Hi Rachel, It is limited only by the amout of memory you have on your system. The memory req scales linearly with number of spectra being combined. Obviously the more spectra that are analysed together the better the statistics are going to be, but this too has a practical limit. Once you have the individual iProphet pepxmls you should not run iProphet on them again since you'll run into the same memory issue. Instead this is a perfect time to run ProteinProphet on the iProphet files and specify the IPROPHET option to make sure it uses iProphet probabilities.
-David On Tue, Sep 28, 2010 at 7:23 PM, Rachel <[email protected]> wrote: > 1. I tried to combine large number of files (~1000) using iprophet. I > tried using command line as well as the tpp-gui. but failed. > The error message is, > This application has requested the runtime to terminate in an unusual > way. Please contact the application's team for more information. > > 2. Then I split the 1000 files into 12 batches and combine the > peptideprophet of these files using iprophet. Then I tried to combine > these 12 large iprophet files in iprophet, also failed. I got the same > error message. > > Is anyone know the limit of iProphet? > > thanks a lot. > > -- > 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. > > -- 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.
