Thanks Luis! With some effort to get the parameters files properly filled up, and converting some of the file locations to be accurate to their locations for a Linux install, I've been able to get some work done.
Frustratingly, I have yet to find much documentation as to how to do so. Simple enough to figure out alone, but it would be nice to be able to skip right to processing data. Oh well! Cheers, Chris On Wednesday, August 8, 2018 at 1:44:58 PM UTC-7, Luis wrote: > > Hi Chris, > > Once you run a command, you can see the exact command line that was run on > the Job Output window (after the "EXECUTING:" string). You can also view > old commands, as long as their output has not been deleted. > > Hope this helps, > --Luis > > > On Wed, Aug 8, 2018 at 12:48 PM, Chris Waizenegger <cbwaiz...@gmail.com > <javascript:>> wrote: > >> Hi David, >> >> Where in the GUI would I find the command line call for each tool? >> Perhaps I am missing something obvious. I am in a similar situation to >> Alastair whom originally posted this question, and it seems he was >> satisfied with your reply so I figure I'm on the right track here... >> >> Thanks, >> >> Chris >> >> On Monday, June 25, 2018 at 9:48:37 AM UTC-7, David Shteynberg wrote: >>> >>> Hello Alastair, >>> >>> The TPP gui interface (which is a simple windows install) provides the >>> command lines for the tools it runs and can be used to train yourself on >>> commandline TPP. Also, running the PeptideProphetParser (PeptideProphet) >>> and InterProphetParser (iProphet) on the commandline without additional >>> flags should provide you with detailed usage statements for running the >>> tools. >>> >>> Thanks, >>> -David >>> >>> On Mon, Jun 25, 2018 at 6:53 AM, alastair.skeffington via >>> spctools-discuss <spctools...@googlegroups.com> wrote: >>> >>>> I'm interested in running the TPP from the linux command line for a few >>>> reasons (flexibility + using the computing power of our linux server, the >>>> administers of which aren't keen on an apache webserver). >>>> >>>> I can get some of the individual programs and scripts to run, but I'm >>>> struggling with some others (eg PeptideProphet and iProphet). Are there >>>> any >>>> examples of command line uses of TPP around that I can use to guide myself? >>>> >>>> Many thanks, >>>> Alastair >>>> Max-Planck Institute for Molecular Plant Physiology >>>> >>>> -- >>>> 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-discu...@googlegroups.com. >>>> To post to this group, send email to spctools...@googlegroups.com. >>>> Visit this group at https://groups.google.com/group/spctools-discuss. >>>> For more options, visit https://groups.google.com/d/optout. >>>> >>> >>> -- >> 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-discu...@googlegroups.com <javascript:>. >> To post to this group, send email to spctools...@googlegroups.com >> <javascript:>. >> Visit this group at https://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/d/optout. >> > > -- 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 post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
