Works! Most excellent. Thank you very much for your quick help! s On Fri, Mar 11, 2016 at 1:51 PM, Luis Mendoza < [email protected]> wrote:
> Hello Scott, > The error that you are encountering arises from lack of backward > compatibility in one of the perl modules that you are using. We have fixed > this for the next release of TPP. > > In the meantime, for a quick fix: open the source code of the viewer > (under C:\Inetpub\tpp-bin\ProtXMLViewer.pl ) in Notepad (or your favorite > text editor), and replace all instances of "endform" with "end_form" -- > no spaces, just place that underscore between "end" and "form". Save it > (and keep a backup) and try again. > > Thanks for the detailed report, and hope this helps! > --Luis > > > On Fri, Mar 11, 2016 at 12:05 PM, Scott Walmsley <[email protected]> > wrote: > >> Hi! >> >> I would like to resolve this error generated using TPP 4.8 when viewing >> protXml results after ProteinProphet. Link to the protXML results >> produces a internal server error (500) in the browser. This does not >> happen when viewing legacy view results on localhost, tested google chrome >> and IE. i've checked permissions, but perhaps i missed something? Many >> thanks in advance! Below are my software versions, and the Apache >> error/access logs toward the bottom. Many thanks in advance! Scott >> Scott >> >> >> *Below is the relevant perl version(active state)* >> This is perl 5, version 22, subversion 1 (v5.22.1) built for >> MSWin32-x64-multi-thread >> (with 1 registered patch, see perl -V for more detail) >> >> My OS: >> Windows 7 64bit >> >> My TPP: >> 4.8.0.exe >> Apache 2.2 >> Upgraded cometms to v.2015025 (works, tested) >> And pwiz to the latest release (works, tested on Bruker, agilent and >> thermo) >> Using mzXMLs in seacrhes. >> >> Copyright 1987-2015, Larry Wall >> >> Binary build 2201 [299574] provided by ActiveState >> http://www.ActiveState.com >> Built Jan 4 2016 12:12:58 >> >> >> *Below is the relevant server access log:* >> 127.0.0.1 - - [11/Mar/2016:12:54:54 -0700] "GET >> /tpp-bin/ProtXMLViewer.pl?file=c:/Inetpub/wwwroot/ISB/data/perm/interact.prot.xml >> HTTP/1.1" 500 540 >> 127.0.0.1 - - [11/Mar/2016:12:55:01 -0700] "GET /tpp-bin/ >> tpp_gui.pl?Action=AJAXCheckStatusUpdates&rand=0.9998256567811105 >> HTTP/1.1" 200 4029 >> 127.0.0.1 - - [11/Mar/2016:12:55:12 -0700] "GET /tpp-bin/ >> tpp_gui.pl?Action=AJAXCheckStatusUpdates&rand=0.040754614766979336 >> HTTP/1.1" 200 4029 >> 127.0.0.1 - - [11/Mar/2016:12:55:22 -0700] "GET /tpp-bin/ >> tpp_gui.pl?Action=AJAXCheckStatusUpdates&rand=0.2696647564134357 >> HTTP/1.1" 200 4029 >> >> >> *And below is the relevant error log:* >> [Fri Mar 11 12:54:54 2016] [error] [client 127.0.0.1] Premature end of >> script headers: ProtXMLViewer.pl, referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:54:54 2016] [error] [client 127.0.0.1] Bareword "endform" >> not allowed while "strict subs" in use at >> C:\\Inetpub\\tpp-bin\\ProtXMLViewer.pl line 286., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:54:54 2016] [error] [client 127.0.0.1] Bareword "endform" >> not allowed while "strict subs" in use at >> C:\\Inetpub\\tpp-bin\\ProtXMLViewer.pl line 286., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:54:54 2016] [error] [client 127.0.0.1] Execution of >> C:\\Inetpub\\tpp-bin\\ProtXMLViewer.pl aborted due to compilation errors., >> referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:55:01 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:55:01 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:55:12 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:55:12 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:55:22 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:55:22 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:55:33 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:55:32 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:55:43 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:55:43 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:55:53 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:55:53 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:56:04 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:56:03 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:56:14 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:56:14 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:56:24 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:56:24 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:56:35 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:56:34 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> [Fri Mar 11 12:56:45 2016] [error] [client 127.0.0.1] [Fri Mar 11 >> 12:56:45 2016] tpp_gui.pl: CGI::Pretty is DEPRECATED and will be removed >> in a future release. Please see >> https://github.com/leejo/CGI.pm/issues/162 for more information at >> C:/Perl/lib/CGI/Pretty.pm line 19., referer: >> http://localhost/tpp-bin/tpp_gui.pl?Action=display&page=jobs&show_job=ZXEOQKV60_20160311-122718 >> >> >> -- >> 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.
