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Just adding js script to typo3

I have the following problem.
I have a typo3 page without any template I made by myself, but it gets in some way the style and the behavior of the other pages (I mean navigation, footer and so on). Now I have written some HTML inside the page by creating an HTML element.
In this HTML element, I included some js-code, which uses jQuery. The problem is, that the page loads the jquery at the footer and my scripts are loading before (in the HTML element). So my script does not recognize jQuery. How can I add my scripts at the whole end of the page? I know, that it has something to do with templates, but when I create a new template for the page, the whole content disappears.
Would be nice to get any help.
Cheers,
Andrej

It is usually good practice to read all your JS from a single file placed in the footer of the page. Add this to the setup section of your page template:
page.includeJSFooter.scripts = fileadmin/js/scripts.js
Then remove the JS from the HTML template and put into this file. This file could hold all your custom JS and possibly even all the libraries you use on the page (if you are not loading them from a CDN).
Bonus: the JS doesn't have to be re-loaded on every page view but can be read from cache.
For reference: https://docs.typo3.org/typo3cms/TyposcriptReference/Setup/Page/Index.html#includejsfooter-array

I hope by template you mean a template record where you store your TypoScript? Otherwise this answer is not what you are looking for. :)
You can just add an extension template on your page that only adds to the rest of the TypoScript but does not override anything. To do so, go to the template module, choose "info/modify" in the dropdown at the top and use this button
Explanation: an extension template has the checkboxes for clearing the constants and the setup not checked and will not mess with the rest of your site's TypoScript:

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am using C# as my back end coding.

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I am using this script for tooltips.
Is there any way to load content of tooltip from URL(dynamic loaded content from PHP script) instead of using path to html/php file?
Example
I need this:
Some link
instead of:
Some link

I had a brief look at the plugin, and you should be able to use /site/getcontent/1 without any issue.
Some link
(I'm assuming is being loaded on the same domain of your html file)

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How can I read XML file on html page.
i want my XML link value to go in anchor
tags href attribute and Name of the website
between the anchor tags
I just know very basic Javascript.
I am trying to change value in footer of my website using XML because i have more than 100 pages and every time I change something in footer I have to change all 100 pages manually that's why i want to change the footer links through XML.
Please explain by showing code page should look like this
<div>
<a href "this value should be read by xml">and this value should also be read by xml</a>
</div>

Thanks guys for your answers but after a lot of search i found exactly what i wanted. I wanted to change multiple pages footer section using single file without changing my pages name (from .html pages to other like .aspx,.php,.asp) I thought using xml would be a good way but i am really novice in this field and xml didnt work for me (or say i am unable to use it in proper way) therefore i found out an alternative to change to content of multiple html pages using single file. All i needed to do was use SSI aka server side includes. The only thing you need to do is check if your server supports SSI or not and then make an individual html footer page that you want to include on every page. In order to include that external footer page just type.
<!--#include file="footer.html" -->
in the area,div,table wherever you want your footer to load and its done .
For detailed article pls go to following link http://httpd.apache.org/docs/2.2/howto/ssi.html

How to load javascript function on page load ?

I have used javascript to generate 2D bar-graphs in a HTML page.
When i am trying to load this HTML page containing bar-graph in to a div tag of some other HTML page using jQuery .load() function bar-graph (i.e, scripts) are not loading.
Please help on this issue.
For example i have bar-graph in xyz.html.
I am trying to load xyz.html in abc.html div tag using jquery .load() function.
Bar-graphs are missing.
Hoping for a reply, thanks for help in advance.

You should use iframe and load the html,I think,we can not directly load html in a div.

Are you generating the xyz.html output your self or is it created by some 3rd-party app?
If you're generating bar graphs your self, I recommend to generate just the content of body, not the whole site. Then the loading into abc.html should work correctly.
If they are not generated by you, use mhasan advice, but you shouldn't get the whole content oh html tag but only content of body tag.
BTW: have you an example of the script (js and html) somewhere to look at?

In jQuery you can use the
$(document).ready(function(){
});
to load the script when the page is ready. so you better put the chart generation script
inside this function in xyz.html (as said in your example).
You can also use this document.ready in your abc.html also to load the div.