      }
-
-    }
+}
 
 
-    redraw_prob_plot = function() {
-      return root.redraw_prob_plot_impl(root.selected_samples, root.prob_plot_group);
-    };
+redraw_prob_plot = function() {
+  return root.redraw_prob_plot_impl(root.selected_samples, root.prob_plot_group);
+};
 
-    make_table = function() {
-      var header, key, row, row_line, table, the_id, the_rows, value, _i, _len, _ref, _ref1;
-      header = "<thead><tr><th style=\"text-align: right; padding-left: 5px;\">Statistic</th>";
-      _ref = js_data.sample_group_types;
-      for (key in _ref) {
-        if (!__hasProp.call(_ref, key)) continue;
-        value = _ref[key];
-        the_id = process_id("column", key);
-        if (Object.keys(_ref).length > 1) {
-            header += "<th id=\"" + the_id + "\" style=\"text-align: right; padding-left: 5px;\">" + value + "</th>";
-        } else {
-            header += "<th id=\"" + the_id + "\" style=\"text-align: right; padding-left: 5px;\">Value</th>";
-        }
-      }
+make_table = function() {
+  var header, key, row, row_line, table, the_id, the_rows, value, _i, _len, _ref, _ref1;
+  header = "<thead><tr><th style=\"text-align: right; padding-left: 5px;\">Statistic</th>";
+  _ref = js_data.sample_group_types;
+  for (key in _ref) {
+    if (!__hasProp.call(_ref, key)) continue;
+    value = _ref[key];
+    the_id = process_id("column", key);
+    if (Object.keys(_ref).length > 1) {
+        header += "<th id=\"" + the_id + "\" style=\"text-align: right; padding-left: 5px;\">" + value + "</th>";
+    } else {
+        header += "<th id=\"" + the_id + "\" style=\"text-align: right; padding-left: 5px;\">Value</th>";
+    }
+  }
 
