[proteowizard-support] MSconvert crash with Waters data conversion

[Black, B. <Bre...@nr...>]

Hi there,

First off, thank you for creating such a wonderful conversion program as part of Proteowizard. We have used many times! Unfortunately, I am recently having a problem converting Waters .RAW files to .mzML format with MSconvert. MSconvert works wonderfully for the original files, but if I use MassLynx to first adjust for lockmass (we apply after data collection) and to centroid (automatic peak picking, after collection in profile), MSconvert crashes without an error notification when I try and convert these MassLynx adjusted files. I would prefer to use MassLynx to adjust/filter the data, as we have found this method best suited for the data collected on the Waters system. Have you encountered this before and/or are you able to give us some pointer on how to overcome is problem? An example file set can be downloaded from: here<https://www.dropbox.com/sh/gzo428p2zau3vxm/AAAiqoJpYCSXSbr1e7sy4ptma?dl=0>

Thank you very much in advance!
Best regards,
Brenna Black, PhD
Scientist

National Renewable Energy Laboratory (NREL)
15013 Denver West Parkway | Golden, CO 80401
Bre...@nr...<mailto:Bre...@nr...> | www.nrel.gov<http://www.nrel.gov/>