Hi lqd, I am not currently familiar with the state of converting Waters .raw/ data with the msconvert bundled with TPP 4.5, but I am forwarding to the spctools-discuss list where someone will more likely know the answer. Maybe an additional download of libraries from Waters is needed. However, I would like to suggest you download and install TPP 4.6.1 instead:
http://sourceforge.net/projects/sashimi/files/Trans-Proteomic%20Pipeline%20%28TPP%29/ 4.6.2 will be released very soon, as well. Version 4.5 was released exactly a year ago, so a newer version is recommended. Regards, Eric *From:* lqd [mailto:[email protected]] *Sent:* Sunday, February 03, 2013 5:11 PM *To:* edeutsch *Subject:* Problem with data convert by TPP Dear Sir, I need to convert my Waters LCMS data (format as data in .RAW directory). I download Trans-Proteomic Pipeline v4_5 and setup it in my PC. But it does not work at all. I tried log in as guest or log in using my own ID, I tried convert from .RAW to mzXML or to mzML, but all failed. Nothing was output. The output content is the following: - Output Files - c:/Inetpub/wwwroot/ISB/data/Female6_pos.mzML (*file not found:* not created or deleted?) - c:/Inetpub/wwwroot/ISB/data/Female7_neg.mzML (*file not found:* not created or deleted?) Command 1 [Mon Feb 4 08:51:10 2013] [ Show / Hide ] *EXECUTING:** c:\Inetpub\tpp-bin\msconvert c:/Inetpub/wwwroot/ISB/data/Female6_pos.raw -v --mzML -o c:/Inetpub/wwwroot/ISB/data * *Command Successful* RETURN CODE:0 Command 2 [Mon Feb 4 08:51:10 2013] [ Show / Hide ] *EXECUTING:** c:\Inetpub\tpp-bin\msconvert c:/Inetpub/wwwroot/ISB/data/Female7_neg.raw -v --mzML -o c:/Inetpub/wwwroot/ISB/data * *Command Successful* RETURN CODE:0 All commands finished at *Mon Feb 4 08:51:10 2013* I would appreciate if you could give me some help. Best Regards Qiande Liang -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss?hl=en. For more options, visit https://groups.google.com/groups/opt_out.
