5 Jan 2009 23:21
Re: problem with GBroser
OK--so the files went where I thought they would go; that's progress. Now, are you sure the webserver is running? What do you see when you just look at http://localhost/ ? Scott On 1/5/09, Miguel <mgallach@...> wrote: > Hello Scott, > > This is the list of files in /usr/lib/cgi-bin/: > > apt-cacher gbrowse_details gbrowse_moby php www-mysql > das gbrowse_est moby_server php5 > gbrowse gbrowse_img munin-cgi-graph tutorial_test.pl > > > Besides, I couldn't open the http://localhost/gbrowse direction with > Firefox or other web browser. I don't know if this answer the second > question. > > Additional info. that maybe could help: I have the folder /Root/gbrowse/, > which only has a 'tmp' file. > > Miguel > > > Scott Cain wrote: > > > Hi Miguel, > > > > Please keep the GBrowse mailing list cc'ed in your responses so other > > people can help too and the responses can be archived. > > > > If you didn't install apache by hand, what I wrote is the wrong thing > > to do (unless someone else with access to your system did). Are there > > any files in /usr/lib/cgi-bin ? Do you know for sure what your > > document root is? That is, where can you put an html file and have it > > show up when you look at http://localhost/ ? That would help > > determine how your webserver is working (or if it is working). > > > > Scott > > > > > > On 1/5/09, Miguel <mgallach@...> wrote: > > > > > > > Hello Scott, > > > thanks for your prompt answer. > > > > > > I installed apache by using the Synaptic Package Manager. The version > is > > > Apache 2.2.8. When I make "which apache2", the machine says it is in > > > "/usr/sbin/apache2". Nevertheles, as I told you, I have the folder > apache > > > with this root: Root/usr/local/apache, in which there are three folders: > > > cgi-bin, conf and htdocs. I guess it is not important. I am going to try > > > what you suggested. Let see. > > > > > > Thanks, > > > Miguel > > > > > > Scott Cain wrote: > > > > > > > > > > > > > Hello Miguel, > > > > > > > > Since you mentioned /usr/local/apache, I'm guessing that the GBrowse > > > > installer tried to guess where to install files for you but guessed > > > > wrong. Did you build apache from source and install it (and if so, is > > > > that version of apache running and the default one not running)? > > > > Assuming the file structure of Kubuntu is the same as Ubuntu, the > > > > default location for cgi scripts is /usr/lib/cgi-bin, which, I'm > > > > betting, is where you will find files named gbrowse, gbrowse_img, etc. > > > > > > > > What you probably need to do is to rerun the perl Makefile.PL command > > > > and supply it with a parameter so it knows where to find the webserver > > > > directories. Assuming you installed apache in /usr/local/apache, you > > > > would do this: > > > > > > > > perl Makefile.PL APACHE=/usr/local/apache > > > > > > > > Or, if you ran the gbrowse_netinstall.pl script to install GBrowse, > > > > you would do this: > > > > > > > > sudo perl gbrowse_netinstall.pl > > > > > > > > > > > --build_param_str="APACHE=/usr/local/apache" > > > > > > > > > > That should (probably) do the trick. > > > > > > > > Scott > > > > > > > > > > > > On 1/5/09, Miguel <mgallach@...> wrote: > > > > > > > > > > > > > > > > > > > > > Hello, > > > > > My name is Miguel. > > > > > > > > > > I need to install GBrowser in my computer (Kubuntu-8.04.1). I > followed > > > > > the instructions from "gmod.org". It was supposed correctly > installed. > > > > > Nevertheless I can not even run the first example in the tutorial > > > > > (volvox example). When I click the link > > > > > "http://localhost/cgi-bin/gbrowse/volvox > > > > > <file:///cgi-bin/gbrowse/volvox>" I always > obtained a > > > > > > > > > > > > > > > > > "Page Load Error" > > > > > > > > > > > > > > > message saying "Firefox can't find the file at > > > > > > > > > > > > > > > > > /cgi-bin/gbrowse/volvox". > > > > > > > > > > > > > > > I have been working in the problem for a week but I can't still > found > > > > > the problem. I don't know if it is an installation problem or I am > just > > > > > doing bad with the example. Besides, I am not sure to fin the > folder > > > > > /localhost/cgi-bin/ to check whether > > > > > "http://localhost/cgi-bin/gbrowse/volvox" is an > > > > > > > > > > > > > > > > > existing directory. Is > > > > > > > > > > > > > > > localhost the same as Root/usr/local/apache? > > > > > > > > > > In case I could not finally install the software, it is possible to > use > > > > > it with personal data from a server. Do you have this service? > > > > > > > > > > > > > > > Thank you for your help, > > > > > Miguel > > > > > > > > > > > > > > > -- > > > > > *********************************** > > > > > Miguel Gallach Caballero > > > > > > > > > > University of Texas at Arlington > > > > > 337 Life Science > > > > > Biology Department > > > > > 501 S. Nedderman Drive > > > > > Arlington, TX 76019-0498 > > > > > > > > > > Lab phone : (817) 272 7178 > > > > > Fax : (817) 272 2855 > > > > > *********************************** > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > ------------------------------------------------------------------------------ > > > > > > > > > > > > > > > _______________________________________________ > > > > > Gmod-gbrowse mailing list > > > > > Gmod-gbrowse@... > > > > > > > > > > > > > > > > > > > > > > > https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > > -- > > > *********************************** > > > Miguel Gallach Caballero > > > > > > University of Texas at Arlington > > > 337 Life Science > > > Biology Department > > > 501 S. Nedderman Drive > > > Arlington, TX 76019-0498 > > > Lab phone : (817) 272 7178 > > > Fax : (817) 272 2855 > > > *********************************** > > > > > > > > > > > > > > > > > > > > -- > *********************************** > Miguel Gallach Caballero > > University of Texas at Arlington > 337 Life Science > Biology Department > 501 S. Nedderman Drive > Arlington, TX 76019-0498 > Lab phone : (817) 272 7178 > Fax : (817) 272 2855 > *********************************** > -- -- ------------------------------------------------------------------------ Scott Cain, Ph. D. scott at scottcain dot net GMOD Coordinator (http://gmod.org/) 216-392-3087 Ontario Institute for Cancer Research ------------------------------------------------------------------------------
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