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If anyone knows the answer to this, I appreciate it very much if you could post it here, I'm trying to use a Jquery plugin and I don't know where to put the reference file (plugin.jquery.js) since it won't work on layout.master I figured it should be located on config.sys just like every js file but I don't know how to call it once its there.
for instance if this is on config.sys
<add key="newplugin" value="~/ClientScript/plugin.jquery.js" />
See this thread where I just answered a similar question.
Hope it helps,