Hi Eric, I get this error and then it tries to find spectra in an MzXML file, even though I provide mxML in the directory. And the resulting library is empty at the end.
Regards, Srikanth On Thursday, March 5, 2020 at 12:35:33 PM UTC+11, Eric Deutsch wrote: > > Hi Srikanth, I can confirm that SpectraST supports mzML files. In fact we > always/only use mzML files. > > > > As far as the iRT error, I am not familiar with this. I could only > speculate. Maybe Henry or David have ideas? > > > > Thanks, > > Eric > > > > > > *From:* spctools...@googlegroups.com <javascript:> < > spctools...@googlegroups.com <javascript:>> *On Behalf Of *Srinivas > Srikanth > *Sent:* Tuesday, March 3, 2020 4:40 PM > *To:* spctools-discuss <spctools...@googlegroups.com <javascript:>> > *Subject:* [spctools-discuss] irt issue > > > > Hi, > > > > I have a pepxml from iprophet combining results from Mascot/X!Tandem and > MSGF+. When I am trying to create a spectral library using Spectrast with > the following command: > > > > spectrast -cNspeclib -cICID-QTOF -cP0.814339 -c_IRTirt.txt > -Lspectrastlog_hek.log mascot_xtandem_msgfp_combine.pep.xml > > > > I get and error log which says RT inversion detected at iRT 68.168 for > some files and then it creates an empty splib file. Can you tell me what > does this error exactly mean? > > > > ERROR PEPXML IMPORT: RT normalization by linear interpolation. Found 21 > landmarks in MS run "170825_pc4_hek_2dcon_13". RT inversion detected at iRT > = 68.8618. No RT normalization performed. > > > > Also, does spectrast support mzml or we always need mzXML? > > > > Regards, > > Srikanth > > -- > 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 spctools...@googlegroups.com <javascript:>. > To view this discussion on the web visit > https://groups.google.com/d/msgid/spctools-discuss/4af60e36-ef5b-4835-95a7-9f3b1f2b65e1%40googlegroups.com > > <https://groups.google.com/d/msgid/spctools-discuss/4af60e36-ef5b-4835-95a7-9f3b1f2b65e1%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- 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 spctools-discuss+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/spctools-discuss/20d9c819-b593-4eb0-82a8-bcb1ecca86e0%40googlegroups.com.
