Error: WRONG_POLARITY

July 07, 2015, 03:35:04 PM

I created mzML files with msconvert (command line version)

Parameters:

filter="peakPicking true 1-"
filter="msLevel 1"
filter="sortByScanTime"
polarity=positive
zlib=true

When I try to run them in XCMSOnline, I get "ERROR, WRONG_POLARITY"

An incorrect polarity parameter was selected in the parameter settings for the datafiles being run. Please check the polarity of the uploaded files and rerun with the correct polarity settings.

My XCMS parameters are set to positive using HPLC/Orbitrap.

Am I doing something wrong?

Paul

Re: Error: WRONG_POLARITY

Reply #1 – July 08, 2015, 11:10:39 AM

So, I think I figured it out... When I used this version of Proteowizard-MSConvert

ProteoWizard release: 3.0.6965 (2014-12-3)
ProteoWizard MSData: 3.0.6948 (2014-11-26)
ProteoWizard Analysis: 3.0.6909 (2014-11-19)
Build date: Dec 8 2014 13:44:49

there was something in the mzML that was not acceptable by Xcmsonline. I reexported as mzXML and it seems to have worked (at least it got past the File Check phase).