Hi Ira, I noticed no one was able to answer your question. You might be able to get a better response from the omssa folks, they are quite responsive and their mailing list is at http://www.ncbi.nlm.nih.gov/mailman/listinfo/omssausers.
-Joe On Thu, Apr 7, 2011 at 8:16 PM, ira cooke <[email protected]> wrote: > Hi, > > I've recently noticed that none of my search results produced using > omssa contain retention time information. The info is certainly there > in my mgf files .. for example; > > BEGIN IONS > TITLE=mt350-CD25_neg_BB1_01_4461.d_raw_corrected_pk.7.7.2 > RTINSECONDS=485.4048 > PEPMASS=773.725830078125 0 > CHARGE=2 > 579.2604337 2.000903606 > 579.4351404 1.497543812 > 645.7024682 4.425733566 > 678.6623602 3.99043107 > 1305.827148 1.813325286 > 1428.320387 2.378391981 > END IONS > > I was just wondering if this is simply because omssa chooses not to > write this (it's listed as optional in the pepXML.xsd ). I had a > quick search in the omssa source code and it looks like it ignores the > retention time altogether. Then again .. it was just a quick look ... > so hopefully I've missed something. > > I've tried producing the pepXML using omssa2pepXML .. and also using > the omssa -op flag. > > Anyway ... hopefully I am wrong and this is possible ... I'd very much > like to include this info in my files > > Thanks > Ira > > -- > 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.
