MS File Converter

This page provides you the links to the files containing the MSfile-Converter.

This utility converts the binary files from Waters, Bruker and Thermo Fisher Scientific LCMS systems into a SQLite file format that can be used by Mass-Metasite (Molecular Discovery, Ltd).

Starting from July 2016, more than one converter is available, have a look at the table below and download the one which best fits your needs.


  1. Download the file from the links provided by the table.
  2. Unzip the downloaded file.
  3. Configure Mass Metasite or other programs with the location of the msfile-converter.exe file.

MassMetaSite 3.3.5 and above, MassChemSite 2.0

Brand Converter Features Requirements Installation tips
THERMO 2.1.3-msvc64 Works on Windows 10

Requires MSFile Reader , Visual C++ Redistributable 2012 and Visual C++ Redistributable 2013 to be installed 

WATERS 2.1.4-waters-msvc64 Convert RAW/Ion Mobility files from MassLynx/Unifi

Requires WatersRawSDKRedist V4.2.0.0 , Visual C++ Redistributable 2012 and Visual C++ Redistributable 2013 to be installed 

Need to extract and copy the files MassLynxRaw.dll and cdt.dll (located inside the folder x64) into the msfileconverter directory. MassLynx is not needed
BRUKER 2.1.3-msvc64 CompassXtract not needed. Support broadband MS/MS

MassMetaSite 3.2.0 and above

1.5.4-win32 Requires Thermo MSFileReader to be installed. Fails on Windows 10 Requires MassLynx to be installed on the same computer. Fails to convert files exported from Unify Do not support broadband MS/MS, Require CompassXtract package which is available at the Bruker download website

These tools have been prepared by using the MZQt library