That doesn't sound right, no. I'd expect ASAPRatioProteinRatioParser to run faster than ASAPRatioPeptideRatioParser, not slower. What OS, what TPP version, etc?
Brian Pratt Insilicos On Thu, Feb 4, 2010 at 8:15 AM, Dave Trudgian <[email protected]> wrote: > Hi, > > I'm experiencing very long processing times for > ASAPRatioProteinRatioParser. On a large dataset (48 x 2 hr QTOF runs, ~100K > spectrum IDs) ASAPRatioPeptideRatioParser completes within a couple of > hours, but ASAPRatioProteinRatioParser is taking days. I assumed that the > the peptide quantitation would be the slower step due to chromatogram > extraction from the mzXML, with the protein ratio creation only involving > rolling these ratios up to the protein level, but this appears not to be the > case. > > Just wondering whether the large disparity in run-time between the > PeptideRatio and ProteinRatio parsers is expected? > > Thanks, > > DT > > -- > Dr. David Trudgian > Bioinformatician in Proteomics > University of Oxford > > Mon-Thu: CCMP, Roosevelt Drive > Tel: (+44) (01865 2)87784 > > Friday : Dunn School of Pathology, S. Parks Rd. > Tel: (+44) (01865 2)75557 > > > > -- > 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]<spctools-discuss%[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.
