Question: Installing Galaxy With Apache ...
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gravatar for Neil.Burdett@csiro.au
5.3 years ago by
Neil.Burdett@csiro.au310 wrote:
Hi I've installed galaxy with the default settings and it works fine. On a new Ubuntu machine I am trying to get galaxy running with Apache. But I am having problems, I've followed the documentation. After installing Apache I can put my ip address into a browser and I get message saying Apache is working fine. It displays a message from /var/www/index.html Now when I start galaxy I was assuming I would get redirected to the galaxy welcome page, but this doesn't happen and it remains at /var/www/index.html. To view the welcome page I have to add ":8080" after the ip address. Is this still required? I thought that Apache would know to redirect to my distribution....What am I doing wrong? /etc/apache2/sites-available/default-ssl and /etc/apache2/sites- available/default look like this ... DocumentRoot /var/www <directory/> Options FollowSymLinks AllowOverride None </directory> <directory var="" www=""/> Options Indexes FollowSymLinks MultiViews AllowOverride None Order allow,deny allow from all </directory> etc ... /var/www/.htaccess RewriteEngine on RewriteRule ^/galaxy$ /galaxy/ [R] RewriteRule ^/galaxy/static/style/(.*) /home/galaxy/galaxy- dist/static/june_2007_style/blue/$1 [L] RewriteRule ^/galaxy/static/scripts/(.*) /home/galaxy/galaxy- dist/static/scripts/packed/$1 [L] RewriteRule ^/galaxy/static/(.*) /home/galaxy/galaxy-dist/static/$1 [L] RewriteRule ^/galaxy/favicon.ico /home/galaxy/galaxy- dist/static/favicon.ico [L] RewriteRule ^/galaxy/robots.txt /home/galaxy/galaxy- dist/static/robots.txt [L] RewriteRule ^/galaxy(.*) http://localhost:8080$1 [P] I created an empty 'galaxy' directory with 777 permissions on it under /var/www and universe_wsgi.ini # Define the proxy-prefix filter. [filter:proxy-prefix] use = egg:PasteDeploy#prefix prefix = /galaxy # ---- Galaxy --------------------------------------------------------------- # Configuration of the Galaxy application. [app:main] filter-with = proxy-prefix cookie_path = /galaxy Thanks Neil
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ADD COMMENTlink modified 5.3 years ago by Jelle Scholtalbers360 • written 5.3 years ago by Neil.Burdett@csiro.au310
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gravatar for Jelle Scholtalbers
5.3 years ago by
Germany
Jelle Scholtalbers360 wrote:
Hi Neil, with your current apache configuration, you should probably see Galaxy at http://yourip/galaxy This is due to your Rewriterule /galaxy and for that you have also set proxy_prefix = /galaxy in your universe_wsgi.ini You should probably remove the empty galaxy directory under /var/www Furthermore, most of the time you will not need a directory with 777 in your apache web/documentroot.. Cheers, Jelle
ADD COMMENTlink written 5.3 years ago by Jelle Scholtalbers360
Hi Jelle, I'm still having issues with Apache. I've moved RewriteEngine on RewriteRule ^/galaxy$ /galaxy/ [R] RewriteRule ^/galaxy/static/style/(.*) /home/galaxy/galaxy- dist/static/june_2007_style/blue/$1 [L] RewriteRule ^/galaxy/static/scripts/(.*) /home/galaxy/galaxy- dist/static/scripts/packed/$1 [L] RewriteRule ^/galaxy/static/(.*) /home/galaxy/galaxy-dist/static/$1 [L] RewriteRule ^/galaxy/favicon.ico /home/galaxy/galaxy- dist/static/favicon.ico [L] RewriteRule ^/galaxy/robots.txt /home/galaxy/galaxy- dist/static/robots.txt [L] RewriteRule ^/galaxy(.