I'm trying to run Tandem2XML to convert an X!Tandem output file to
pepXML, but I get an error every time I try to run it.
When I run: Tandem2XML /full/path/name/to/tandem_output.mzXML /full/
path/name/to/test.pepXML
I get the errors:
WARNING: Failed to open mzXML file.
Output will not contain retention times.
I tried searching for any sort of documentation on Tandem2XML but I
can't find any, so I can't figure out what the problem even is.
Notes: If it's of any importance, I'm using Ubuntu and running the
program under wine. Also, I'm unsure of what the file extension for
the X!Tandem output is, so I simply gave it the mzXML extension.
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