-      header += "</thead>";
-      the_rows = "<tbody>";
-      for (_i = 0, _len = Stat_Table_Rows.length; _i < _len; _i++) {
-        row = Stat_Table_Rows[_i];
-        if ((row.vn == "range_fold" || row.vn == "range") && js_data.dataset_type == "Publish"){
-            continue;
-        }
-        row_line = "<tr>";
-        if (row.url != null) {
-          row_line += "<td id=\"" + row.vn + "\" align=\"right\"><a href=\"" + row.url + "\" style=\"color: #000000;\">" + row.pretty + "</a></td>";
+  header += "</thead>";
+  the_rows = "<tbody>";
+  for (_i = 0, _len = Stat_Table_Rows.length; _i < _len; _i++) {
+    row = Stat_Table_Rows[_i];
+    if ((row.vn == "range_fold" || row.vn == "range") && js_data.dataset_type == "Publish"){
+        continue;
+    }
+    row_line = "<tr>";
+    if (row.url != null) {
+      row_line += "<td id=\"" + row.vn + "\" align=\"right\"><a href=\"" + row.url + "\" style=\"color: #000000;\">" + row.pretty + "</a></td>";
+    } else {
+      row_line += "<td id=\"" + row.vn + "\" align=\"right\">" + row.pretty + "</td>";
+    }
+    _ref1 = js_data.sample_group_types;
+    for (key in _ref1) {
+      if (!__hasProp.call(_ref1, key)) continue;
+      value = _ref1[key];
+      the_id = process_id(key, row.vn);
+      row_line += "<td id=\"" + the_id + "\" align=\"right\">N/A</td>";
+    }
+    row_line += "</tr>";
+    the_rows += row_line;
+  }
+  the_rows += "</tbody>";
+  table = header + the_rows;
+  return $("#stats_table").append(table);
+};
+process_id = function() {
+  var processed, value, values, _i, _len;
+  values = 1 <= arguments.length ? __slice.call(arguments, 0) : [];
+
+  /* Make an id or a class valid javascript by, for example, eliminating spaces */
+  processed = "";
+  for (_i = 0, _len = values.length; _i < _len; _i++) {
+    value = values[_i];
+    console.log("value:", value);
+    value = value.replace(" ", "_");
+    if (processed.length) {
+      processed += "-";
+    }
+    processed += value;
+  }
+  return processed;
+};
+edit_data_change = function() {
+  var already_seen, checkbox, checked, name, real_dict, real_value, real_variance, row, rows, sample_sets, table, tables, _i, _j, _len, _len1;
+  already_seen = {};
+  sample_sets = {
+    samples_primary: new Stats([]),
+    samples_other: new Stats([]),
+    samples_all: new Stats([])
+  };
+  root.selected_samples = {
+    samples_primary: {},
+    samples_other: {},
+    samples_all: {}
+  };
+  console.log("at beginning:", sample_sets);
+  tables = ['samples_primary', 'samples_other'];
+  for (_i = 0, _len = tables.length; _i < _len; _i++) {
+    table = tables[_i];
+    rows = $("#" + table).find('tr');
+    for (_j = 0, _len1 = rows.length; _j < _len1; _j++) {
+      row = rows[_j];
+      name = $(row).find('.edit_sample_sample_name').html();
+      name = $.trim(name);
+      real_value = $(row).find('.edit_sample_value').val();
+      checkbox = $(row).find(".edit_sample_checkbox");
+      checked = $(checkbox).prop('checked');
+      if (checked && is_number(real_value) && real_value !== "") {
+        real_value = parseFloat(real_value);
+        sample_sets[table].add_value(real_value);
+        real_variance = $(row).find('.edit_sample_se').val();
+        if (is_number(real_variance)) {
+          real_variance = parseFloat(real_variance);
         } else {
-          row_line += "<td id=\"" + row.vn + "\" align=\"right\">" + row.pretty + "</td>";
+          real_variance = null;
         }
-        _ref1 = js_data.sample_group_types;
-        for (key in _ref1) {
-          if (!__hasProp.call(_ref1, key)) continue;
-          value = _ref1[key];
-          the_id = process_id(key, row.vn);
-          row_line += "<td id=\"" + the_id + "\" align=\"right\">N/A</td>";
+        real_dict = {
+          value: real_value,
+          variance: real_variance
+        };
+        root.selected_samples[table][name] = real_dict;
+        if (!(name in already_seen)) {
+          sample_sets['samples_all'].add_value(real_value);
+          root.selected_samples['samples_all'][name] = real_dict;
+          already_seen[name] = true;
         }
-        row_line += "</tr>";
-        the_rows += row_line;
       }
-      the_rows += "</tbody>";
-      table = header + the_rows;
-      return $("#stats_table").append(table);
-    };
-    process_id = function() {
-      var processed, value, values, _i, _len;
-      values = 1 <= arguments.length ? __slice.call(arguments, 0) : [];
-
-      /* Make an id or a class valid javascript by, for example, eliminating spaces */
-      processed = "";
-      for (_i = 0, _len = values.length; _i < _len; _i++) {
-        value = values[_i];
-        console.log("value:", value);
-        value = value.replace(" ", "_");
-        if (processed.length) {
-          processed += "-";
-        }
-        processed += value;
+    }
+  }
+  console.log("towards end:", sample_sets);
+  update_stat_values(sample_sets);
+
+  if ($('#histogram').hasClass('js-plotly-plot')){
+    console.log("redrawing histogram");
+    redraw_histogram();
+  }
+  if ($('#bar_chart').hasClass('js-plotly-plot')){
+    console.log("redrawing bar chart");
+    redraw_bar_chart();
+  }
+  if ($('#box_plot').hasClass('js-plotly-plot')){
+    console.log("redrawing box plot");
+    redraw_box_plot();
+  }
+  if ($('#violin_plot').hasClass('js-plotly-plot')){
+    console.log("redrawing violin plot");
+    redraw_violin_plot();
+  }
+  if ($('#prob_plot_div').hasClass('js-plotly-plot')){
+    console.log("redrawing probability plot");
+    return redraw_prob_plot();
+  }
+};
+show_hide_outliers = function() {
+  var label;
+  console.log("FOOBAR in beginning of show_hide_outliers");
+  label = $('#show_hide_outliers').val();
+  console.log("lable is:", label);
+  if (label === "Hide Outliers") {
+    return $('#show_hide_outliers').val("Show Outliers");
+  } else if (label === "Show Outliers") {
+    console.log("Found Show Outliers");
+    $('#show_hide_outliers').val("Hide Outliers");
+    return console.log("Should be now Hide Outliers");
+  }
+};
+on_corr_method_change = function() {
+  var corr_method;
+  corr_method = $('select[name=corr_type]').val();
+  console.log("corr_method is:", corr_method);
+  $('.correlation_desc').hide();
+  $('#' + corr_method + "_r_desc").show().effect("highlight");
+  if (corr_method === "lit") {
+    return $("#corr_sample_method").hide();
+  } else {
+    return $("#corr_sample_method").show();
+  }
+};
+$('select[name=corr_type]').change(on_corr_method_change);
+
+submit_special = function(url) {
+  $("#trait_data_form").attr("action", url);
+  return $("#trait_data_form").submit();
+};
+
+submit_corr = function(){
+    var url;
+    url = "/corr_compute";
+    return submit_special(url);
+};
+
+$(".corr_compute").on("click", (function(_this) {
+  return function() {
+    var url;
+    url = "/corr_compute";
+    return submit_special(url);
+  };
+})(this));
+
+create_value_dropdown = function(value) {
+  return "<option val=" + value + ">" + value + "</option>";
+};
+populate_sample_attributes_values_dropdown = function() {
+  var attribute_info, key, sample_attributes, selected_attribute, value, _i, _len, _ref, _ref1, _results;
+  console.log("in beginning of psavd");
+  $('#attribute_values').empty();
+  sample_attributes = {};
+  _ref = js_data.attribute_names;
+  for (key in _ref) {
+    if (!__hasProp.call(_ref, key)) continue;
+    attribute_info = _ref[key];
+    sample_attributes[attribute_info.name] = attribute_info.distinct_values;
+  }
+  console.log("[visa] attributes is:", sample_attributes);
+  selected_attribute = $('#exclude_menu').val().replace("_", " ");
+  console.log("selected_attribute is:", selected_attribute);
+  _ref1 = sample_attributes[selected_attribute];
+  _results = [];
+  for (_i = 0, _len = _ref1.length; _i < _len; _i++) {
+    value = _ref1[_i];
+    _results.push($(create_value_dropdown(value)).appendTo($('#attribute_values')));
+  }
+  return _results;
+};
+if (js_data.attribute_names.length > 0) {
+  populate_sample_attributes_values_dropdown();
+}
+$('#exclude_menu').change(populate_sample_attributes_values_dropdown);
+block_by_attribute_value = function() {
+  var attribute_name, cell_class, exclude_by_value;
+  attribute_name = $('#exclude_menu').val();
+  exclude_by_value = $('#attribute_values').val();
+  cell_class = ".column_name-" + attribute_name;
+  return $(cell_class).each((function(_this) {
+    return function(index, element) {
+      var row;
+      if ($.trim($(element).text()) === exclude_by_value) {
+        row = $(element).parent('tr');
+        return $(row).find(".trait_value_input").val("x");
       }
-      return processed;
     };
-    edit_data_change = function() {
-      var already_seen, checkbox, checked, name, real_dict, real_value, real_variance, row, rows, sample_sets, table, tables, _i, _j, _len, _len1;
-      already_seen = {};
-      sample_sets = {
-        samples_primary: new Stats([]),
-        samples_other: new Stats([]),
-        samples_all: new Stats([])
-      };
-      root.selected_samples = {
-        samples_primary: {},
-        samples_other: {},
-        samples_all: {}
-      };
-      console.log("at beginning:", sample_sets);
-      tables = ['samples_primary', 'samples_other'];
-      for (_i = 0, _len = tables.length; _i < _len; _i++) {
-        table = tables[_i];
-        rows = $("#" + table).find('tr');
-        for (_j = 0, _len1 = rows.length; _j < _len1; _j++) {
-          row = rows[_j];
-          name = $(row).find('.edit_sample_sample_name').html();
-          name = $.trim(name);
-          real_value = $(row).find('.edit_sample_value').val();
-          checkbox = $(row).find(".edit_sample_checkbox");
-          checked = $(checkbox).prop('checked');
-          if (checked && is_number(real_value) && real_value !== "") {
-            real_value = parseFloat(real_value);
-            sample_sets[table].add_value(real_value);
-            real_variance = $(row).find('.edit_sample_se').val();
-            if (is_number(real_variance)) {
-              real_variance = parseFloat(real_variance);
-            } else {
-              real_variance = null;
-            }
-            real_dict = {
-              value: real_value,
-              variance: real_variance
-            };
-            root.selected_samples[table][name] = real_dict;
-            if (!(name in already_seen)) {
-              sample_sets['samples_all'].add_value(real_value);
-              root.selected_samples['samples_all'][name] = real_dict;
-              already_seen[name] = true;
-            }
-          }
+  })(this));
+};
+$('#exclude_group').click(block_by_attribute_value);
+block_by_index = function() {
+  var end_index, error, index, index_list, index_set, index_string, start_index, _i, _j, _k, _len, _len1, _ref, _results;
+  index_string = $('#remove_samples_field').val();
+  index_list = [];
+  _ref = index_string.split(",");
+  for (_i = 0, _len = _ref.length; _i < _len; _i++) {
+    index_set = _ref[_i];
+    if (index_set.indexOf('-') !== -1) {
+      try {
+        start_index = parseInt(index_set.split("-")[0]);
+        end_index = parseInt(index_set.split("-")[1]);
+        for (index = _j = start_index; start_index <= end_index ? _j <= end_index : _j >= end_index; index = start_index <= end_index ? ++_j : --_j) {
+          index_list.push(index);
         }
+      } catch (_error) {
+        error = _error;
+        alert("Syntax error");
       }
-      console.log("towards end:", sample_sets);
-      update_stat_values(sample_sets);
-
-      if ($('#histogram').hasClass('js-plotly-plot')){
-        console.log("redrawing histogram");
-        redraw_histogram();
-      }
-      if ($('#bar_chart').hasClass('js-plotly-plot')){
-        console.log("redrawing bar chart");
-        redraw_bar_chart();
-      }
-      if ($('#box_plot').hasClass('js-plotly-plot')){
-        console.log("redrawing box plot");
-        redraw_box_plot();
-      }
-      if ($('#violin_plot').hasClass('js-plotly-plot')){
-        console.log("redrawing violin plot");
-        redraw_violin_plot();
+    } else {
+      index = parseInt(index_set);
+      console.log("index:", index);
+      index_list.push(index);
+    }
+  }
+  console.log("index_list:", index_list);
+  _results = [];
+  for (_k = 0, _len1 = index_list.length; _k < _len1; _k++) {
+    index = index_list[_k];
+    if ($('#block_group').val() === "primary") {
+      console.log("block_group:", $('#block_group').val());
+      console.log("row:", $('#Primary_' + index.toString()));
+      _results.push($('#Primary_' + index.toString()).find('.trait_value_input').val("x"));
+    } else if ($('#block_group').val() === "other") {
+      console.log("block_group:", $('#block_group').val());
+      console.log("row:", $('#Other_' + index.toString()));
+      _results.push($('#Other_' + index.toString()).find('.trait_value_input').val("x"));
+    } else {
+      _results.push(void 0);
+    }
+  }
+  return _results;
+};
+$('#block_by_index').click(block_by_index);
+hide_no_value = function() {
+  return $('.value_se').each((function(_this) {
+    return function(_index, element) {
+      if ($(element).find('.trait_value_input').val() === 'x') {
+        return $(element).hide();
       }
-      if ($('#prob_plot_div').hasClass('js-plotly-plot')){
-        console.log("redrawing probability plot");
-        return redraw_prob_plot();
+    };
+  })(this));
+};
+$('#hide_no_value').click(hide_no_value);
+block_outliers = function() {
+  return $('.outlier').each((function(_this) {
+    return function(_index, element) {
+      return $(element).find('.trait_value_input').val('x');
+    };
+  })(this));
+};
+$('#block_outliers').click(block_outliers);
+reset_samples_table = function() {
+  $('input[name="transform"]').val("");
+  return $('.trait_value_input').each((function(_this) {
+    return function(_index, element) {
+      console.log("value is:", $(element).val());
+      $(element).val($(element).data('value'));
+      console.log("data-value is:", $(element).data('value'));
+      return $(element).parents('.value_se').show();
+    };
+  })(this));
+};
+$('.reset').click(reset_samples_table);
+
+log_normalize_data = function() {
+  return $('.trait_value_input').each((function(_this) {
+    return function(_index, element) {
+      current_value = parseFloat($(element).data("value")) + 1;
+      if(isNaN(current_value)) {
+        return current_value
+      } else {
+        $(element).val(Math.log2(current_value).toFixed(3));
+        return Math.log2(current_value).toFixed(3)
       }
     };
-    show_hide_outliers = function() {
-      var label;
-      console.log("FOOBAR in beginning of show_hide_outliers");
-      label = $('#show_hide_outliers').val();
-      console.log("lable is:", label);
-      if (label === "Hide Outliers") {
-        return $('#show_hide_outliers').val("Show Outliers");
-      } else if (label === "Show Outliers") {
-        console.log("Found Show Outliers");
-        $('#show_hide_outliers').val("Hide Outliers");
-        return console.log("Should be now Hide Outliers");
+  })(this));
+};
+
+sqrt_normalize_data = function() {
+  return $('.edit_sample_value').each((function(_this) {
+    return function(_index, element) {
+      current_value = parseFloat($(element).data("value")) + 1;
+      if(isNaN(current_value)) {
+        return current_value
+      } else {
+        $(element).val(Math.sqrt(current_value).toFixed(3));
+        return Math.sqrt(current_value).toFixed(3)
       }
     };
-    on_corr_method_change = function() {
-      var corr_method;
-      corr_method = $('select[name=corr_type]').val();
-      console.log("corr_method is:", corr_method);
-      $('.correlation_desc').hide();
-      $('#' + corr_method + "_r_desc").show().effect("highlight");
-      if (corr_method === "lit") {
-        return $("#corr_sample_method").hide();
+  })(this));
+};
+
+qnorm_data = function() {
+  return $('.edit_sample_value').each((function(_this) {
+    return function(_index, element) {
+      current_value = parseFloat($(element).data("value")) + 1;
+      if(isNaN(current_value)) {
+        return current_value
       } else {
-        return $("#corr_sample_method").show();
+        $(element).val($(element).data("qnorm"));
+        return $(element).data("qnorm");
       }
     };
-    $('select[name=corr_type]').change(on_corr_method_change);
+  })(this));
+};
+
+normalize_data = function() {
+  if ($('#norm_method option:selected').val() == 'log2'){
+    if ($('input[name="transform"]').val() != "log2") {
+      log_normalize_data()
+      $('input[name="transform"]').val("log2")
+    }
+  }
+  else if ($('#norm_method option:selected').val() == 'sqrt'){
+    if ($('input[name="transform"]').val() != "sqrt") {
+      sqrt_normalize_data()
+      $('input[name="transform"]').val("sqrt")
+    }
+  }
+  else if ($('#norm_method option:selected').val() == 'qnorm'){
+    if ($('input[name="transform"]').val() != "qnorm") {
+      qnorm_data()
+      $('input[name="transform"]').val("qnorm")
+    }
+  }
+}
 
-    submit_special = function(url) {
-      $("#trait_data_form").attr("action", url);
-      return $("#trait_data_form").submit();
-    };
+$('#normalize').click(normalize_data);
 
