Interesting. That appears to be a bug in the config file reader. Until it gets fixed, use the
command-line equivalent for filters, i.e.
--filter "analyzerType ITMS" --filter "polarity negative"
-Matt
On 3/29/2011 11:49 AM, Cédric wrote:
Hi Matt. I used a configuration file (-c) containing the following
information
outdir=Z:\Toxikologie\MSconvert\negmzXMLfiles
mzXML=true
32=true
filter="analyzerType ITMS"
filter="polarity negative"
for the version, it is the one contained with ProteoWizard release
2.1.2596 (ProteoWizard MSdata 2.1.2595, ProteWizardAnalysis 2.1.2587).
Is it the information that you need? Thanks for your help
Cédric
On Mar 29, 5:45 pm, Matthew Chambers<[email protected]>
wrote:
What was your exactly command-line and which version of msconvert did you use?
-Matt
On 3/29/2011 3:07 AM, C dric wrote:
Hi,
I am using msconvert to transform my .raw file acquired on a LTQ Velos
into mzXML file. I performed LC-MS measurements in positive/negative
mode in a single run, therefore my files contain both ion trace (i.e.,
positive and negative). I am trying to extract from my .raw file the
negative ion trace and convert it in mzXML (filter="polarity
negative"). When I am doing that, msconvert ignore my filter (it wrote
back Ignoring wrapper: ) and transform my raw data into mzXML file
which contains the negative and positive ion trace. Does anybody know
how to extract each ion trace separately?
thanks a lot for your help, C dric
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