I was getting this issue, when I included the timeline js include code 
after some other code (PHP, etc). It started working when I included the 
timeline js files, the first thing in the file. 
Usually it is recommended to have the <script> include code, towards the 
end for better network performance, but in this case, it seems it breaks 
the Timeline code somehow.

Hope it helps.

On Thursday, October 4, 2012 2:38:42 AM UTC+5:30, Steve wrote:
>
> The Simile Timeline (v. 2.3.1) is hosted on National Science 
> Foundation's website at 
> http://www.nsf.gov/news/special_reports/history-nsf/timeline/. 
> The operating system is Windows XP v .5.1. The error message "Failed 
> to derive prefix for Timeline API code files" pops up when the user 
> clicks a link in a bubble on the timeline in Firefox (15.0.1), Safari 
> (5.1.7) and Chrome (v. 22.0.1229.79), but not in IE 8 or IE 9. I've 
> tried several suggestions on simile-widgets-dev and simile-widgets but 
> no success. All the scripts are in the <head> tags. Does anyone have 
> any idea what could be causing this issue? 
>

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