-	submit_corr = function(){
-        var url;
-        url = "/corr_compute";
-        return submit_special(url);
-	};
-	
-    $(".corr_compute").on("click", (function(_this) {
-      return function() {
-        var url;
-        url = "/corr_compute";
-        return submit_special(url);
-      };
-    })(this));
-
-    create_value_dropdown = function(value) {
-      return "<option val=" + value + ">" + value + "</option>";
+switch_qnorm_data = function() {
+  return $('.trait_value_input').each((function(_this) {
+    return function(_index, element) {
+      transform_val = $(element).data('transform')
+      if (transform_val != "") {
+          $(element).val(transform_val.toFixed(3));
+      }
+      return transform_val
     };
-    populate_sample_attributes_values_dropdown = function() {
-      var attribute_info, key, sample_attributes, selected_attribute, value, _i, _len, _ref, _ref1, _results;
-      console.log("in beginning of psavd");
-      $('#attribute_values').empty();
-      sample_attributes = {};
+  })(this));
+};
+$('#qnorm').click(switch_qnorm_data);
+get_sample_table_data = function(table_name) {
+  var samples;
+  samples = [];
+  $('#' + table_name).find('.value_se').each((function(_this) {
+    return function(_index, element) {
+      var attribute_info, key, row_data, _ref;
+      row_data = {};
+      row_data.name = $.trim($(element).find('.column_name-Sample').text());
+      row_data.value = $(element).find('.edit_sample_value').val();
+      if ($(element).find('.edit_sample_se').length !== -1) {
+        row_data.se = $(element).find('.edit_sample_se').val();
+      }
       _ref = js_data.attribute_names;
       for (key in _ref) {
         if (!__hasProp.call(_ref, key)) continue;
         attribute_info = _ref[key];
-        sample_attributes[attribute_info.name] = attribute_info.distinct_values;
-      }
-      console.log("[visa] attributes is:", sample_attributes);
-      selected_attribute = $('#exclude_menu').val().replace("_", " ");
-      console.log("selected_attribute is:", selected_attribute);
-      _ref1 = sample_attributes[selected_attribute];
-      _results = [];
-      for (_i = 0, _len = _ref1.length; _i < _len; _i++) {
-        value = _ref1[_i];
-        _results.push($(create_value_dropdown(value)).appendTo($('#attribute_values')));
+        row_data[attribute_info.name] = $.trim($(element).find('.column_name-' + attribute_info.name.replace(" ", "_")).text());
       }
-      return _results;
-    };
-    if (js_data.attribute_names.length > 0) {
-      populate_sample_attributes_values_dropdown();
-    }
-    $('#exclude_menu').change(populate_sample_attributes_values_dropdown);
-    block_by_attribute_value = function() {
-      var attribute_name, cell_class, exclude_by_value;
-      attribute_name = $('#exclude_menu').val();
-      exclude_by_value = $('#attribute_values').val();
-      cell_class = ".column_name-" + attribute_name;
-      return $(cell_class).each((function(_this) {
-        return function(index, element) {
-          var row;
-          if ($.trim($(element).text()) === exclude_by_value) {
-            row = $(element).parent('tr');
-            return $(row).find(".trait_value_input").val("x");
-          }
-        };
-      })(this));
+      console.log("row_data is:", row_data);
+      return samples.push(row_data);
     };
-    $('#exclude_group').click(block_by_attribute_value);
-    block_by_index = function() {
-      var end_index, error, index, index_list, index_set, index_string, start_index, _i, _j, _k, _len, _len1, _ref, _results;
-      index_string = $('#remove_samples_field').val();
-      index_list = [];
-      _ref = index_string.split(",");
-      for (_i = 0, _len = _ref.length; _i < _len; _i++) {
-        index_set = _ref[_i];
-        if (index_set.indexOf('-') !== -1) {
-          try {
-            start_index = parseInt(index_set.split("-")[0]);
-            end_index = parseInt(index_set.split("-")[1]);
-            for (index = _j = start_index; start_index <= end_index ? _j <= end_index : _j >= end_index; index = start_index <= end_index ? ++_j : --_j) {
-              index_list.push(index);
-            }
-          } catch (_error) {
-            error = _error;
-            alert("Syntax error");
-          }
-        } else {
-          index = parseInt(index_set);
-          console.log("index:", index);
-          index_list.push(index);
-        }
-      }
-      console.log("index_list:", index_list);
-      _results = [];
-      for (_k = 0, _len1 = index_list.length; _k < _len1; _k++) {
-        index = index_list[_k];
-        if ($('#block_group').val() === "primary") {
-          console.log("block_group:", $('#block_group').val());
-          console.log("row:", $('#Primary_' + index.toString()));
-          _results.push($('#Primary_' + index.toString()).find('.trait_value_input').val("x"));
-        } else if ($('#block_group').val() === "other") {
-          console.log("block_group:", $('#block_group').val());
-          console.log("row:", $('#Other_' + index.toString()));
-          _results.push($('#Other_' + index.toString()).find('.trait_value_input').val("x"));
-        } else {
-          _results.push(void 0);
-        }
-      }
-      return _results;
-    };
-    $('#block_by_index').click(block_by_index);
-    hide_no_value = function() {
-      return $('.value_se').each((function(_this) {
-        return function(_index, element) {
-          if ($(element).find('.trait_value_input').val() === 'x') {
-            return $(element).hide();
-          }
-        };
-      })(this));
-    };
-    $('#hide_no_value').click(hide_no_value);
-    block_outliers = function() {
-      return $('.outlier').each((function(_this) {
-        return function(_index, element) {
-          return $(element).find('.trait_value_input').val('x');
-        };
-      })(this));
-    };
-    $('#block_outliers').click(block_outliers);
-    reset_samples_table = function() {
-      $('input[name="transform"]').val("");
-      return $('.trait_value_input').each((function(_this) {
-        return function(_index, element) {
-          console.log("value is:", $(element).val());
-          $(element).val($(element).data('value'));
-          console.log("data-value is:", $(element).data('value'));
-          return $(element).parents('.value_se').show();
-        };
-      })(this));
-    };
-    $('#reset').click(reset_samples_table);
-
-    log_normalize_data = function() {
-      return $('.trait_value_input').each((function(_this) {
-        return function(_index, element) {
-          current_value = parseFloat($(element).data("value")) + 1;
-          if(isNaN(current_value)) {
-            return current_value
-          } else {
-            $(element).val(Math.log2(current_value).toFixed(3));
-            return Math.log2(current_value).toFixed(3)
-          }
-        };
-      })(this));
-    };
-
-    sqrt_normalize_data = function() {
-      return $('.edit_sample_value').each((function(_this) {
-        return function(_index, element) {
-          current_value = parseFloat($(element).data("value")) + 1;
-          if(isNaN(current_value)) {
-            return current_value
-          } else {
-            $(element).val(Math.sqrt(current_value).toFixed(3));
-            return Math.sqrt(current_value).toFixed(3)
-          }
-        };
-      })(this));
-    };
-
-    qnorm_data = function() {
-      return $('.edit_sample_value').each((function(_this) {
-        return function(_index, element) {
-          current_value = parseFloat($(element).data("value")) + 1;
-          if(isNaN(current_value)) {
-            return current_value
-          } else {
-            $(element).val($(element).data("qnorm"));
-            return $(element).data("qnorm");
-          }
-        };
-      })(this));
-    };
-
-    normalize_data = function() {
-      if ($('#norm_method option:selected').val() == 'log2'){
-        if ($('input[name="transform"]').val() != "log2") {
-          log_normalize_data()
-          $('input[name="transform"]').val("log2")
-        }
+  })(this));
+  return samples;
+};
+export_sample_table_data = function() {
+  var format, json_sample_data, sample_data;
+  sample_data = {};
+  sample_data.primary_samples = get_sample_table_data('samples_primary');
+  sample_data.other_samples = get_sample_table_data('samples_other');
+  console.log("sample_data is:", sample_data);
+  json_sample_data = JSON.stringify(sample_data);
+  console.log("json_sample_data is:", json_sample_data);
+  $('input[name=export_data]').val(json_sample_data);
+  console.log("export_data is", $('input[name=export_data]').val());
+  format = $('input[name=export_format]').val();
+  if (format === "excel") {
+    $('#trait_data_form').attr('action', '/export_trait_excel');
+  } else {
+    $('#trait_data_form').attr('action', '/export_trait_csv');
+  }
+  console.log("action is:", $('#trait_data_form').attr('action'));
+  return $('#trait_data_form').submit();
+};
+
+$('.export_format').change(function() {
+  $('input[name=export_format]').val( this.value );
+  $('.export_format').val( this.value );
+});
+
+$('.export').click(export_sample_table_data);
+console.log("before registering block_outliers");
+$('#block_outliers').click(block_outliers);
+console.log("after registering block_outliers");
+_.mixin(_.str.exports());
+
+get_sample_vals = function(sample_list) {
+  var sample;
+  return this.sample_vals = (function() {
+    var i, len, results;
+    results = [];
+    for (i = 0, len = sample_list.length; i < len; i++) {
+      sample = sample_list[i];
+      if (sample.value !== null) {
+        results.push(sample.value);
       }
-      else if ($('#norm_method option:selected').val() == 'sqrt'){
-        if ($('input[name="transform"]').val() != "sqrt") {
-          sqrt_normalize_data()
-          $('input[name="transform"]').val("sqrt")
-        }
+    }
+    return results;
+  })();
+};
+
+get_sample_errors = function(sample_list) {
+  var sample;
+  return this.sample_vals = (function() {
+    var i, len, results;
+    variance_exists = false;
+    results = [];
+    for (i = 0, len = sample_list.length; i < len; i++) {
+      sample = sample_list[i];
+      if (sample.variance !== null) {
+        results.push(sample.variance);
+        variance_exists = true;
       }
-      else if ($('#norm_method option:selected').val() == 'qnorm'){
-        if ($('input[name="transform"]').val() != "qnorm") {
-          qnorm_data()
-          $('input[name="transform"]').val("qnorm")
-        }
+    }
+    return [results, variance_exists];
+  })();
+};
+
+get_sample_names = function(sample_list) {
+  var sample;
+  return this.sample_names = (function() {
+    var i, len, results;
+    results = [];
+    for (i = 0, len = sample_list.length; i < len; i++) {
+      sample = sample_list[i];
+      if (sample.value !== null) {
+        results.push(sample.name);
       }
     }
+    return results;
+  })();
+};
 
-    $('#normalize').click(normalize_data);
+root.stats_group = 'samples_primary';
 
