How to read mzxml file with Bad subscripting error?

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khalfalla
khalfalla 2014-10-8
回答： Luuk van Oosten 2014-11-24
I'm working in mass spectrometer data with an extension (.mzxml) and I'm able to read the file using (mzxmlread) command. The problem, when I read the same file with another software that used for re-processing mass spectrometer data OpenMZ "TOPPView" and save the file with the same extension (mzxml) when I try to read the file in Matlab, the error message appears which is: {
??? Error using ==> numel Bad subscripting index.
Error in ==> mzxmlread at 222 count2 = numel(out.mzXML.msRun.(elementName).(childElemNm)); }
if there is any help that will be really appreciated. Khalf
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khalfalla
khalfalla 2014-10-10
First of all, there are no numerical values for the three parameters just expressions. I use matlab R2013a version. The original file is mzxml file, the software is able to open it, and if I save the file without processing, I'm still able to read it again with matlab, but if I did any processing and save as mzxml as before, the error appear.
Geoff Hayes
Geoff Hayes 2014-10-10
Given the line of code
numel(out.mzXML.msRun.(elementName).(childElemNm));
I expect elementName and chilElemNm to be strings, as they are used to access fields within the out.mzXML.msRun structure.

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回答（1 个）

Luuk van Oosten
Luuk van Oosten 2014-11-24
Dear Khalfalla,
The problem might be that your mzxml file that you create is too new/advanced for MATLAB to read using 'mzxmlread'.
The function ' mzxmlread' reads mzXML files that are conform to the mzXML 2.1 specification or earlier specifications. Use an older version of your mzxml processing software and try again!

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