Tuesday, January 19, The structure of mzML files as well as approaches to read them using Matlab will be explore in the next post. They both get that same error. If I have any more issues I will let you know, Thanks Gina. You are commenting using your WordPress. In our case we did not manage to run it and used CompassXport instead that is specific for Bruker file.

compassxport

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compassxlort When I try to directly open the files in mMass, the fid file does nto work at all and comes back saying it cannot open the file. Double click on the file and it should self extract. CompassXport can be download after registering for free from the Bruker web site.

compassxport

I have so far been unable to open either the analysis. This is the simplest example where analysis. You can convert entire groups of files and specify output names.

Problem with opening Bruker Files (Page 1) – Bugs and Troubleshooting – mMass Support Forum

CompassXport is run from the command line. In our case we did not manage to run it and used CompassXport instead that is specific for Bruker file. You can simply copy and paste it in a new function in Matlab.

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compassxport

Now anyone can read native Bruker and some Agilent files. You can download the free Insilicos viewer at http: If I have any more issues I will let you know, Thanks Gina.

You are commenting using your Twitter account. Compasspxort will need to click on the login button at the top to register for an account.

compassxport

Your new mzXML file can then be viewed with the free Compassxpport viewer and searched on public sequence database search engines. I am not sure if I am entering the file correctly either which could be the cause. Therefore this file cannot be directly converted into mzML. I have version 5.

Converting Bruker files to the mzML format using CompassXport. | finnee blog

Leave a Reply Cancel reply Enter your comment here I think the problem is with the Compass Xport software, as when I try and convert the files using it, I keep getting an error ID You are commenting using your Clmpassxport.

I also tried entering: In addition be sure not to use any non-ascii character in the folder names.

Actually DOS is case insensitive so there is no need to capitalize the program name or the folder names. Notify me of new comments via email. Please let me know if you have any suggestions. Problem with opening Bruker Files Hi Gina, there are several things related to your problem: Once installed, when coompassxport type the CompassXport command on the command line your computer should recognize it.

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Posts [ 3 ]. If you need to find the CompassXport program to place it in the folder you should be compasscport to find it in the following directory C: You can download CompassXport for free from Bruker.

Thank you for your rapid response. Active topics Unanswered topics.

Software:CompassXport

I will give it a try with a different computer that has more RAM to see if I can get it to open. This format is now accepted by instrument manufacturers and they often provide freeware allowing converting their proprietary file to the mzML format.

Always use the full path. Good news is that once loaded and stored in mMass’s format loading time is than better.