-    switch_qnorm_data = function() {
-      return $('.trait_value_input').each((function(_this) {
-        return function(_index, element) {
-          transform_val = $(element).data('transform')
-          if (transform_val != "") {
-              $(element).val(transform_val.toFixed(3));
-          }
-          return transform_val
-        };
-      })(this));
-    };
-    $('#qnorm').click(switch_qnorm_data);
-    get_sample_table_data = function(table_name) {
-      var samples;
-      samples = [];
-      $('#' + table_name).find('.value_se').each((function(_this) {
-        return function(_index, element) {
-          var attribute_info, key, row_data, _ref;
-          row_data = {};
-          row_data.name = $.trim($(element).find('.column_name-Sample').text());
-          row_data.value = $(element).find('.edit_sample_value').val();
-          if ($(element).find('.edit_sample_se').length !== -1) {
-            row_data.se = $(element).find('.edit_sample_se').val();
-          }
-          _ref = js_data.attribute_names;
-          for (key in _ref) {
-            if (!__hasProp.call(_ref, key)) continue;
-            attribute_info = _ref[key];
-            row_data[attribute_info.name] = $.trim($(element).find('.column_name-' + attribute_info.name.replace(" ", "_")).text());
-          }
-          console.log("row_data is:", row_data);
-          return samples.push(row_data);
-        };
-      })(this));
-      return samples;
-    };
-    export_sample_table_data = function() {
-      var format, json_sample_data, sample_data;
-      sample_data = {};
-      sample_data.primary_samples = get_sample_table_data('samples_primary');
-      sample_data.other_samples = get_sample_table_data('samples_other');
-      console.log("sample_data is:", sample_data);
-      json_sample_data = JSON.stringify(sample_data);
-      console.log("json_sample_data is:", json_sample_data);
-      $('input[name=export_data]').val(json_sample_data);
-      console.log("export_data is", $('input[name=export_data]').val());
-      format = $('#export_format').val();
-      if (format === "excel") {
-        $('#trait_data_form').attr('action', '/export_trait_excel');
-      } else {
-        $('#trait_data_form').attr('action', '/export_trait_csv');
-      }
-      console.log("action is:", $('#trait_data_form').attr('action'));
-      return $('#trait_data_form').submit();
-    };
-    $('#export').click(export_sample_table_data);
-    console.log("before registering block_outliers");
-    $('#block_outliers').click(block_outliers);
-    console.log("after registering block_outliers");
-    _.mixin(_.str.exports());
-
-    get_sample_vals = function(sample_list) {
-      var sample;
-      return this.sample_vals = (function() {
-        var i, len, results;
-        results = [];
-        for (i = 0, len = sample_list.length; i < len; i++) {
-          sample = sample_list[i];
-          if (sample.value !== null) {
-            results.push(sample.value);
-          }
-        }
-        return results;
-      })();
-    };
+if (Object.keys(js_data.sample_group_types).length > 1) {
+    full_sample_lists = [sample_lists[0], sample_lists[1], sample_lists[0].concat(sample_lists[1])]
+    sample_group_list = [js_data.sample_group_types['samples_primary'], js_data.sample_group_types['samples_other'], js_data.sample_group_types['samples_all']]
+} else {
+    full_sample_lists = [sample_lists[0]]
+    sample_group_list = [js_data.sample_group_types['samples_primary']]
+}
 
-    get_sample_errors = function(sample_list) {
-      var sample;
-      return this.sample_vals = (function() {
-        var i, len, results;
-        variance_exists = false;
-        results = [];
-        for (i = 0, len = sample_list.length; i < len; i++) {
-          sample = sample_list[i];
-          if (sample.variance !== null) {
-            results.push(sample.variance);
-            variance_exists = true;
-          }
-        }
-        return [results, variance_exists];
-      })();
-    };
+// Define Plotly Options (for the options bar at the top of each figure)
 
-    get_sample_names = function(sample_list) {
-      var sample;
-      return this.sample_names = (function() {
-        var i, len, results;
-        results = [];
-        for (i = 0, len = sample_list.length; i < len; i++) {
-          sample = sample_list[i];
-          if (sample.value !== null) {
-            results.push(sample.name);
-          }
-        }
-        return results;
-      })();
-    };
+root.modebar_options = {
+  modeBarButtonsToRemove:['hoverClosest', 'hoverCompare', 'hoverClosestCartesian', 'hoverCompareCartesian', 'lasso2d', 'toggleSpikelines']
+}
 
-    root.stats_group = 'samples_primary';
+// Bar Chart
 
-    if (Object.keys(js_data.sample_group_types).length > 1) {
-        full_sample_lists = [sample_lists[0], sample_lists[1], sample_lists[0].concat(sample_lists[1])]
-        sample_group_list = [js_data.sample_group_types['samples_primary'], js_data.sample_group_types['samples_other'], js_data.sample_group_types['samples_all']]
+root.errors_exist = get_sample_errors(sample_lists[0])[1]
+var bar_trace = {
+    x: get_sample_names(sample_lists[0]),
+    y: get_sample_vals(sample_lists[0]),
+    error_y: {
+        type: 'data',
+        array: get_sample_errors(sample_lists[0])[0],
+        visible: root.errors_exist
+    },
+    type: 'bar'
+}
+
+root.bar_data = [bar_trace]
+
+positive_error_vals = []
+negative_error_vals = []
+for (i = 0;i < get_sample_vals(sample_lists[0]).length; i++){
+    if (get_sample_errors(sample_lists[0])[0][i] != undefined) {
+        positive_error_vals.push(get_sample_vals(sample_lists[0])[i] + get_sample_errors(sample_lists[0])[0][i])
+        negative_error_vals.push(get_sample_vals(sample_lists[0])[i] - get_sample_errors(sample_lists[0])[0][i])
     } else {
-        full_sample_lists = [sample_lists[0]]
-        sample_group_list = [js_data.sample_group_types['samples_primary']]
-    }
-
-    // Define Plotly Options (for the options bar at the top of each figure)
-
-    root.modebar_options = {
-      modeBarButtonsToRemove:['hoverClosest', 'hoverCompare', 'hoverClosestCartesian', 'hoverCompareCartesian', 'lasso2d', 'toggleSpikelines']
+        positive_error_vals.push(get_sample_vals(sample_lists[0])[i])
+        negative_error_vals.push(get_sample_vals(sample_lists[0])[i])
     }
-
-    // Bar Chart
-
-    root.errors_exist = get_sample_errors(sample_lists[0])[1]
-    var bar_trace = {
-        x: get_sample_names(sample_lists[0]),
-        y: get_sample_vals(sample_lists[0]),
-        error_y: {
-            type: 'data',
-            array: get_sample_errors(sample_lists[0])[0],
-            visible: root.errors_exist
-        },
-        type: 'bar'
+}
+
+// Calculate the y axis cutoff to avoid a situation where all bar variation is clustered at the top of the chart
+min_y_val = Math.min(...negative_error_vals)
+max_y_val = Math.max(...positive_error_vals)
+
+if (min_y_val == 0) {
+    range_top = max_y_val + Math.abs(max_y_val)*0.1
+    range_bottom = 0;
+} else {
+    range_top = max_y_val + Math.abs(max_y_val)*0.1
+    range_bottom = min_y_val - Math.abs(min_y_val)*0.1
+    if (min_y_val > 0) {
+        range_bottom = min_y_val - 0.1*Math.abs(min_y_val)
+    } else if (min_y_val < 0) {
+        range_bottom = min_y_val + 0.1*min_y_val
+    } else {
+        range_bottom = 0
     }
-
-    root.bar_data = [bar_trace]
-
-    positive_error_vals = []
-    negative_error_vals = []
-    for (i = 0;i < get_sample_vals(sample_lists[0]).length; i++){
-        if (get_sample_errors(sample_lists[0])[0][i] != undefined) {
-            positive_error_vals.push(get_sample_vals(sample_lists[0])[i] + get_sample_errors(sample_lists[0])[0][i])
-            negative_error_vals.push(get_sample_vals(sample_lists[0])[i] - get_sample_errors(sample_lists[0])[0][i])
-        } else {
-            positive_error_vals.push(get_sample_vals(sample_lists[0])[i])
-            negative_error_vals.push(get_sample_vals(sample_lists[0])[i])
-        }
+}
+
+root.chart_range = [range_bottom, range_top]
+
+total_sample_count = 0
+for (i = 0, i < sample_lists.length; i++;) {
+  total_sample_count += get_sample_vals(sample_lists[i]).length
+}
+
+if (js_data.num_values < 256) {
+  bar_chart_width = 25 * get_sample_vals(sample_lists[0]).length
+
+  var layout = {
+    yaxis: {
+        range: root.chart_range,
+    },
+    width: bar_chart_width,
+    height: 600,
+    margin: {
+        l: 50,
+        r: 30,
+        t: 30,
+        b: 80
     }
-
-    // Calculate the y axis cutoff to avoid a situation where all bar variation is clustered at the top of the chart
-    min_y_val = Math.min(...negative_error_vals)
-    max_y_val = Math.max(...positive_error_vals)
-
-    if (min_y_val == 0) {
-        range_top = max_y_val + Math.abs(max_y_val)*0.1
-        range_bottom = 0;
+  };
+  root.bar_layout = layout
+  $('.bar_chart_tab').click(function() {
+    if ($('#bar_chart').hasClass('js-plotly-plot')){
+      redraw_bar_chart();
     } else {
-        range_top = max_y_val + Math.abs(max_y_val)*0.1
-        range_bottom = min_y_val - Math.abs(min_y_val)*0.1
-        if (min_y_val > 0) {
-            range_bottom = min_y_val - 0.1*Math.abs(min_y_val)
-        } else if (min_y_val < 0) {
-            range_bottom = min_y_val + 0.1*min_y_val
-        } else {
-            range_bottom = 0
-        }
+      Plotly.newPlot('bar_chart', root.bar_data, root.bar_layout, root.modebar_options)
     }
+  });
+}
 
