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n/omero: Updated for OMERO.web.

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slackware-14.2
Damien Goutte-Gattat 10 years ago
parent 99982ad861
commit 8fc5164a3f
3 changed files with 59 additions and 38 deletions
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  1. 77
      n/omero/README
  2. 2
      n/omero/omero.SlackBuild
  3. 18
      n/omero/rc.omero

77
n/omero/README
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@ -1,4 +1,4 @@
PACKAGER'S README FOR OMERO-Beta4.2.2
PACKAGER'S README FOR OMERO-4.4.6
Damien Goutte-Gattat <dgouttegattat@incenp.org>
@ -8,7 +8,7 @@
This file does not come from the OMERO project and the OMERO
developers don't endorse anything of it. Official documentation and
instructions for installing and running OMERO server should be looked
for at <http://www.openmicroscopy.org/site/support/omero4/server/>.
for at <http://www.openmicroscopy.org/site/support/omero4/sysadmins/>.
2. SYSTEM USERS AND GROUPS
@ -85,6 +85,27 @@
5. OMERO.web
The Django-based web application OMERO.web is not enabled by default,
as it requires some configuration.
Add the following lines to the OMERO configuration file
/etc/omero/omero.properties:
---8<----------------------------------------------------------------
omero.web.application_server=fastcgi-tcp
omero.web.application_server.host=localhost
omero.web.application_server.port=4080
omero.web.application_host=<hostname>:80
omero.web.debug=false
--->8----------------------------------------------------------------
Then, edit the control script /etc/rc.d/rc.omero to automatically
start and start the FCGI workers alongside the OMERO server itself:
---8<----------------------------------------------------------------
OMERO_WEB_ENABLED=yes
--->8----------------------------------------------------------------
The Django-based web application OMERO.web is needed at least to
create OMERO users. By default this application is not enabled. Edit
the control script /etc/rc.d/rc.omero to automatically start and stop
@ -94,34 +115,42 @@
OMERO_WEB_ENABLED=yes
--->8----------------------------------------------------------------
OMERO.web exists in two flavors. The simplest is the "development"
mode. To use it, add the following lines to the main configuration
file /etc/omero/omero.properties:
Then, you need to install and configure the Apache HTTP server to
actually serve the application.
---8<----------------------------------------------------------------
omero.web.application_server=development
omero.web.debug=false
--->8----------------------------------------------------------------
NOTE: Do *not* follow the official OMERO documentation from this
point, as it does not support running OMERO.web with Apache 2.4 and
the mod_proxy_fcgi module. In particular, the configuration lines
produced by the following command:
omero web config apache
The recommended deployment mode requires more work to setup. First,
install n/mod_fastcgi, the Apache module for FastCGI support.
is not suitable for Apache 2.4.
Second, configure OMERO by appending the following lines to the main
configuration file /etc/omero/omero.properties:
Instead, add the following stanza to your Apache configuration:
---8<----------------------------------------------------------------
omero.web.application_server=fastcgi
omero.web.application_host=http://<server.hostname>:80
omero.web.debug=false
--->8----------------------------------------------------------------
RewriteEngine On
RewriteRule ^/?$ /omero/ [R]
ProxyPass /webclient fcgi://localhost:4080
ProxyPass /webadmin fcgi://localhost:4080
Third, configure Apache httpd to publish the OMERO web application.
When OMERO is started, run the following command to obtain the
appropriate configuration stanza:
Alias /static /opt/omero/lib/python/omeroweb/static
<Directory "/opt/omero/lib/python/omeroweb/static">
Options -Indexes +FollowSymLinks
Require all granted
</Directory>
--->8----------------------------------------------------------------
# sudo -H -u omero omero web config apache
(Make sure the mod_rewrite, mod_proxy and mod_proxy_fcgi modules are
loaded. This is normally done in the default httpd configuration file
provided by Slackware.)
and paste the result in the Apache configuration file.
Start the web server. OMERO.web should now be reachable at
<http://<hostname>/webclient> (for the main client interface) and at
<http://<hostname>/webadmin> (for the administration interface).
Note that the OMERO web application does not seem to support being
published at any other place than the server root ("/"). If your
@ -133,7 +162,7 @@
<VirtualHost server_ip:80>
ServerName server.hostname
...output of the 'omero web config apache' command...
...insert the above-mentioned configuration stanza...
</VirtualHost>
--->8----------------------------------------------------------------
@ -165,7 +194,7 @@
http://www.openmicroscopy.org/site/support/omero4/server/upgrade
To upgrade OMERO 4.2.x to OMERO-4.3.x:
To upgrade OMERO 4.3.x to OMERO-4.4.x:
- stop OMERO if it is running;

2
n/omero/omero.SlackBuild
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@ -25,7 +25,7 @@
# Latest omero sourcecode is available at: <http://www.openmicroscopy.org/>.
#
# Depends: d/ice, ap/postgresql
# Optional: l/numpy, l/pytables, n/mod_fastcgi
# Optional: l/numpy, l/pytables
# Source package infos
NAMESRC=${NAMESRC:-OMERO.server}

18
n/omero/rc.omero
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@ -12,6 +12,9 @@ init)
exit 1
fi
echo Reseting previous configuration
rm -f ${CONFIG_FILE%/omero.properties}/grid/config.xml
echo Reading configuration from $CONFIG_FILE...
DATADIR=$(sed -nre 's/^omero\.data\.dir=(.*)$/\1/p' $CONFIG_FILE)
DB_HOST=$(sed -nre 's/^omero\.db\.host=(.*)$/\1/p' $CONFIG_FILE)
@ -51,25 +54,14 @@ init)
start)
sudo -H -u omero omero admin start
if [ "x$OMERO_WEB_ENABLED" = xyes ]; then
omeroweb_mode=$(sed -nre 's/^omero.web.application_server=(.*)$/\1/p' $CONFIG_FILE)
if [ "x$omeroweb_mode" = xfastcgi ]; then
sudo -H -u omero omero web start
else
sudo -H -u omero omero web start >/dev/null 2>&1 &
fi
sudo -H -u omero omero web start
fi
;;
stop)
if [ -f $ICEGRID_PIDFILE ] && kill -0 $(< $ICEGRID_PIDFILE) 2>/dev/null ; then
if [ "x$OMERO_WEB_ENABLED" = xyes ]; then
omeroweb_mode=$(sed -nre 's/^omero.web.application_server=(.*)$/\1/p' $CONFIG_FILE)
if [ "x$omeroweb_mode" = xfastcgi ] ; then
sudo -H -u omero omero web stop
else
omeroweb_pid=$(ps -ef | sed -nre 's/^omero +([0-9]+).* manage.py runserver .*$/\1/p')
[ -n "$omeroweb_pid" ] && kill $omeroweb_pid
fi
sudo -H -u omero omero web stop
fi
sudo -H -u omero omero admin stop
fi

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