*) http://localhost:8080$1 [P] from /var/www/.htaccess to /etc/apache2/httpd.conf I still get a "404 Not found" error when trying to access galaxy (http://140.253.78.44/galaxy ) http://140.253.78.44 still gets the "It Works!" Apache default index.html and http://140.253.78.44:8080 gets the galaxy page /var/log/apache2/error.log states... [Fri Aug 24 07:35:27 2012] [error] [client 140.253.78.44] File does not exist: /var/www/favicon.ico [Fri Aug 24 07:36:25 2012] [error] [client 140.253.78.44] File does not exist: /var/www/galaxy Now if I change httpd.conf and add the vitrtualHost tags to: ServerName localhost <virtualhost *:80=""> RewriteEngine on RewriteRule ^/galaxy$ /galaxy/ [R] RewriteRule ^/galaxy/static/style/(.*) /home/galaxy/galaxy- dist/static/june_2007_style/blue/$1 [L] RewriteRule ^/galaxy/static/scripts/(.*) /home/galaxy/galaxy- dist/static/scripts/packed/$1 [L] RewriteRule ^/galaxy/static/(.*) /home/galaxy/galaxy-dist/static/$1 [L] RewriteRule ^/galaxy/favicon.ico /home/galaxy/galaxy- dist/static/favicon.ico [L] RewriteRule ^/galaxy/robots.txt /home/galaxy/galaxy- dist/static/robots.txt [L] RewriteRule ^/galaxy(.*) http://localhost:8080$1 [P] </virtualhost> I now get a "403 Forbidden" error when trying to access (http://140.253.78.44/galaxy ) You don't have permission to access /galaxy/ on this server, and /var/log/apache2/error.log states.. [Fri Aug 24 07:45:33 2012] [error] [client 140.253.78.44] attempt to make remote request from mod_rewrite without proxy enabled: proxy:http://localhost:8080/ [Fri Aug 24 07:45:34 2012] [error] [client 140.253.78.44] File does not exist: /etc/apache2/htdocs Any help much appreciated Neil ________________________________________ To: Burdett, Neil (ICT Centre, Herston - RBWH) Cc: galaxy-user@lists.bx.psu.edu Subject: Re: [galaxy-user] Installing galaxy with Apache ... Hi Neil, with your current apache configuration, you should probably see Galaxy at http://yourip/galaxy This is due to your Rewriterule /galaxy and for that you have also set proxy_prefix = /galaxy in your universe_wsgi.ini You should probably remove the empty galaxy directory under /var/www Furthermore, most of the time you will not need a directory with 777 in your apache web/documentroot.. Cheers, Jelle
ADD REPLYlink written 5.3 years ago by Neil.Burdett@csiro.au310
Hi Neil, I'm certainly not an apache expert so I might be giving you the wrong advise, but try adding the following: LoadModule proxy_module modules/mod_proxy.so LoadModule proxy_http_module modules/mod_proxy_http.so If above fails, try to go back to the simplest configuration mentioned on the galaxy wiki: http://wiki.g2.bx.psu.edu/Admin/Config/Apache%20Proxy Thus: RewriteEngine on RewriteRule ^(.*) http://localhost:8080$1 [P] Which would make your galaxy instance available on http://yourip Cheers, Jelle
ADD REPLYlink written 5.3 years ago by Jelle Scholtalbers360
This thread my help you: http://dev.list.galaxyproject.org/Running-Galaxy-behind- apache2-td4624545.html
ADD REPLYlink written 5.3 years ago by Carlos Borroto390
Thanks very much. This did in fact solve the issue. For those following the thread the "Rewrite" statements have to be added to /etc/apache2/sites-available/defaults. Thanks Again Neil To: Burdett, Neil (ICT Centre, Herston - RBWH) Cc: galaxy-user@lists.bx.psu.edu Subject: Re: [galaxy-user] Installing galaxy with Apache ... This thread my help you: http://dev.list.galaxyproject.org/Running-Galaxy-behind- apache2-td4624545.html
ADD REPLYlink written 5.3 years ago by Neil.Burdett@csiro.au310
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