Turns out these searches were run through Mascot outside of the TPP
tools.  The result is that the spectrum viewer link didn't work
because there's no scan number information available, due to how the
mgf files were created, and the resulting analysis file names (dat
file translated to pep.xml) did not seem to follow any expected
convention.

Here's the recipe to follow for running Mascot if you want full
compatibility with the TPP:
   http://tools.proteomecenter.org/wiki/index.php?title=TPP:Mascot_and_the_TPP

Try following the steps in the wiki page and report back if you still
have problems viewing any of the results.  Good luck!

On Wed, Sep 30, 2009 at 6:05 PM, zeyu sun <[email protected]> wrote:
> Sorry to bother everybody here.
> I have a problem with the pepXML viewer: when I finish the XInteract run,
> I'm not able to open COMET spectrum view by clicking the ion tab. Does
> anyone have the same problem here?
> thanks
>
> --
> Zeyu Sun
>
>
> >
>

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