-    root.chart_range = [range_bottom, range_top]
-
-    total_sample_count = 0
-    for (i = 0, i < sample_lists.length; i++;) {
-      total_sample_count += get_sample_vals(sample_lists[i]).length
-    }
-
-    if (js_data.num_values < 256) {
-      bar_chart_width = 25 * get_sample_vals(sample_lists[0]).length
-
-      var layout = {
+if (full_sample_lists.length > 1) {
+    root.box_layout = {
+        boxgap: 0.2,
         yaxis: {
-            range: root.chart_range,
+            range: [range_bottom, range_top],
         },
-        width: bar_chart_width,
-        height: 600,
+        width: 600,
+        height: 500,
         margin: {
             l: 50,
             r: 30,
             t: 30,
             b: 80
         }
-      };
-      root.bar_layout = layout
-      $('.bar_chart_tab').click(function() {
-        if ($('#bar_chart').hasClass('js-plotly-plot')){
-          redraw_bar_chart();
-        } else {
-          Plotly.newPlot('bar_chart', root.bar_data, root.bar_layout, root.modebar_options)
+    };
+    var trace1 = {
+        y: get_sample_vals(full_sample_lists[0]),
+        type: 'box',
+        name: sample_group_list[0],
+        boxpoints: 'Outliers',
+        jitter: 0.5,
+        whiskerwidth: 0.2,
+        fillcolor: 'cls',
+        pointpos: -3,
+        marker: {
+            color: 'rgb(0, 0, 255)',
+            size: 3
+        },
+        line: {
+            width: 1
         }
-      });
     }
-
-    if (full_sample_lists.length > 1) {
-        root.box_layout = {
-            boxgap: 0.2,
-            yaxis: {
-                range: [range_bottom, range_top],
-            },
-            width: 600,
-            height: 500,
-            margin: {
-                l: 50,
-                r: 30,
-                t: 30,
-                b: 80
-            }
-        };
-        var trace1 = {
-            y: get_sample_vals(full_sample_lists[0]),
-            type: 'box',
-            name: sample_group_list[0],
-            boxpoints: 'Outliers',
-            jitter: 0.5,
-            whiskerwidth: 0.2,
-            fillcolor: 'cls',
-            pointpos: -3,
-            marker: {
-                color: 'rgb(0, 0, 255)',
-                size: 3
-            },
-            line: {
-                width: 1
-            }
-        }
-        var trace2 = {
-            y: get_sample_vals(full_sample_lists[1]),
-            type: 'box',
-            name: sample_group_list[1],
-            boxpoints: 'Outliers',
-            jitter: 0.5,
-            whiskerwidth: 0.2,
-            fillcolor: 'cls',
-            pointpos: -3,
-            marker: {
-                color: 'rgb(200, 0, 0)',
-                size: 3
-            },
-            line: {
-                width: 1
-            }
-        }
-        var trace3 = {
-            y: get_sample_vals(full_sample_lists[2]),
-            type: 'box',
-            name: sample_group_list[2],
-            boxpoints: 'Outliers',
-            jitter: 0.5,
-            whiskerwidth: 0.2,
-            fillcolor: 'cls',
-            pointpos: -3,
-            marker: {
-                color: 'rgb(0, 104, 0)',
-                size: 3
-            },
-            line: {
-                width: 1
-            }
+    var trace2 = {
+        y: get_sample_vals(full_sample_lists[1]),
+        type: 'box',
+        name: sample_group_list[1],
+        boxpoints: 'Outliers',
+        jitter: 0.5,
+        whiskerwidth: 0.2,
+        fillcolor: 'cls',
+        pointpos: -3,
+        marker: {
+            color: 'rgb(200, 0, 0)',
+            size: 3
+        },
+        line: {
+            width: 1
         }
-        box_data = [trace1, trace2, trace3]
-    } else {
-        root.box_layout = {
-            yaxis: {
-                range: [range_bottom, range_top],
-            },
-            width: 400,
-            height: 500,
-            margin: {
-                l: 50,
-                r: 30,
-                t: 30,
-                b: 80
-            }
-        };
-        box_data = [
-          {
-            type: 'box',
-            y: get_sample_vals(full_sample_lists[0]),
-            name: sample_group_list[0],
-            boxpoints: 'Outliers',
-            jitter: 0.5,
-            whiskerwidth: 0.2,
-            fillcolor: 'cls',
-            pointpos: -3,
-            marker: {
-                size: 3
-            },
-            line: {
-                width: 1
-            }
-          }
-        ]
     }
-
-    box_obj = {
-      data: box_data,
-      layout: root.box_layout
+    var trace3 = {
+        y: get_sample_vals(full_sample_lists[2]),
+        type: 'box',
+        name: sample_group_list[2],
+        boxpoints: 'Outliers',
+        jitter: 0.5,
+        whiskerwidth: 0.2,
+        fillcolor: 'cls',
+        pointpos: -3,
+        marker: {
+            color: 'rgb(0, 104, 0)',
+            size: 3
+        },
+        line: {
+            width: 1
+        }
     }
-
-    $('.box_plot_tab').click(function() {
-      if ($('#box_plot').hasClass('js-plotly-plot')){
-        redraw_box_plot();
-      } else {
-        Plotly.newPlot('box_plot', box_obj, root.modebar_options);
-      }
-    });
-
-    // Violin Plot
-
-    if (full_sample_lists.length > 1) {
-        root.violin_layout = {
-          title: "Violin Plot",
-          yaxis: {
+    box_data = [trace1, trace2, trace3]
+} else {
+    root.box_layout = {
+        yaxis: {
             range: [range_bottom, range_top],
-            zeroline: false
-          },
-          width: 600,
-          height: 500,
-          margin: {
-                l: 50,
-                r: 30,
-                t: 80,
-                b: 80
-          }
-        };
-        var trace1 = {
-            y: get_sample_vals(full_sample_lists[2]),
-            type: 'violin',
-            points: 'none',
-            box: {
-              visible: true
-            },
-            line: {
-              color: 'green',
-            },
-            meanline: {
-              visible: true
-            },
-            name: sample_group_list[2],
-            x0: sample_group_list[2]
-        }
-        var trace2 = {
-            y: get_sample_vals(full_sample_lists[1]),
-            type: 'violin',
-            points: 'none',
-            box: {
-              visible: true
-            },
-            line: {
-              color: 'green',
-            },
-            meanline: {
-              visible: true
-            },
-            name: sample_group_list[1],
-            x0: sample_group_list[1]
+        },
+        width: 400,
+        height: 500,
+        margin: {
+            l: 50,
+            r: 30,
+            t: 30,
+            b: 80
         }
-        var trace3 = {
-            y: get_sample_vals(full_sample_lists[0]),
-            type: 'violin',
-            points: 'none',
-            box: {
-              visible: true
-            },
-            line: {
-              color: 'green',
-            },
-            meanline: {
-              visible: true
-            },
-            name: sample_group_list[0],
-            x0: sample_group_list[0]
+    };
+    box_data = [
+      {
+        type: 'box',
+        y: get_sample_vals(full_sample_lists[0]),
+        name: sample_group_list[0],
+        boxpoints: 'Outliers',
+        jitter: 0.5,
+        whiskerwidth: 0.2,
+        fillcolor: 'cls',
+        pointpos: -3,
+        marker: {
+            size: 3
+        },
+        line: {
+            width: 1
         }
-        violin_data = [trace1, trace2, trace3]
-    } else {
-        root.violin_layout = {
-          title: "Violin Plot",
-          yaxis: {
-            range: [range_bottom, range_top],
-            zeroline: false
-          },
-          width: 500,
-          height: 300,
-          margin: {
-                l: 50,
-                r: 30,
-                t: 80,
-                b: 80
-          }
-        };
-        violin_data = [
-          {
-            y: get_sample_vals(full_sample_lists[0]),
-            type: 'violin',
-            points: 'none',
-            box: {
-              visible: true
-            },
-            line: {
-              color: 'green',
-            },
-            meanline: {
-              visible: true
-            },
-            name: sample_group_list[0],
-            x0: sample_group_list[0]
-          }
-        ]
-    }
-
-    violin_obj = {
-      data: violin_data,
-      layout: root.violin_layout
-    }
-
-    $('.violin_plot_tab').click(function() {
-      if ($('#violin_plot').hasClass('js-plotly-plot')){
-        redraw_violin_plot();
-      } else {
-        Plotly.plot('violin_plot', violin_obj, root.modebar_options);
       }
-    });
-
-    // Histogram
-    var hist_trace = {
-        x: get_sample_vals(sample_lists[0]),
-        type: 'histogram'
-    };
-    var data = [hist_trace];
-    var layout = {
-      bargap: 0.05,
-      title: "Sample Values",
-      xaxis: {title: "Value"},
-      yaxis: {title: "Count"},
+    ]
+}
+
+box_obj = {
