Configure gbrowse_apache2.conf

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Configure gbrowse_apache2.conf

Asma Riyaz
Hi,

I am trying to set up GBrowse's apache configuration:

Here is the gbrowse_apache2.conf file:

Alias        "/gbrowse2/i/" "/var/cache/gbrowse/images/"
Alias        "/gbrowse2"    "/usr/share/gbrowse/htdocs"
ScriptAlias  "/gb2/gbrowse/"      "/usr/lib/cgi-bin/gb2/gbrowse"

<Directory "/usr/share/gbrowse/htdocs">
  AllowOverride Options
  Options -Indexes -MultiViews +FollowSymLinks
  Require all granted
</Directory>

<Directory "/usr/share/gbrowse/htdocs/tutorial">
  Options +Indexes
</Directory>

<Directory "/var/cache/gbrowse/images/">
  Require all granted
</Directory>

<Directory "/var/lib/gbrowse/databases">
  Require all granted
</Directory>

<Directory "/usr/lib/cgi-bin/gb2/gbrowse">

  Options ExecCGI
  SetEnv GBROWSE_CONF   "/etc/gbrowse2"
</Directory>

<IfModule mod_fcgid.c>
  Alias /fgb2 "/usr/lib/cgi-bin/gb2/gbrowse"
  <Location /fgb2>
    SetHandler   fcgid-script
  </Location>
  FcgidInitialEnv GBROWSE_CONF /etc/gbrowse2
  # these directives prevent idle/busy timeouts and may need to be
  # adjusted up or down
  FcgidMinProcessesPerClass 6
  FcgidIOTimeout   600
  FcgidBusyTimeout 600

</IfModule>

<IfModule mod_fastcgi.c>
  Alias /fgb2 "/usr/lib/cgi-bin/gb2/gbrowse"
  <Location /fgb2>
    SetHandler   fastcgi-script
  </Location>
  # Note: you may need to increase -idle-timeout if file uploads are timing out and returning server
  # errors.
  FastCgiConfig -idle-timeout 600 -maxClassProcesses 20  -initial-env GBROWSE_CONF=/etc/gbrowse2
</IfModule>
<IfModule mod_perl.c>
   Alias /mgb2 "/usr/lib/cgi-bin/gb2/gbrowse"

<IfModule mod_perl.c>
<Location /mgb2>
     SetHandler perl-script
     PerlResponseHandler ModPerl::Registry
     PerlOptions +ParseHeaders
   </Location>
</IfModule>


My iframe is set in this way:
<iframe src="/gb2/gbrowse/{% if organismId %}organismId{{ organismId }}{% endif %}{% if uniquename %}?uniquename={{ uniquename }}{% else %}{% if name %}?name={{ name }}{% endif %}{% endif %}" style="border: none; margin: 0 auto;" width="100%" height="100%"></iframe>

All this ends up displaying the gbrowse script under gb2 itself rather that the browser itself, any inputs to change this?

Thanks
Asma








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