Nevermind, upon reading up in the wiki it seems msconvert doesnt support Waters at all. I guess previously I was using MassWolf to convert to mzML. Any idea if Waters support is being programmed in to msconvert?
Chris On Aug 24, 11:01 am, chr12is <[email protected]> wrote: > Thanks Matt, that got it to run somewhat. > > The next error I run into now when I run it is this: > > ###### BEGIN Command Execution ###### > [Mon Aug 23 23:00:27 2010] EXECUTING: c:\Inetpub\tpp-bin\msconvert -v > --mzML -o c:/Inetpub/wwwroot/ISB/data/Chris c:/Inetpub/wwwroot/ISB/ > data/Chris/ch_041810_HeLa_InGel_9_ex1.raw > OUTPUT: > format: mzML (Precision_64 [ 1000514:Precision_64 > 1000515:Precision_32 ], ByteOrder_LittleEndian, Compression_None) > indexed="true" > outputPath: c:/Inetpub/wwwroot/ISB/data/Chris > extension: .mzML > contactFilename: > > filters: > > filenames: > c:/Inetpub/wwwroot/ISB/data/Chris/ch_041810_HeLa_InGel_9_ex1.raw > > processing file: c:/Inetpub/wwwroot/ISB/data/Chris/ > ch_041810_HeLa_InGel_9_ex1.raw > [ReaderFail] [Reader_Waters::read()] Waters RAW reader not > implemented: support was explicitly disabled when program was built > Error processing file c:/Inetpub/wwwroot/ISB/data/Chris/ > ch_041810_HeLa_InGel_9_ex1.raw > > END OUTPUT > RETURN CODE:256 > ###### End Command Execution ###### > > Any idea for a workaround for this? I seem to remember being able to > convert Waters .raw folders to mzML in the old release. > > Chris > > On Aug 24, 10:39 am, Matthew Chambers <[email protected]> > wrote: > > > > > Hi Chris, > > > I downloaded and installed 4.4 on my development machine and I see the same > > issue. It's clear what the problem is though: the > > MSFileReader.XRawfile2.SxS.manifest and Interop.EDAL.SxS.manifest files are > > not included in the installation. They must be kept side by side with the > > msconvert > > executable. An official fix will require a TPP patch, but in the meantime, > > you can download these files directly from ProteoWizard and put them in > > your tpp-bin > > directory:http://proteowizard.svn.sourceforge.net/viewvc/proteowizard/trunk/pwi...... > > > -Matt > > > On 8/24/2010 9:19 AM, chr12is wrote: > > > > Hi, > > > > I am having a problem with MSConvert getting my files to mzML. I > > > recently upgraded to TPP 4.4 from 4.3.1. The previous version of the > > > TPP was working fine on this system. I am running in to the same > > > problem on two systems, one with Windows Server 2008, and one with > > > Windows 7, both 64-bit systems, only one of which is running anti- > > > virus. > > > > My problem is since the upgrade of the TPP, msconvert simply will not > > > run. I get a side by side configuration error. I have checked the > > > manifest for msconvert, and I have the correct visual studio files > > > installed for it to function. When I go to the error viewer, this is > > > the output that is given: > > > > Activation context generation failed for "C:\Inetpub\tpp-bin > > > \msconvert.exe". Dependent Assembly > > > MSFileReader.XRawfile2.SxS,type="win32",version="2.1.0.20" could not > > > be found. Please use sxstrace.exe for detailed diagnosis. > > > > I have tried uninstalling and reinstalling the TPP using the right > > > click "run as administrator" option to no avail. I am trying to > > > convert Waters .raw folders and I have MassLynx and ProteinLynx > > > installed on the systems. This is only a problem with msconvert. All > > > of the other binaries seem to run fine, from the ones I have tested. > > > Can anyone shed some light on what might be happening here? > > > > Thanks! > > > > Chris -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
