Hello Antonio, The mzXML files should correspond to the same raw file input used for your Sequest search. For example if starting from a Thermo .raw file, you'd convert that mzXML, search that, and then convert the search results to pepXML.
Note that the pepXML files refer to specific file locations, so if you've moved your mzXML file since it was first created, the TPP might be confused. Hope this helps and let us know how it goes, Natalie On Jul 1, 2009, at 11:00 AM, Antonio wrote: > > I have installed TPP v4.2 on windows XP. I have created the mzXML > datafiles from my Sequest search. Now I'm making the corresponding > pepXML files. I see that the first file is being created, it seems > that is finished but I see the following warming message at the end of > the “Output so far” field: > > warning: cannot open mzXML file "c:/Inetpub/wwwroot/ISB/data/AAS/ > test.mzXML" for reading MS instrument info and scan times. > And the command status window indicates that the command is still > running. Is it? I do not see the file increasing in size. I can open > the pepxml file, although IE indicates that there is an error on page. > It seems to me that the program is stuck and is not progressing to > next task: the creation of the next pepXML file. Solutions? > > Thanks, > > Antonio > > > --~--~---------~--~----~------------~-------~--~----~ 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 -~----------~----~----~----~------~----~------~--~---
