Try re-generating the index at the end of the mzXML file after you
edit out the charge state. The TPP tools are failing to parse your
mzXML because the scan index is no longer valid. You can re-generate
the index using "indexmzXML" which is distributed with the TPP
(c:\inetpub\tpp-bin\indexmzXML.exe). Simply run it as:
indexmzXML.exe <yourfile>.mzXML
Tandem doesn't make use of the scan index and simply reads the mzXML
from start to finish which is why it has no problems reading your
edited file.
On Fri, Apr 27, 2012 at 7:40 AM, polia...@med.umich.edu
<polia...@med.umich.edu> wrote:
> Hi,
> I am analyzing some old data from Velos that was acquired with charge
> state screening during acquisition, i.e. charge state is determined
> and stored in .raw file. However, we now want to search this data
> without pre-determined charge state since it is often not accurately
> assigned (this is just Velos without Orbi). Is there a way to make X!
> Tandem disregard charge state in an mzXML? Just removing charge state
> field in mzXML works for X!Tandem but we later have issues with TPP as
> it fails to parse XML,
> Thanks,
> Anton.
>
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