Actually the index is an optional element in mzXML, too - a proper mzXML parser will function without it.
- Brian On Thu, Aug 30, 2012 at 9:03 AM, [email protected] <[email protected]> wrote: > Hi Thomas, > > Was the mzML file indexed or not? This can sometimes make a big difference > if the program you use accesses the data randomly (or one spectra at a > time). The mzXML files always have indices, but for mzML they are optional. > Then the mzML parser must also make use of the indices of course - see > previous comment. > > > Cheers, > > Magnus > > On Thursday, 30 August 2012 17:37:42 UTC+2, Brian Pratt wrote: >> >> Quite a lot of performance work was done in pwiz in late 2011 - do you >> know what version of pwiz is in use? >> >> Brian Pratt >> >> On Thu, Aug 30, 2012 at 2:16 AM, Thomas Dybdal Pedersen >> <[email protected]> wrote: >> > Hi >> > >> > I've recently begun to investigate whether it was time to change our >> > pipeline from mxXML to mxML format. Our pipeline is partly based on xcmd >> > which uses RAMP to read in ms data. I quick comparison of the parsing >> > speed >> > between mzML and mzXML showed that mzML was slower by a factor ~7. This >> > is >> > quite substantial especially for larger files. >> > >> > I understand that the mzML parsing is based on pwiz instead of >> > implemented >> > from the ground, which is probably the cause for the difference. Is >> > there >> > any effort in creating a more effecient parser for the mzML format as >> > this >> > format increase in relevance? >> > >> > with best wishes >> > >> > Thomas >> > >> > -- >> > You received this message because you are subscribed to the Google >> > Groups >> > "spctools-discuss" group. >> > To view this discussion on the web visit >> > https://groups.google.com/d/msg/spctools-discuss/-/sDYMC6Ynd3cJ. >> > 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 view this discussion on the web visit > https://groups.google.com/d/msg/spctools-discuss/-/gFktILjGAOAJ. > > 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.
