aboutsummaryrefslogtreecommitdiff
path: root/wqflask
diff options
context:
space:
mode:
authorzsloan2020-05-18 15:35:29 -0500
committerzsloan2020-05-18 15:35:29 -0500
commit80709f6573a85f2d1195f938006f46044651320b (patch)
treed0cf3dfd27862ccd827e02a72339757657d530b4 /wqflask
parent442ec66a603bdc312f760027d4c000ba7af14fe6 (diff)
downloadgenenetwork2-80709f6573a85f2d1195f938006f46044651320b.tar.gz
Added warning that 1 is being added when doing log transform on traits with sample values between 0 and 1
Diffstat (limited to 'wqflask')
-rw-r--r--wqflask/wqflask/static/new/javascript/show_trait.js28
-rw-r--r--wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js5
-rw-r--r--wqflask/wqflask/templates/show_trait.html3
-rw-r--r--wqflask/wqflask/templates/show_trait_transform_and_filter.html2
4 files changed, 28 insertions, 10 deletions
diff --git a/wqflask/wqflask/static/new/javascript/show_trait.js b/wqflask/wqflask/static/new/javascript/show_trait.js
index 2f276021..c0b2e6db 100644
--- a/wqflask/wqflask/static/new/javascript/show_trait.js
+++ b/wqflask/wqflask/static/new/javascript/show_trait.js
@@ -755,12 +755,12 @@ check_for_zero_to_one_vals = function() {
$('.trait_value_input').each(function() {
current_value = $(this).data("value")
if(isNaN(current_value)) {
- return;
+ return true;
} else {
current_value = parseFloat(current_value)
if (0 <= current_value && current_value < 1){
zero_to_one_vals_exist = true
- return false;
+ return false
}
}
});
@@ -769,7 +769,6 @@ check_for_zero_to_one_vals = function() {
normalize_data = function() {
if ($('#norm_method option:selected').val() == 'log2' || $('#norm_method option:selected').val() == 'log10'){
- zero_to_one_vals_exist = check_for_zero_to_one_vals();
if ($('input[name="transform"]').val() != "log2" && $('#norm_method option:selected').val() == 'log2') {
log2_normalize_data(zero_to_one_vals_exist)
$('input[name="transform"]').val("log2")
@@ -810,7 +809,28 @@ normalize_data = function() {
}
}
-$('#normalize').click(normalize_data);
+zero_to_one_vals_exist = false
+
+show_transform_warning = function() {
+ transform_type = $('#norm_method option:selected').val()
+ zero_to_one_vals_exist = check_for_zero_to_one_vals();
+ if (transform_type == "log2" || transform_type == "log10"){
+ if (zero_to_one_vals_exist){
+ $('#transform_alert').css("display", "block")
+ }
+ } else {
+ $('#transform_alert').css("display", "none")
+ }
+}
+
+$('#norm_method').change(function(){
+ show_transform_warning()
+});
+$('#normalize').hover(function(){
+ show_transform_warning()
+});
+
+$('#normalize').click(normalize_data)
switch_qnorm_data = function() {
return $('.trait_value_input').each((function(_this) {
diff --git a/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js b/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js
index 7176a0da..01da3f74 100644
--- a/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js
+++ b/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js
@@ -131,11 +131,8 @@
};
outlier_text = "One or more outliers exist in this data set. Please review values before mapping. Including outliers when mapping may lead to misleading results.";
-
- runtime_warning_text = "This function could take as long as 10-20 minutes to run, so please do not close your browser window until it finishes."
-
showalert = function(message, alerttype) {
- return $('#alert_placeholder').append('<div id="alertdiv" class="alert ' + alerttype + '"><a class="close" data-dismiss="alert">�</a><span>' + message + '</span></div>');
+ return $('#outlier_alert_placeholder').append('<div id="mapping_alert" class="alert ' + alerttype + '"><a class="close" data-dismiss="alert">�</a><span>' + message + '</span></div>');
};
$('#suggestive').hide();
diff --git a/wqflask/wqflask/templates/show_trait.html b/wqflask/wqflask/templates/show_trait.html
index d29be30b..7380d198 100644
--- a/wqflask/wqflask/templates/show_trait.html
+++ b/wqflask/wqflask/templates/show_trait.html
@@ -74,6 +74,7 @@
<div class="panel-body">
{% include 'show_trait_transform_and_filter.html' %}
</div>
+ <div id="transform_alert_placeholder"><div id="transform_alert" style="display: none;"class="alert alert-success outlier-alert"><a class="close" data-dismiss="alert">�</a><span>Because there are some values between 0 and 1, log2 and log10 transforms will add 1 to each value.</span></div></div>
</div>
</div>
<div class="panel panel-default">
@@ -98,7 +99,7 @@
<div class="panel-body">
{% include 'show_trait_mapping_tools.html' %}
</div>
- <div id="alert_placeholder"></div>
+ <div id="outlier_alert_placeholder"></div>
</div>
</div>
<div class="panel panel-default">
diff --git a/wqflask/wqflask/templates/show_trait_transform_and_filter.html b/wqflask/wqflask/templates/show_trait_transform_and_filter.html
index 4be6d249..b4118b04 100644
--- a/wqflask/wqflask/templates/show_trait_transform_and_filter.html
+++ b/wqflask/wqflask/templates/show_trait_transform_and_filter.html
@@ -70,7 +70,7 @@
<div>
<p>Outliers highlighted in
- <strong style="background-color:yellow;">yellow</strong>
+ <strong style="background-color:orange;">orange</strong>
can be hidden using
the <strong>Hide Outliers</strong> button.
</p>