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-rw-r--r--wqflask/wqflask/show_trait/export_trait_data.py16
-rw-r--r--wqflask/wqflask/static/new/javascript/show_trait.js43
-rw-r--r--wqflask/wqflask/static/new/javascript/stats.js31
-rw-r--r--wqflask/wqflask/views.py6
4 files changed, 74 insertions, 22 deletions
diff --git a/wqflask/wqflask/show_trait/export_trait_data.py b/wqflask/wqflask/show_trait/export_trait_data.py
index 558372bb..a99e72a6 100644
--- a/wqflask/wqflask/show_trait/export_trait_data.py
+++ b/wqflask/wqflask/show_trait/export_trait_data.py
@@ -27,11 +27,19 @@ def cmp_samples(a, b):
if b[0] == 'name':
return 1
elif b[0] == 'value':
- if a[0] == 'se':
+ if a[0] == 'name':
+ return -1
+ else:
return 1
+ elif b[0] == 'se':
+ if a[0] == 'name' or a[0] == 'value':
+ return -1
else:
+ return 1
+ elif b[0] == 'num_cases':
+ if a[0] == 'name' or a[0] == 'value' or a[0] == 'se':
return -1
- elif b[0] == 'se':
- return -1
+ else:
+ return 1
else:
- return 0 \ No newline at end of file
+ return -1 \ No newline at end of file
diff --git a/wqflask/wqflask/static/new/javascript/show_trait.js b/wqflask/wqflask/static/new/javascript/show_trait.js
index 9bbcd560..f49ef063 100644
--- a/wqflask/wqflask/static/new/javascript/show_trait.js
+++ b/wqflask/wqflask/static/new/javascript/show_trait.js
@@ -35,11 +35,33 @@ Stat_Table_Rows = [
vn: "max",
pretty: "Maximum",
digits: 2
- }, {
- vn: "range",
- pretty: "Range (log2)",
- digits: 3
- }, {
+ }
+]
+
+if (js_data.dataset_type == "ProbeSet"){
+ if (js_data.data_scale == "linear_positive" || js_data.data_scale == "log2") {
+ Stat_Table_Rows.push({
+ vn: "range",
+ pretty: "Range (log2)",
+ digits: 3
+ })
+ } else {
+ Stat_Table_Rows.push({
+ vn: "range",
+ pretty: "Range",
+ digits: 3
+ })
+ }
+} else {
+ Stat_Table_Rows.push({
+ vn: "range",
+ pretty: "Range",
+ digits: 3
+ })
+}
+
+Stat_Table_Rows.push(
+ {
vn: "range_fold",
pretty: "Range (fold)",
digits: 3
@@ -57,7 +79,7 @@ Stat_Table_Rows = [
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() {
@@ -314,7 +336,7 @@ make_table = function() {
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"){
+ if ((row.vn == "range_fold") && js_data.dataset_type == "Publish"){
continue;
}
row_line = "<tr>";
@@ -696,10 +718,13 @@ get_sample_table_data = function(table_name) {
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.value = $(element).find('.edit_sample_value:eq(0)').val();
+ if ($(element).find('.edit_sample_se').length > 0) {
row_data.se = $(element).find('.edit_sample_se').val();
}
+ if ($(element).find('.edit_sample_num_cases').length > 0) {
+ row_data.num_cases = $(element).find('.edit_sample_num_cases').val();
+ }
_ref = js_data.attribute_names;
for (key in _ref) {
if (!__hasProp.call(_ref, key)) continue;
diff --git a/wqflask/wqflask/static/new/javascript/stats.js b/wqflask/wqflask/static/new/javascript/stats.js
index 356d1cb0..4df03412 100644
--- a/wqflask/wqflask/static/new/javascript/stats.js
+++ b/wqflask/wqflask/static/new/javascript/stats.js
@@ -69,11 +69,23 @@ Stats = (function() {
};
Stats.prototype.range = function() {
- return this.max() - this.min();
+ if (js_data.dataset_type == "ProbeSet"){
+ if (js_data.data_scale == "linear_positive"){
+ return Math.log2(this.max()) - Math.log2(this.min());
+ } else {
+ return this.max() - this.min()
+ }
+ } else {
+ return this.max() - this.min()
+ }
};
Stats.prototype.range_fold = function() {
- return Math.pow(2, this.range());
+ if (js_data.dataset_type == "ProbeSet"){
+ return Math.pow(2, this.range());
+ } else {
+ return this.range()
+ }
};
Stats.prototype.interquartile = function() {
@@ -81,10 +93,19 @@ Stats = (function() {
length = this.the_values.length;
console.log("in interquartile the_values are:", this.the_values);
console.log("length is:", length);
- q1 = this.the_values[Math.floor(length * .25)];
- q3 = this.the_values[Math.floor(length * .75)];
+ if (js_data.dataset_type == "ProbeSet" && js_data.data_scale == "linear_positive") {
+ q1 = Math.log2(this.the_values[Math.floor(length * .25)]);
+ q3 = Math.log2(this.the_values[Math.floor(length * .75)]);
+ } else {
+ q1 = this.the_values[Math.floor(length * .25)];
+ q3 = this.the_values[Math.floor(length * .75)];
+ }
iq = q3 - q1;
- return Math.pow(2, iq);
+ if (js_data.dataset_type == "ProbeSet") {
+ return Math.pow(2, iq);
+ } else {
+ return iq;
+ }
};
Stats.prototype.skewness = function() {
diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py
index 67e83366..d00f067e 100644
--- a/wqflask/wqflask/views.py
+++ b/wqflask/wqflask/views.py
@@ -321,10 +321,8 @@ def export_trait_excel():
workbook = xlsxwriter.Workbook(buff, {'in_memory': True})
worksheet = workbook.add_worksheet()
for i, row in enumerate(sample_data):
- worksheet.write(i, 0, row[0])
- worksheet.write(i, 1, row[1])
- if len(row) > 2:
- worksheet.write(i, 2, row[2])
+ for j, column in enumerate(row):
+ worksheet.write(i, j, row[j])
workbook.close()
excel_data = buff.getvalue()
buff.close()