+  data: box_data,
+  layout: root.box_layout
+}
+
+$('.box_plot_tab').click(function() {
+  if ($('#box_plot').hasClass('js-plotly-plot')){
+    redraw_box_plot();
+  } else {
+    Plotly.newPlot('box_plot', box_obj, root.modebar_options);
+  }
+});
+
+// Violin Plot
+
+if (full_sample_lists.length > 1) {
+    root.violin_layout = {
+      title: "Violin Plot",
+      yaxis: {
+        range: [range_bottom, range_top],
+        zeroline: false
+      },
+      width: 600,
+      height: 500,
       margin: {
-          l: 50,
-          r: 30,
-          t: 100,
-          b: 60
+            l: 50,
+            r: 30,
+            t: 80,
+            b: 80
       }
     };
-
-    $('.histogram_tab').click(function() {
-      if ($('#histogram').hasClass('js-plotly-plot')){
-        redraw_histogram();
-        update_histogram_width();
-      } else {
-        Plotly.newPlot('histogram', data, layout, root.modebar_options)
-        update_histogram_width()
-      }
-    });
-
-    $('.histogram_samples_group').val(root.stats_group);
-    $('.histogram_samples_group').change(function() {
-      root.stats_group = $(this).val();
-      return redraw_histogram();
-    });
-
-    if (get_sample_vals(sample_lists[0]).length < 256) {
-      $('.bar_chart_samples_group').change(function() {
-        root.stats_group = $(this).val();
-        return redraw_bar_chart();
-      });
-      root.bar_sort = "name"
+    var trace1 = {
+        y: get_sample_vals(full_sample_lists[2]),
+        type: 'violin',
+        points: 'none',
+        box: {
+          visible: true
+        },
+        line: {
+          color: 'green',
+        },
+        meanline: {
+          visible: true
+        },
+        name: sample_group_list[2],
+        x0: sample_group_list[2]
     }
-    $('.sort_by_name').click(function() {
-      root.bar_sort = "name" 
-      return redraw_bar_chart();
-    });
-    $('.sort_by_value').click(function() {
-      root.bar_sort = "value"
-      return redraw_bar_chart();
-    });
-
-    root.prob_plot_group = 'samples_primary';
-    $('.prob_plot_samples_group').val(root.prob_plot_group);
-    $('.prob_plot_tab').click(function() {
-      return redraw_prob_plot();
-    });
-    $('.prob_plot_samples_group').change(function() {
-      root.prob_plot_group = $(this).val();
-      return redraw_prob_plot();
-    });
-
-    function isEmpty( el ){
-      return !$.trim(el.html())
+    var trace2 = {
+        y: get_sample_vals(full_sample_lists[1]),
+        type: 'violin',
+        points: 'none',
+        box: {
+          visible: true
+        },
+        line: {
+          color: 'green',
+        },
+        meanline: {
+          visible: true
+        },
+        name: sample_group_list[1],
+        x0: sample_group_list[1]
     }
-
-    $('.stats_panel').click(function() {
-      if (isEmpty($('#stats_table'))){
-        make_table();
-        edit_data_change();
-      } else {
-        edit_data_change();
+    var trace3 = {
+        y: get_sample_vals(full_sample_lists[0]),
+        type: 'violin',
+        points: 'none',
+        box: {
+          visible: true
+        },
+        line: {
+          color: 'green',
+        },
+        meanline: {
+          visible: true
+        },
+        name: sample_group_list[0],
+        x0: sample_group_list[0]
+    }
+    violin_data = [trace1, trace2, trace3]
+} else {
+    root.violin_layout = {
+      title: "Violin Plot",
+      yaxis: {
+        range: [range_bottom, range_top],
+        zeroline: false
+      },
+      width: 500,
+      height: 300,
+      margin: {
+            l: 50,
+            r: 30,
+            t: 80,
+            b: 80
       }
-    });
-    $('#edit_sample_lists').change(edit_data_change);
-    $('.edit_sample_value').change(edit_data_change);
-    $('#block_by_index').click(edit_data_change);
-    $('#exclude_group').click(edit_data_change);
-    $('#block_outliers').click(edit_data_change);
-    $('#reset').click(edit_data_change);
-    $('#qnorm').click(edit_data_change);
-    $('#normalize').click(edit_data_change);
-    return console.log("end");
+    };
+    violin_data = [
+      {
+        y: get_sample_vals(full_sample_lists[0]),
+        type: 'violin',
+        points: 'none',
+        box: {
+          visible: true
+        },
+        line: {
+          color: 'green',
+        },
+        meanline: {
+          visible: true
+        },
+        name: sample_group_list[0],
+        x0: sample_group_list[0]
+      }
+    ]
+}
+
+violin_obj = {
+  data: violin_data,
+  layout: root.violin_layout
+}
+
+$('.violin_plot_tab').click(function() {
+  if ($('#violin_plot').hasClass('js-plotly-plot')){
+    redraw_violin_plot();
+  } else {
+    Plotly.plot('violin_plot', violin_obj, root.modebar_options);
+  }
+});
+
+// Histogram
+var hist_trace = {
+    x: get_sample_vals(sample_lists[0]),
+    type: 'histogram'
+};
+var data = [hist_trace];
+var layout = {
+  bargap: 0.05,
+  title: "Sample Values",
+  xaxis: {title: "Value"},
+  yaxis: {title: "Count"},
+  margin: {
+      l: 50,
+      r: 30,
+      t: 100,
+      b: 60
+  }
+};
+
+$('.histogram_tab').click(function() {
+  if ($('#histogram').hasClass('js-plotly-plot')){
+    redraw_histogram();
+    update_histogram_width();
+  } else {
+    Plotly.newPlot('histogram', data, layout, root.modebar_options)
+    update_histogram_width()
+  }
+});
+
+$('.histogram_samples_group').val(root.stats_group);
+$('.histogram_samples_group').change(function() {
+  root.stats_group = $(this).val();
+  return redraw_histogram();
+});
+
+if (get_sample_vals(sample_lists[0]).length < 256) {
+  $('.bar_chart_samples_group').change(function() {
+    root.stats_group = $(this).val();
+    return redraw_bar_chart();
   });
-
-  Number.prototype.countDecimals = function () {
-    if(Math.floor(this.valueOf()) === this.valueOf()) return 0;
-      return this.toString().split(".")[1].length || 0;
+  root.bar_sort = "name"
+}
+$('.sort_by_name').click(function() {
+  root.bar_sort = "name"
+  return redraw_bar_chart();
+});
+$('.sort_by_value').click(function() {
+  root.bar_sort = "value"
+  return redraw_bar_chart();
+});
+
+root.prob_plot_group = 'samples_primary';
+$('.prob_plot_samples_group').val(root.prob_plot_group);
+$('.prob_plot_tab').click(function() {
+  return redraw_prob_plot();
+});
+$('.prob_plot_samples_group').change(function() {
+  root.prob_plot_group = $(this).val();
+  return redraw_prob_plot();
+});
+
+function isEmpty( el ){
+  return !$.trim(el.html())
+}
+
+$('.stats_panel').click(function() {
+  if (isEmpty($('#stats_table'))){
+    make_table();
+    edit_data_change();
+  } else {
+    edit_data_change();
   }
-
-}).call(this);
\ No newline at end of file
+});
+$('#edit_sample_lists').change(edit_data_change);
+$('.edit_sample_value').change(edit_data_change);
+$('#block_by_index').click(edit_data_change);
+$('#exclude_group').click(edit_data_change);
+$('#block_outliers').click(edit_data_change);
+$('#reset').click(edit_data_change);
+$('#qnorm').click(edit_data_change);
+$('#normalize').click(edit_data_change);
+
+Number.prototype.countDecimals = function () {
+  if(Math.floor(this.valueOf()) === this.valueOf()) return 0;
+    return this.toString().split(".")[1].length || 0;
+}
\ No newline at end of file
diff --git a/wqflask/wqflask/static/output/Itvl_3kiKQR1g.jpeg b/wqflask/wqflask/static/output/Itvl_3kiKQR1g.jpeg
deleted file mode 100644
index bdd94651..00000000
--- a/wqflask/wqflask/static/output/Itvl_3kiKQR1g.jpeg
+++ /dev/null
Binary files differdiff --git a/wqflask/wqflask/static/output/Itvl_hNsk2rxO.jpeg b/wqflask/wqflask/static/output/Itvl_hNsk2rxO.jpeg
deleted file mode 100644
index bdd94651..00000000
--- a/wqflask/wqflask/static/output/Itvl_hNsk2rxO.jpeg
+++ /dev/null
Binary files differdiff --git a/wqflask/wqflask/templates/show_trait.html b/wqflask/wqflask/templates/show_trait.html
index f5e81060..9125b1ae 100644
--- a/wqflask/wqflask/templates/show_trait.html
+++ b/wqflask/wqflask/templates/show_trait.html
@@ -153,42 +153,21 @@
     <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script>
     <script language="javascript" type="text/javascript" src="/static/new/packages/noUiSlider/nouislider.js"></script>
     <script type="text/javascript" charset="utf-8">
-            
-           function getValue(x) {
-                if (x.indexOf('input') >= 0) {
-                    if ($(x).val() == 'x') {
-                        return 'x'
-                    }
-                    else {
-                       return parseFloat($(x).val());
-                    }
-                }
-                return parseFloat(x);
-            }
-            
-            jQuery.fn.dataTableExt.oSort['cust-txt-asc'] = function (a, b) {
-                var x = getValue(a);
-                var y = getValue(b);
-                return ((x < y) ? -1 : ((x > y) ? 1 : 0));
-            };
-            
-            jQuery.fn.dataTableExt.oSort['cust-txt-desc'] = function (a, b) {
-                var x = getValue(a);
-                var y = getValue(b);
 
