version: 1.0.0
mzmatch version: 1.0.2
author: RA Scheltema (

Converts the contents of a Waters RAW file to one or more open standard files (currently only mzXML and mzML are supported).

* This tool makes direct use of the Waters DLL and can only be used on Microsoft Windows platforms.


Windows batch-file:
SET JAVA=java -cp mzmatch.jar -da -dsa -Xmn1g -Xms1425m -Xmx1425m -Xss128k -XX:+UseParallelGC -XX:ParallelGCThreads=10

REM extract all the mass chromatograms
%JAVA% mzmatch.ipeak.convert.WatersToMzML -v -i test.RAW -o test\ -format mzML


Commandline options*
-i [filename] A list of valid Waters RAW files to be converted to the chosen format.
-o <filename> The directory where to output the files.
-format <mzXML|mzML> The output format to use. The current choices are limited to mzXML and mzML as these are the most used.
-h   When this is set, the help is shown.
-v   When this is set, the progress is shown on the standard output.
* per option: [] denotes multiple input values; <> denotes a single input value