As Natalie suggested, Analysis.yep indicates the Bruker/Agilent YEP
format which ProteoWizard reads with CompassXtract. Msconvert will
automatically detect the format of the .d directory and use the
appropriate reader. Keep in mind the CompassXtract interface (which
supports Bruker FID/BAF and Bruker/Agilent YEP) is only licensed for
non-commercial use.
-Matt
Natalie Tasman wrote:
Hello Zeyu,
You're using the TPP's "trapper" program. Trapper is designed for
data from Agilent's *MassHunter* program. This data is stored in a .d
folder. However, there is a confusing situation: two different
Agilent formats use .d folders. Your .d folder has the different
format: analysis.yep. I'm guessing that you're probably using data
acquired with Agilent's *ChemStation* program. Trapper does not
handle .yep. But, msconvert, which is included with the TPP and comes
from the ProteoWizard (pwiz) project, might handle this type of data.
I'm forwarding this message to the pwiz discussion list as well, and
hopefully they can suggest a way to proceed.
There is an
-Natalie
On 2/10/10 11:16 PM, zeyu sun wrote:
Hi, I have a problem to convert the .d folder from a ETD trap to xml format. I
have no problem to convert .d folderto xml for spectrum from Q-tof. Here is
what I saw in the commend line:
Settings:
centroid scans: 0
compress scans: 0
verbose mode: 1
skip checksum: 0
deisotope:0
requirePeptideLikeAbundanceProfile: 0
relativeTolerance: 0
absoluteTolerance: 0
limitChargeState:0
maxChargeState: 0
mzML mode: 0
mzXML mode: 1
input filename: c:/Inetpub/wwwroot/ISB/data/ZSMOAC.D
output filename: c:/Inetpub/wwwroot/ISB/data/ZSMOAC.mzXML
ERROR at .\MHDACWrapper.cpp, 60:
HR = -2147024894
OpenDataFile
unable to open c:/Inetpub/wwwroot/ISB/data/ZSMOAC.D with MassHunter interface
*Command FAILED*
by the way, the .d folder comprised of a analysis.yep file (very big,
which I assume is where the MS data stored), a LCDIAG.reg file, a
extension.baf file, a sample.mac file, 3 txt files named
LCMETHODAUDITTRAIL, lcparms, RUN, and a folder ETD_LONGCHIP_100128.M.
Any thought how to do the conversion?
Thank you very much!
--
Zeyu Sun
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