Mangus, There's something broken with our latest Comet 2013.02 rev. 2 release under Windows. We attempted to address large memory search performance, which appeared to work fine in our limited testing, but we definitely broke something else in the process and are actively working on addressing this issue now.
The current suggested work-around would be: a). make use of the "spectrum_batch_size" parameter; set it to some value, say 3000 or 5000 to allow you to process your data by searching smaller batches of spectra at a time b). revert the Comet binary to the previous 2013.02 rev. 1 release. - Jimmy On Mon, Mar 3, 2014 at 9:46 AM, [email protected] < [email protected]> wrote: > Dear TPP developers and users, > > I took the the new Comet in TPP 4.7 (POLAR VORTEX) out for spin, but keep > getting errors like "Error - > CometMemMgr::CometMemAlloc(pdTmpFastXcorrData[1374])" and "Operation not > permitted" when searching an mzXML made from some 5 GB Orbitrap E. coli > data. This mzXML file works fine with both X!Tandem and SpectraST. To get a > parameter file, I created one with "comet -p". > > When I search a tiny mzXML file with one MS1 and three MS2 spectra I > created myself, it works, and I get reasonable results. But I have tried it > with reasonably small ion trap datasets of <100 MB, I get the errors as for > the 5 GB Orbi data. > > Any suggestions? Should I allocate more memory to comet somewhere? > > > Cheers, > > Magnus > > -- > 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. > For more options, visit https://groups.google.com/groups/opt_out. > -- 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. For more options, visit https://groups.google.com/groups/opt_out.
