Hi Joe, I just removed the "export PATH=$PATH:/usr/local" from apache2/ envvars, restarted apache2 and petunia works fine. So it was the tpp_gui_config.pl error I made that caused the problem.
Thanks, Brian On Feb 29, 2:19 pm, Joseph Slagel <[email protected]> wrote: > Brian, > > I think your PATH environment variable isn't including the TPP bin > directory. You could try adding it to envvars like so and restarting > Apache: > > echo "PATH=$PATH:/usr/local/tpp/bin:" | tee -a /etc/apache2/envvars > > If this solves you problem please let me know and I'll update the > instructions. (And feel free to look over what the actual paths are in > your PATH and remove any that might not be appropriate for a web server). > > -joe > > > > > > > > On Wed, Feb 29, 2012 at 7:55 AM, Brian Hampton <[email protected]> wrote: > > Hello, > > > I have installed TPP 4.5.2 on Ubuntu 10.10 using the instructions here > > <http://tools.proteomecenter.org/wiki/index.php? > > title=TPP_4.5.2:_Installing_on_Ubuntu_10.04.3> > > > In those instructions there are a couple of errors where chown is used > > when the command should be chmod. However, I believe I have the > > correct ownership and permissions on the directories and files for > > execution by apache2 but when I try to do any analysis via the web > > interface it fails. See below: > > > As root I can successfully execute the below command from a shell but > > if I su to www-data which is the user apache2 runs as I get $ sh: > > Tandem2XML: not found Even if I execute it in the /usr/local/tpp/bin > > directory. > > > Help please. > > > Thanks in advance, > > > Brian Hampton > > > This is the command being submitted through the tpp_gui.pl: > > > cd /usr/local/tpp/ISB/data; Tandem2XML /usr/local/tpp/ISB/data/ > > 120223_S1782-SDS_eHILLIC-frac-1.tandem /usr/local/tpp/ISB/data/ > > 120223_S1782-SDS_eHILLIC-frac-1.tandem > > > Here is the result: > > > # Commands for session T8PMKUQEN on Wed Feb 29 10:26:24 2012 > > # BEGIN COMMAND BLOCK > > ###### BEGIN Command Execution ###### > > [Wed Feb 29 10:26:24 2012] EXECUTING: cd /usr/local/tpp/ISB/data; > > Tandem2XML /usr/local/tpp/ISB/data/120223_S1782-SDS_eHILLIC- > > frac-1.tandem /usr/local/tpp/ISB/data/120223_S1782-SDS_eHILLIC- > > frac-1.tandem > > OUTPUT: > > sh: Tandem2XML: not found > > END OUTPUT > > RETURN CODE:32512 > > ###### End Command Execution ###### > > # All finished at Wed Feb 29 10:26:24 2012 > > # END COMMAND BLOCK > > > -- > > 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.
