Works like a charm!! love it when they are easy fixes!! Much appreciate all the help! Rebekah
On Thu, Mar 1, 2012 at 6:48 PM, Luis Mendoza < [email protected]> wrote: > Sent it to you offline. Let us know if you have any trouble with it. > --Luis > > On Thu, Mar 1, 2012 at 4:30 PM, Rebekah Dawson <[email protected]> > wrote: > > Ok - convenient option and sounds easy. Didn't think about that. Could > you > > send me copy? I don't have another machine with TPP... > > > > Thanks!! > > R > > > > > > On Thu, Mar 1, 2012 at 4:51 PM, Luis Mendoza > > <[email protected]> wrote: > >> > >> Hi Rebekah, > >> Since this is strictly a viewer issue, you may also just install the > >> old viewer so you can take advantage of the motif coloring and stats > >> while we come up with a fix. You can either copy the protxml2html.pl > >> file from another machine that has the TPP (pre-4.5.1) installed into > >> the tpp-bin directory, or we can give you one. > >> Cheers, > >> --Luis > >> > >> > >> On Wed, Feb 29, 2012 at 12:39 PM, Rebekah Dawson < > [email protected]> > >> wrote: > >> > I see the modification N[115], but not the color coding and also the > >> > calculation at the bottom of the page for # NxS/T peptides vs total # > >> > peptides is empty. I find this to be very useful when calculating > >> > specificity of our capturing method. If i know it is a bug, then I'll > >> > wait > >> > for a fix. Just wanted to make sure I wasn't supposed to be clicking > any > >> > more buttons to get it to show up. > >> > > >> > Thanks! > >> > Rebekah > >> > > >> > > >> > On Wed, Feb 29, 2012 at 9:46 AM, [email protected] > >> > <[email protected]> wrote: > >> >> > >> >> Hello Ruby, > >> >> > >> >> I believe this problem is only with the ProteinProphet viewer not the > >> >> modelling. Someone else had reported this problem also but it has > not > >> >> been > >> >> fixed in this release. The problem is in the coloring off the motif > >> >> only. > >> >> You should still see the motif in the peptides you identify. > >> >> > >> >> -David > >> >> > >> >> Sent from my Android Device > >> >> > >> >> > >> >> ----- Reply message ----- > >> >> From: "Ruby" <[email protected]> > >> >> To: "spctools-discuss" <[email protected]> > >> >> Subject: [spctools-discuss] GLYC not working in 4.5.2? > >> >> Date: Wed, Feb 29, 2012 6:51 am > >> >> > >> >> > >> >> I have been using the GLYC command in TPP 4.4.0 for more than a year > >> >> with no problem. I recently upgraded to TPP 4.5.2 and can't seem to > >> >> get the GLYC command to work for ProteinProphet. I have the "N- > >> >> glycosylation data (color NXS/T)" option checked in petunia when > doing > >> >> ProteinProphet processing, and in the ProteinProphet header the "NxS/ > >> >> T" box is checked. However, I do NOT see any pink highlighted N[115] > >> >> in the peptides like I used to see nor does it calculate the # of > >> >> glycopeptides at the bottom of the page - though most of my peptides > >> >> do contain this modification. I am selecting the option to use the > >> >> "Use N-glyc motif information" when I do the peptideprophet. > >> >> > >> >> Is there something else I"m supposed to be doing to get this to work > >> >> in the new update of TPP? > >> >> > >> >> Thanks > >> >> Ruby > >> >> > >> >> -- > >> >> 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. > >> > > >> > > >> > -- > >> > 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. > >> > > > > -- > > 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. > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. 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