I do not have any omssacl.exe file. I am using the OMSSA Browser and to use it, I only have an "OMS_Browser" on which I double click to launch the Omssa browser. Where this executable can be downloaded? Thanks,
Loïc On Nov 24, 2:51 pm, Matt Chambers <[email protected]> wrote: > It's not in the online command-line manual, but it's in the usage > statement for omssacl: > G:\work\omssa\omssa-2.1.7.win32>omssacl > USAGE > omssacl.exe [-h] [-help] [-xmlhelp] [-pm param] [-d blastdb] [-umm] > [-f infile] [-fx xmlinfile] [-fb dtainfile] [-fp pklinfile] > [-fm pklinfile] [-foms omsinfile] [-fomx omxinfile] [-fbz2 bz2infile] > [-fxml omxinfile] [-o textasnoutfile] [-ob binaryasnoutfile] > [-ox xmloutfile] [-obz2 bz2outfile] [-op pepxmloutfile] [-oc > csvfile] [-w] > [-to pretol] [-te protol] [-tom promass] [-tem premass] [-tez prozdep] > [-ta autotol] [-tex exact] [-i ions] [-cl cutlo] [-ch cuthi] [-ci > cutinc] > [-cp precursorcull] [-v cleave] [-x taxid] [-w1 window1] [-w2 window2] > [-h1 hit1] [-h2 hit2] [-hl hitlist] [-ht tophitnum] [-hm minhit] > [-hs minspectra] [-he evalcut] [-mf fixedmod] [-mv variablemod] [-mnm] > [-mm maxmod] [-e enzyme] [-zh maxcharge] [-zl mincharge] > [-zoh maxprodcharge] [-zt chargethresh] [-z1 plusone] [-zc calcplusone] > [-zcc calccharge] [-pc pseudocount] [-sb1 searchb1] [-sct searchcterm] > [-sp productnum] [-scorr corrscore] [-scorp corrprob] [-no minno] > [-nox maxno] [-is subsetthresh] [-ir replacethresh] [-ii > iterativethresh] > [-p prolineruleions] [-il] [-el] [-ml] [-mx modinputfile] > [-mux usermodinputfile] [-nt numthreads] [-ni] [-ns] [-os] [-nrs] > [-logfile File_Name] [-conffile File_Name] [-version] [-version-full] > [-dryrun] > > -op is the option you're looking for. > > -Matt > > > > Lo c JOFFRE wrote: > > Hello David, > > > I was looking everywhere on my OMSSA browser and in the OMSSA on line > > and I really do not see any option to output pepxml or any pepxml > > converter... > > Are you considering that .omx files are pepxml files? > > Because I could not use its on TPP... > > Could you give me the steps to output pepxml on OMSSA? > > > Thanks in advance, > > best regards, > > > Lo c- Hide quoted text - > > - Show quoted text - -- 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.