-                if (x == 'x') {
-                    return 1;
-                }
-                else if (y == 'x') {
-                    return -1;
-                }
-                else {
-                    return ((x < y) ? 1 : ((x > y) ? -1 : 0));
-                }
+            $.fn.dataTable.ext.order['dom-checkbox'] = function  ( settings, col )
+            {
+              return this.api().column( col, {order:'index'} ).nodes().map( function ( td, i ) {
+                return $('input', td).prop('checked') ? '1' : '0';
+              } );
             };
             
-            $(document).ready( function () {
+            $.fn.dataTable.ext.order['dom-input'] = function (settings, col) {
+              return this.api().column(col, { order: 'index' }).nodes().map(function (td, i) {
+                return $('input', td).val();
+              });
+            }
 
+            $(document).ready( function () {
                 $('.panel-heading').click(function () {
                    if ($(this).hasClass('collapsed')){
                        $(this).find('.glyphicon-chevron-down').removeClass('glyphicon-chevron-down').addClass('glyphicon-chevron-up');
@@ -198,74 +177,250 @@
                    }
                 });
 
-                $('#samples_primary, #samples_other').find("tr.outlier").css('background-color', 'yellow')
-                {% if sample_groups[0].se_exists() %} 
-                $('#samples_primary, #samples_other').DataTable( {
-                    "columns": [
-                        { "bSortable": false },
-                        { "type": "natural" },
-                        { "type": "natural", "width": js_data.sample_column_width},
-                        { "type": "cust-txt" },
-                        { "bSortable": false },
-                        { "type": "cust-txt" }{% if has_num_cases %},
-                        { "type": "cust-txt" }{% endif %}{% if sample_groups[0].attributes|length > 0 %},{% endif %}
-                        {% for attribute in sample_groups[0].attributes %}
-                        { "type": "natural" }{% if loop.index < sample_groups[0].attributes|length %},{% endif %}
-                        {% endfor %}
-                    ],
-                    "columnDefs": [ {
-                        "targets": 0,
-                        "orderable": false
-                    } ],
-                    "order": [[1, "asc" ]],
-                    "sDom": "RZtr",
-                    "iDisplayLength": -1,
-                    "autoWidth": true,
-                    "bLengthChange": true,
-                    "deferRender": false,
-                    "bSortClasses": false,
-                    "scrollY": "600px",
-                    "scrollCollapse": false,
-                    "colResize": {
-                        "tableWidthFixed": false
+                $('#samples_primary').DataTable( {
+                  'initComplete': function(settings, json) {
+                    $('.edit_sample_value').change(function() {
+                      edit_data_change;
+                    });
+                  },
+                  'createdRow': function ( row, data, index ) {
+                    $(row).attr('id', "Primary_" + data.this_id)
+                    $(row).addClass("value_se");
+                    if (data.outlier) {
+                      $(row).addClass("outlier");
+                    }
+                    $('td', row).eq(0).attr("align", "center");
+                    $('td', row).eq(0).attr("style", "padding: 2px 0px 0px 2px;");
+                    $('td', row).eq(1).addClass("column_name-Index")
+                    $('td', row).eq(1).attr("align", "right");
+                    $('td', row).eq(1).attr("style", "padding: 2px 4px 0px 2px;");
+                    $('td', row).eq(2).addClass("column_name-Sample")
+                    $('td', row).eq(3).addClass("column_name-Value")
+                    $('td', row).eq(3).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% if sample_groups[0].se_exists() %}
+                    $('td', row).eq(4).attr("align", "center");
+                    $('td', row).eq(4).attr("style", "padding-left: 2px; padding-right: 2px;");
+                    $('td', row).eq(5).addClass("column_name-SE")
+                    $('td', row).eq(5).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% if has_num_cases %}
+                    $('td', row).eq(6).addClass("column_name-num_cases")
+                    $('td', row).eq(6).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% endif %} {% else %} {% if has_num_cases %}
+                    $('td', row).eq(4).addClass("column_name-num_cases")
+                    $('td', row).eq(4).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% endif %} {% endif %}
+                  },
+                  'data': js_data['sample_lists'][0],
+                  'columns': [
+                    {
+                      'data': null,
+                      'orderDataType': "dom-checkbox",
+                      'render': function(data, type, row, meta) {
+                        return '<input type="checkbox" name="searchResult" style="min-height: 20px;" class="checkbox edit_sample_checkbox" value="" checked="checked">'
+                      }
                     },
-                    "paging": false
+                    {
+                      'title': "ID",
+                      'type': "natural",
+                      'data': "this_id"
+                    },
+                    {
+                      'title': "Sample",
+                      'type': "natural",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        return '<span class="edit_sample_sample_name">' + data.name + '</span>'
+                      }
+                    },
+                    {
+                      'title': "Value",
+                      'orderDataType': "dom-input",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        if (data.value == null) {
+                          return '<input type="text" data-value="x" data-qnorm="x" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_value" value="x" size=6 maxlength=6>'
+                        } else {
+                          return '<input type="text" data-value="' + data.value + '" data-qnorm="' + js_data['qnorm_values'][0][parseInt(data.this_id)] + '" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_value" value="' + data.value + '" size=6 maxlength=6>'
+                        }
+                      }
+                    }{% if sample_groups[0].se_exists() %},
+                    {
+                      'bSortable': false,
+                      'type': "natural",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        return '±'
+                      }
+                    },
+                    {
+                      'title': "SE",
+                      'orderDataType': "dom-input",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        if (data.variance == null) {
+                          return '<input type="text" data-value="x" data-qnorm="x" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_se" value="x" size=6 maxlength=6>'
+                        } else {
+                          return '<input type="text" data-value="' + data.variance + '" data-qnorm="x" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_se" value="' + data.variance + '" size=6 maxlength=6>'
+                        }
+                      }
+                    }{% endif %}{% if has_num_cases %},
+                    {
+                      'title': "N",
+                      'type': "natural",
+                      'data': null,
+                      'orderDataType': "cust-txt",
+                      'render': function(data, type, row, meta) {
+                        return '<input type="text" data-value="' + data.num_cases + '" data-qnorm="' + js_data['qnorm_vals'][0][parseInt(data.this_id)] + '" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_num_cases" value="' + data.num_cases + '" size=4 maxlength=4>'
+                      }
+                    }{% endif %}{% if sample_groups[0].attributes|length > 0 %}{% for attribute in sample_groups[0].attributes|sort() %},
+                    {
+                      'title': "{{ sample_groups[0].attributes[attribute].name }}",
+                      'type': "natural",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        return data.extra_attributes['{{ sample_groups[0].attributes[attribute].name }}']
+                      }
+                    }{% endfor %}{% endif %}
+                  ],
+                  'order': [[1, "asc"]],
+                  'sDom': "Ztr",
+                  'autoWidth': true,
+                  'deferRender': true,
+                  'paging': false,
+                  'orderClasses': true,
+                  'scrollY': "600px",
+                  'scrollCollapse': false,
+                  'processing': true,
+                  'language': {
+                    'loadingRecords': '&nbsp;',
+                    'processing': 'Loading...'
+                  }
                 } );
 
-                {% else %}
-
-                $('#samples_primary, #samples_other').DataTable( {
-                    "columns": [
-                        { "bSortable": false, "width": "8%" },
-                        { "type": "natural", "width": "15%" },
-                        { "type": "natural", "width": "25%" },
-                        { "type": "cust-txt", "width": "25%" }{% if has_num_cases %},
-                        { "type": "cust-txt" }{% endif %}{% if sample_groups[0].attributes|length > 0 %},{% endif %}
-                        {% for attribute in sample_groups[0].attributes %}
-                        { "type": "natural" }{% if loop.index < sample_groups[0].attributes|length %},{% endif %}
-                        {% endfor %}
-                    ],
-                    "columnDefs": [ {
-                        "targets": 0,
-                        "orderable": false
-                    } ],
-                    "order": [[1, "asc" ]],
-                    "sDom": "RZtr",
-                    "iDisplayLength": -1,
-                    "autoWidth": true,
-                    "bLengthChange": true,
-                    "deferRender": false,
-                    "bSortClasses": false,
-                    "scrollY": "600px",
-                    "scrollCollapse": false,
-                    "colResize": {
-                        "tableWidthFixed": false
+                {% if sample_groups|length != 1 %}
+                $('#samples_other').DataTable( {
+                  'initComplete': function(settings, json) {
+                    $('.edit_sample_value').change(function() {
+                      edit_data_change;
+                    });
+                  },
+                  'createdRow': function ( row, data, index ) {
+                    $(row).attr('id', "Other_" + data.this_id)
+                    $(row).addClass("value_se");
+                    if (data.outlier) {
+                      $(row).addClass("outlier");
+                    }
+                    $('td', row).eq(0).attr("align", "center");
+                    $('td', row).eq(0).attr("style", "padding: 2px 0px 0px 2px;");
+                    $('td', row).eq(1).addClass("column_name-Index")
+                    $('td', row).eq(1).attr("align", "right");
+                    $('td', row).eq(1).attr("style", "padding: 2px 4px 0px 2px;");
+                    $('td', row).eq(2).addClass("column_name-Sample")
+                    $('td', row).eq(3).addClass("column_name-Value")
+                    $('td', row).eq(3).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% if sample_groups[1].se_exists() %}
+                    $('td', row).eq(4).attr("align", "center");
+                    $('td', row).eq(4).attr("style", "padding-left: 2px; padding-right: 2px;");
+                    $('td', row).eq(5).addClass("column_name-SE")
+                    $('td', row).eq(5).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% if has_num_cases %}
+                    $('td', row).eq(6).addClass("column_name-num_cases")
+                    $('td', row).eq(6).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% endif %} {% else %} {% if has_num_cases %}
+                    $('td', row).eq(4).addClass("column_name-num_cases")
+                    $('td', row).eq(4).attr("style", "text-align: right; padding-top: 2px; padding-bottom: 0px;");
+                    {% endif %} {% endif %}
+                  },
+                  'data': js_data['sample_lists'][1],
+                  'columns': [
+                    {
+                      'data': null,
+                      'orderDataType': "dom-checkbox",
+                      'render': function(data, type, row, meta) {
+                        return '<input type="checkbox" name="searchResult" style="min-height: 20px;" class="checkbox edit_sample_checkbox" value="" checked="checked">'
+                      }
+                    },
+                    {
+                      'title': "ID",
+                      'type': "natural",
+                      'data': "this_id"
                     },
-                    "paging": false
+                    {
+                      'title': "Sample",
+                      'type': "natural",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        return '<span class="edit_sample_sample_name">' + data.name + '</span>'
+                      }
+                    },
+                    {
+                      'title': "Value",
+                      'orderDataType': "dom-input",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        if (data.value == null) {
+                          return '<input type="text" data-value="x" data-qnorm="x" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_value" value="x" size=6 maxlength=6>'
+                        } else {
+                          return '<input type="text" data-value="' + data.value + '" data-qnorm="' + js_data['qnorm_values'][1][parseInt(data.this_id)] + '" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_value" value="' + data.value + '" size=6 maxlength=6>'
+                        }
+                      }
+                    }{% if sample_groups[1].se_exists() %},
+                    {
+                      'bSortable': false,
+                      'type': "natural",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        return '±'
+                      }
+                    },
+                    {
+                      'title': "SE",
+                      'orderDataType': "dom-input",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        if (data.variance == null) {
+                          return '<input type="text" data-value="x" data-qnorm="x" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_se" value="x" size=6 maxlength=6>'
+                        } else {
+                          return '<input type="text" data-value="' + data.variance + '" data-qnorm="x" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_se" value="' + data.variance + '" size=6 maxlength=6>'
+                        }
+                      }
+                    }{% endif %}{% if has_num_cases %},
+                    {
+                      'title': "N",
+                      'type': "natural",
+                      'data': null,
+                      'orderDataType': "cust-txt",
+                      'render': function(data, type, row, meta) {
+                        return '<input type="text" data-value="' + data.num_cases + '" data-qnorm="' + js_data['qnorm_vals'][1][parseInt(data.this_id)] + '" name="value:' + data.name + '" style="text-align: right;" class="trait_value_input edit_sample_num_cases" value="' + data.num_cases + '" size=4 maxlength=4>'
+                      }
+                    }{% endif %}{% if sample_groups[1].attributes|length > 0 %}{% for attribute in sample_groups[1].attributes|sort() %},
+                    {
+                      'title': "{{ sample_groups[1].attributes[attribute].name }}",
+                      'type': "natural",
+                      'data': null,
+                      'render': function(data, type, row, meta) {
+                        return data.extra_attributes['{{ sample_groups[1].attributes[attribute].name }}']
+                      }
+                    }{% endfor %}{% endif %}
+                  ],
+                  'order': [[1, "asc"]],
+                  'sDom': "Ztr",
+                  'autoWidth': true,
+                  'deferRender': true,
+                  'paging': false,
+                  'orderClasses': true,
+                  'scrollY': "600px",
+                  'scrollCollapse': false,
+                  'processing': true,
+                  'language': {
+                    'loadingRecords': '&nbsp;',
+                    'processing': 'Loading...'
+                  }
                 } );
-
                 {% endif %}
 
