Re: [proteowizard-support] Problem with MS3

[Matthew C. <mat...@gm...>]

  Hi René,

What version of msconvert? Our unit test file has MS3 scans in it and it writes the correct metadata. Although I'm kind of baffled as to how you're seeing 
activationMethod in the precursorMz element because we've been writing that attribute to the scan element since some revision in the 1300s. And now that I look 
at the schema again, we've been writing it the wrong place. The correct place is the precursorMz element, like you show. So I'm inclined to assume that the XML 
you quoted did not come from msconvert.

-Matt


On 9/16/2010 9:23 AM, Rene Ranzinger wrote:
> Dear developer,
>
> we were trying to use msconvert to translate Termo RAW data files to mzXML. Our experiment is a complex sample with several ms1, ms2 and ms3 scans. Data 
> translation and conversion seems to work fine but for all ms3 scan the precursor tag looks like this:
>
> <precursorMz precursorIntensity="0" precursorCharge="1" activationMethod="CID" >-1</precursorMz>
>
> No precursor MZ is given and no precursorIntensity. The data for the corresponding scan seems to be ok. Is there a special configuration necessary to run 
> msconvert for ms^3+?
>
> Thanks for your help.
>
> René Ranzinger