Great! Glad it works now. --Luis
> On Dec 2, 2016, at 06:49, Kevin Hart <[email protected]> wrote: > > I reran and Fixed it I think. Sorry about all the posts. > >> On Friday, December 2, 2016 at 9:41:17 AM UTC-5, Kevin Hart wrote: >> Actually..... im now getting this error >> 0 total peptides, 0 unique stripped peptides >> >> Legacy Viewer worked on one sample. If I look at ProtXML I have lots of >> peptides so im not sure why im getting this error. >> >>> On Friday, December 2, 2016 at 9:04:33 AM UTC-5, Kevin Hart wrote: >>> I reinstalled TPP 5.0 in the correct directory and legacy viewer is now >>> working. Thank you for working through all of this with me >>> >>>> On Wednesday, November 30, 2016 at 5:07:41 PM UTC-5, Luis wrote: >>>> Hi Kevin, >>>> Do you have 2 versions of TPP installed concurrently on the same machine? >>>> It looks like the installation of 5.0 was done with "C:\TPP\" specified as >>>> the data directory; but you are using data in the previous TPP data >>>> directory "C:\Inetpub\wwwroot\ISB\" . >>>> >>>> >>>> One quick way to get this fixed and allow you to use the legacy viewer is >>>> the following: >>>> >>>> 1. Open the file C:\TPP\cgi-bin\protxml2html.pl -- in Notepad or your >>>> favorite text editor. >>>> >>>> 2. Scroll down to around line 44, just after the line that says use >>>> tpplib_perl; # exported TPP lib function points >>>> >>>> 3. Add the following new line: >>>> $ENV{'WEBSERVER_ROOT'} = 'C:/Inetpub/wwwroot/ISB/'; >>>> >>>> 4. Save this file. >>>> >>>> 5. Finally, if the following file exists, delete it* (please match the >>>> file ending carefully!!) >>>> C:/Inetpub/wwwroot/ISB/data5.0/SEL55/SEL55.Comet.Tandem.interact.prot.xsl >>>> * You should likewise delete any other existing .xsl files if you find any >>>> trouble opening its corresponding prot.xml file >>>> >>>> You should now be able to use the legacy viewer with any file that is >>>> located in this data area. Do note that this is a bit of a temporary fix, >>>> and I recommend that you reinstall TPP 5.0 with the correct settings at a >>>> future date, or when/if you update to the next version, once we release it. >>>> Hope this helps! >>>> --Luis >>>> >>>>> On Wed, Nov 30, 2016 at 10:55 AM, Kevin Hart <[email protected]> wrote: >>>>> Gladly. On our machines were not getting an error it just simply will not >>>>> generate a page. The page is completely blank. Attached are both files so >>>>> you can take a look. >>>>> >>>>>> On Tuesday, November 29, 2016 at 4:34:50 PM UTC-5, Luis wrote: >>>>>> The new viewer has been updated to display and export protein length. >>>>>> It will be included in the next release of TPP, but I'd be glad to >>>>>> forward you an advance copy so that you can get to your data. >>>>>> >>>>>> And I have not been able to see what's wrong with the legacy viewer; I >>>>>> just tested it in 3 different machines and seems to be working. Can you >>>>>> share your protXML file so I can try to debug? Furthermore, if there is >>>>>> a problem with the code, an error might have been logged to the web >>>>>> server error log; you can explore this by opening the file >>>>>> httpd-error.log, typically found under C:\TPP\log\ . Or if you don't >>>>>> mind sharing this file, I can have a look. >>>>>> >>>>>> Cheers, >>>>>> --Luis >>>>>> >>>>>> >>>>>>> On Tue, Nov 29, 2016 at 5:20 AM, Kevin Hart <[email protected]> >>>>>>> wrote: >>>>>>> Do you know how to get it to export protein length with the .tsv file >>>>>>> from ProtXML? >>>>>>> >>>>>>> >>>>>>>> On Wednesday, November 23, 2016 at 3:52:08 PM UTC-5, Kevin Hart wrote: >>>>>>>> I can see both tables and graphical models. My files were not where >>>>>>>> TPP thought they were and thus confusion arose when I clicked on >>>>>>>> models in ProtXML. ProtXML just didnt know where to look. >>>>>>>> >>>>>>>> Legacy Viewer was nice because I was able to select different things >>>>>>>> to be displayed like protein length and all of those other toggles. I >>>>>>>> cant find a way in ProtXML to have it export those other things for me >>>>>>>> so I can generate SAF and NSAF values. >>>>>>>> >>>>>>>>> On Wednesday, November 23, 2016 at 1:26:24 PM UTC-5, Luis wrote: >>>>>>>>> That's great. Can you only see the tables? Or also the graphical >>>>>>>>> models? >>>>>>>>> >>>>>>>>> The legacy viewer is being phased out in favor of the new one, and is >>>>>>>>> slated for removal from distribution. Is there a specific function >>>>>>>>> that you need from it that the new one does not have? >>>>>>>>> If you really need it soon, you could install a previous version of >>>>>>>>> TPP on a different computer and open your file there. >>>>>>>>> >>>>>>>>> --Luis >>>>>>>>> >>>>>>>>> >>>>>>>>>> On Wed, Nov 23, 2016 at 9:10 AM, Kevin Hart <[email protected]> >>>>>>>>>> wrote: >>>>>>>>>> I am able to gain access now to the error sensitivity tables but >>>>>>>>>> still need access to legacy viewer. >>>>>>>>>> >>>>>>>>>> >>>>>>>>>>> On Monday, November 21, 2016 at 11:42:45 AM UTC-5, Kevin Hart wrote: >>>>>>>>>>> I downloaded and am using the new version of TPP(5.0) on Windows 7 >>>>>>>>>>> however im running into a small issue. I can not access the >>>>>>>>>>> error/sensitivity tables through both ProtXML Viewer (Forbidden You >>>>>>>>>>> don't have permission to access >>>>>>>>>>> /tpp/data/SEL42/SEL42.Tandem.Comet.interact.prot-MODELS.html on >>>>>>>>>>> this server.) and legacy viewer is not loading at all. >>>>>>>>>>> Unfortunately I need these things to run all of my analysis. If >>>>>>>>>>> anyone would have a work around or fix for this I would appreciate >>>>>>>>>>> it. >>>>>>>>>> >>>>>>>>>> -- >>>>>>>>>> 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 [email protected]. >>>>>>>>>> To post to this group, send email to [email protected]. >>>>>>>>>> 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 [email protected]. >>>>>>> To post to this group, send email to [email protected]. >>>>>>> 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 [email protected]. >>>>> To post to this group, send email to [email protected]. >>>>> 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 [email protected]. > To post to this group, send email to [email protected]. > 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 [email protected]. To post to this group, send email to [email protected]. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