+                $('#samples_primary, #samples_other').find("tr.outlier").css('background-color', 'yellow')
+
                 var slider = document.getElementById('p_range_slider');
                 noUiSlider.create(slider, {
                     start: [-1.0, 1.0],
diff --git a/wqflask/wqflask/templates/show_trait_edit_data.html b/wqflask/wqflask/templates/show_trait_edit_data.html
index 090602f4..a5e42fdb 100644
--- a/wqflask/wqflask/templates/show_trait_edit_data.html
+++ b/wqflask/wqflask/templates/show_trait_edit_data.html
@@ -1,176 +1,29 @@
 <div>
-    <!--<h2>Review and Edit Data</h2>-->
-
-<!--
-    <div class="well form-horizontal">
-        <fieldset id="showHideOptions">
-            <legend>Block samples</legend>
-            <p>Edit or delete values in the Trait Data boxes, and use the
-                <strong>Reset</strong> option as
-                needed.
-            </p>
-
-            <div id="blockMenuSpan" class="input-append" style="margin-bottom: 10px;">
-                <label for="remove_samples_field">Block samples by index:</label>
-                <input type="text" id="remove_samples_field">
-                <select id="block_group" size="1">
-                  <option value="primary">
-                    {{ sample_group_types['samples_primary'] }}
-                  </option>
-                  <option value="other">
-                    {{ sample_group_types['samples_other'] }}
-                  </option>
-                </select>
-                <input type="button" id="block_by_index" class="btn" value="Block">
-            </div>
-            <div id="remove_samples_invalid" class="alert alert-error" style="display:none;">
-                  Please check that your input is formatted correctly, e.g. <strong>3, 5-10, 12</strong>
-            </div>
-            {% if sample_groups[0].attributes %}
-            <div class="input-append" style="margin-top:10px; margin-bottom:10px;">
-                <label for="exclude_menu">Block samples by group:</label>
-                <select id="exclude_menu" size=1>
-                  {% for attribute in sample_groups[0].attributes %}
-                  <option value="{{ sample_groups[0].attributes[attribute].name.replace(' ', '_') }}">
-                      {{ sample_groups[0].attributes[attribute].name }}</option>
-                  {% endfor %}
-                </select>
-                <select id="attribute_values" size=1>
-                </select>
-                <input type="button" id="exclude_group" class="btn" value="Block">
-            </div>
-            {% endif %}
-            <div>
-              <input type="button" id="hide_no_value" class="btn btn-default" value="Hide No Value">
-              <input type="button" id="block_outliers" class="btn btn-default" value="Block Outliers">
-              <input type="button" id="reset" class="btn btn-primary" value="Reset">
-              <span class="input-append">
-                <input type="button" id="export" class="btn btn-default" value="Export">
-                <select id="export_format" class="select optional span2">
-                  <option value="excel">Excel</option>
-                  <option value="csv">CSV</option>
-                </select>
-              </span>
-              <br>
-              <div style="margin-top:10px;">
-              <input type="button" id="normalize" class="btn btn-default" value="Normalize">
-              <select id="norm_method" class="select optional span2">
-                <option value="log2">Log2</option>
-                <option value="qnorm">Quantile</option>
-                <option value="sqrt">Square Root</option>
-              </select>
-              </div>
-            </div>
-        </fieldset>
-        <br>
-
-        <div>
-            <p>Outliers highlighted in
-                    <strong style="background-color:yellow;">yellow</strong>
-                    can be hidden using
-                    the <strong>Hide Outliers</strong> button.
-            </p>
-
-            <p>Samples with no value (x) can be hidden by clicking
-                    <strong>Hide No Value</strong> button.
-            </p>
-        </div>
+    <div style="padding-bottom: 10px;">
+      <input type="button" class="btn btn-primary reset" value="Reset">
+      <span class="input-append">
+        <input type="button" class="btn btn-default export" value="Export">
+        <select class="select optional span2 export_format">
+          <option value="excel">Excel</option>
+          <option value="csv">CSV</option>
+        </select>
+      </span>
     </div>
-    <br>
--->
 
-    <!--<div id="edit_sample_lists">-->
     {% for sample_type in sample_groups %}
         {% set outer_loop = loop %}
         <div class="sample_group" style="width:{{ trait_table_width }};">
             <h3>{{ sample_type.header }}</h3>
-            <hr>
+            <hr style="margin-top: 4px; margin-bottom: 10px; height: 1px; background-color: #A9A9A9;">
             <div id="table_container">
             <table class="table-hover table-striped cell-border" id="samples_{{ sample_type.sample_group_type }}" style="float: left; width:100%;">
-                <thead>
-                    <tr>
-                        <th></th>
-                        <th>ID</th>
-                        <th>Sample</th>
-                        <th style="text-align: right;">Value</th>
-                        {% if sample_type.se_exists() %}
-                        <th style="padding-left: 3px; padding-right: 3px;">&nbsp;</th>
-                        <th style="text-align: right;">SE</th>
-                        {% endif %}
-                        {% if has_num_cases %}
-                        <th style="text-align: right;">N</th>
-                        {% endif %}
-                        {% for attribute in sample_type.attributes|sort() %}
-                        <th>
-                            {{ sample_type.attributes[attribute].name }}
-                        </th>
-                        {% endfor %}
-                    </tr>
-                </thead>
                 <tbody>
-                    {% for sample in sample_type.sample_list %}
-                    <tr class="{{ sample.class_outlier }} value_se" id="{% if outer_loop.index == 1 %}Primary_{{ sample.this_id }}{% else %}Other_{{ sample.this_id }}{% endif %}">
-                        <td align="center" style="padding-left: 0px; padding-right: 0px; padding-top: 2px; padding-bottom: 0px;" class="column_name-"><input type="checkbox" name="selectCheck" class="checkbox edit_sample_checkbox" style="min-height: 20px;" value="{{ sample.name }}" checked="checked">
-                        </td>
-                        <td class="column_name-Index" align="right">{{ loop.index }}</td>
-                        <td class="column_name-Sample">
-                            <span class="edit_sample_sample_name">
-                                {{ sample.name }}
-                             </span>
-                        </td>
-        
-                        {# Todo: Add IDs #}
-                        <td class="column_name-Value" align="right" style="padding-top: 2px; padding-bottom: 0px;">
-                          <input type="text" data-value="{{ sample.display_value }}" data-qnorm="{{ qnorm_vals[outer_loop.index - 1][loop.index - 1] }}" name="{{ 'value:' + sample.name }}"
-                                 style="text-align:right;"
-                                 class="trait_value_input edit_sample_value"
-                                 value="{{ sample.display_value }}"
-                                 size=6 maxlength=6
-                          >
-                        </td>
-        
-                        {% if sample_type.se_exists() %}
-                        <td align="center" style="padding-left: 2px; padding-right: 2px;">
-                          ±
-                        </td>
-        
-                        {# Todo: Add IDs #}
-                        <td class="column_name-SE" align="right" style="padding-top: 2px; padding-bottom: 0px;">
-                          <input type="text" data-value="{{ sample.display_variance }}" data-qnorm="x" name="{{ 'variance:' + sample.name}}"
-                                 style="text-align:right;"
-                                 class="trait_value_input edit_sample_se"
-                                 value="{{ sample.display_variance }}"
-                                 size=6 maxlength=6
-                          >
-                        </td>
-                        {% endif %}
-                        {% if has_num_cases %}
-                        <td class="column_name-num_cases" align="right">
-                          <input type="text" data-value="{{ sample.display_num_cases }}" name="{{ 'num_cases:' + sample.name}}"
-                                 style="text-align:right;"
-                                 class="trait_value_input edit_sample_num_cases"
-                                 value="{{ sample.display_num_cases }}"
-                                 size=4 maxlength=4
-                          >
-                        </td>
-                        {% endif %}
-        
-                        {# Loop through each attribute type and input value #}
-                        {% for attribute in sample_type.attributes|sort() %}
-                        <td class="std_cell column_name-{{ sample_type.attributes[attribute].name.replace(' ', '_') }}">
-                          {{ sample.extra_attributes[sample_type.attributes[attribute].name] }}
-                        </td>
-                        {% endfor %}
-                    </tr>
-                    {% endfor %}
+                  <td colspan="100%" align="center"><br><b><font size="15">Loading...</font></b><br></td>
                 </tbody>
             </table>
             </div>
         </div>
         <br>
         {% endfor %}
-    <!--</div>-->
-
-
     <input type="hidden" name="Default_Name">
 </div>
diff --git a/wqflask/wqflask/templates/show_trait_mapping_tools.html b/wqflask/wqflask/templates/show_trait_mapping_tools.html
index e0bc8eb8..e7f3eca3 100644
--- a/wqflask/wqflask/templates/show_trait_mapping_tools.html
+++ b/wqflask/wqflask/templates/show_trait_mapping_tools.html
@@ -242,7 +242,7 @@
                         <div class="mapping_method_fields form-group">
                             <label style="text-align:right;" for="mapping_permutations" class="col-xs-3 control-label">Permutations</label>
                             <div style="margin-left:20px;" class="col-xs-4 controls">
-                                <input name="num_perm_rqtl_geno" value="2000" type="text" class="form-control">
+                                <input name="num_perm_rqtl_geno" value="0" type="text" class="form-control">
                             </div>
                         </div>
                         <div class="mapping_method_fields form-group">
@@ -268,9 +268,9 @@
                             <label style="text-align:right;" for="mapmethod_rqtl_geno" class="col-xs-3 control-label">Method</label>
                             <div style="margin-left:20px;" class="col-xs-4 controls">
                               <select name="mapmethod_rqtl_geno" class="form-control">
+                                <option value="hk" selected>hk</option>
                                 <option value="em">em</option>
                                 <option value="imp">imp</option>
-                                <option value="hk">hk</option>
                                 <option value="ehk">ehk</option>
                                 <option value="mr">mr</option>
                                 <option value="mr-imp">mr-imp</option>
diff --git a/wqflask/wqflask/templates/show_trait_transform_and_filter.html b/wqflask/wqflask/templates/show_trait_transform_and_filter.html
index fdf34c27..d1765778 100644
--- a/wqflask/wqflask/templates/show_trait_transform_and_filter.html
+++ b/wqflask/wqflask/templates/show_trait_transform_and_filter.html
@@ -39,10 +39,10 @@
             <div>
               <input type="button" id="hide_no_value" class="btn btn-default" value="Hide No Value">
               <input type="button" id="block_outliers" class="btn btn-default" value="Block Outliers">
-              <input type="button" id="reset" class="btn btn-primary" value="Reset">
+              <input type="button" class="btn btn-primary reset" value="Reset">
               <span class="input-append">
-                <input type="button" id="export" class="btn btn-default" value="Export">
-                <select id="export_format" class="select optional span2">
+                <input type="button" class="btn btn-default export" value="Export">
+                <select class="select optional span2 export_format">
                   <option value="excel">Excel</option>
                   <option value="csv">CSV</option>
                 </select>