Install the Web Interface Advanced » History » Revision 10
Revision 9 (Amber Herold, 06/04/2012 12:51 PM) → Revision 10/14 (Amber Herold, 06/04/2012 12:52 PM)
h1. Install the Web Interface Advanced
h3. Manual configuration instructions (Advanced User)
*Note:* You may skip this section if you configured your installation with the setup wizard at http://localhost/myamiweb/setup.
Copy config.php.template to config.php and edit the latter by adding these parameters:
"config.php" should be located in /var/www/html/myamiweb/ on CentOS and /srv/www/htdocs/myamiweb/ on SuSE.
# define site base path
This should be changed if the myamiweb directory is located
in a sub-directory of the Apache web directory.
ex. myamiweb is in /var/www/html/applications/myamiweb/ then
change to define('BASE_PATH',"applications/myamiweb");
<pre>
define('BASE_PATH',"myamiweb");
</pre>
# myamiweb login system
<pre>
// Browse to the administration tools in myamiweb prior to
// changing this to true to populate DB tables correctly.
define('ENABLE_LOGIN', false);
</pre>
# Administrator email title and email address
<pre>
define('EMAIL_TITLE', 'The name of your institute');
define('ADMIN_EMAIL', "example@institute.edu");
</pre>
# SMTP Server setup (not required but recommended):
<pre>
define('ENABLE_SMTP', false);
define('SMTP_HOST', 'mail.institute.edu'); //your smtp host
</pre>
## When SMTP server requires authentication
<pre>
// --- Check this with your email administrator -- //
// --- Set it to true if your SMTP server requires authentication -- //
define('SMTP_AUTH', false);
// --- If SMTP_AUTH is not required(SMTP_AUTH set to false, -- //
// --- no need to fill in 'SMTP_USERNAME' & SMTP_PASSWORD -- //
define('SMTP_USERNAME', "");
define('SMTP_PASSWORD', "");
</pre>
# Setup your MySQL database server parameters:
<pre>
define('DB_HOST', ""); // DB Host name
define('DB_USER', ""); // DB User name
define('DB_PASS', ""); // DB Password
define('DB_LEGINON', ""); // Leginon database name
define('DB_PROJECT', ""); // Project database name
</pre>
# Enable Image Cache
If you want to use caching function for faster image loading time in image viewer, change 'ENABLE_CACHE' to true.
You can change the 'CACHE_PATH' to other location, but make sure the apache user has write access to this folder.
<pre>
// --- Enable Image Cache --- //
define('ENABLE_CACHE', true);
// --- caching location --- //
// --- please make sure the apache user has write access to this folder --- //
define('CACHE_PATH', '/srv/www/cache/');
define('CACHE_SCRIPT', WEB_ROOT.'/makejpg.php');
</pre>
h3. Additional parameters needed for Appion Installations only:
{include([[appion [[appion config advanced]])} advanced]]
# Enable the processing plug-in by uncommenting out the following line in the file`myamiweb/config.php`
<pre>
addplugin("processing");
</pre>
# IMAGIC and Other features:
<pre>
// Check if IMAGIC is installed and running, otherwise hide all functions
define('HIDE_IMAGIC', false);
// hide processing tools still under development.
define('HIDE_FEATURE', true);
</pre>
# Add processing host information
*Appion version 2.2 and later:*
The following code should be added and modified for each processing host available.
<pre>
$PROCESSING_HOSTS[] = array(
'host' => 'myhost.inst.edu',
'nproc' => 32, // number of processors available on the host, not used
'nodesdef' => '4', // default number of nodes used by a refinement job
'nodesmax' => '280', // maximum number of nodes a user may request for a refinement job
'ppndef' => '32', // default number of processors per node used for a refinement job
'ppnmax' => '32', // maximum number of processors per node a user may request for a refinement job
'reconpn' => '16', // recons per node, not used
'walltimedef' => '48', // default wall time in hours that a job is allowed to run
'walltimemax' => '240', // maximum hours in wall time a user may request for a job
'cputimedef' => '1536', // default cpu time in hours a job is allowed to run (wall time x number of cpu's)
'cputimemax' => '10000', // maximum cpu time in hours a user may request for a job
'memorymax' => '', // the maximum memory a job may use
'appionbin' => 'bin/', // the path to the myami/appion/bin directory on this host
'appionlibdir' => 'appion/', // the path to the myami/appion/appionlib directory on this host
'baseoutdir' => 'appion', // the directory that processing output should be stored in
'localhelperhost' => '', // a machine that has access to both the web server and the processing host file systems to copy data between the systems
'dirsep' => '/', // the directory separator used by this host
'wrapperpath' => '', // advanced option that enables more than one Appion installation on a single machine, contact us for info
'loginmethod' => 'SHAREDKEY', // Appion currently supports 'SHAREDKEY' or 'USERPASSWORD'
'loginusername' => '', // if this is not set, Appion uses the username provided by the user in the Appion Processing GUI
'passphrase' => '', // if this is not set, Appion uses the password provided by the user in the Appion Processing GUI
'publickey' => 'rsa.pub', // set this if using 'SHAREDKEY'
'privatekey' => 'rsa' // set this if using 'SHAREDKEY'
);
</pre>
*Appion version 2.1 and prior:*
<pre>
// --- Please enter your processing host information associate with -- //
// --- Maximum number of the processing nodes -- //
// --- $PROCESSING_HOSTS[] = array('host' => 'host1.school.edu', 'nproc' => 4); -- //
// --- $PROCESSING_HOSTS[] = array('host' => 'host2.school.edu', 'nproc' => 8); -- //
// $PROCESSING_HOSTS[] = array('host' => '', 'nproc' => );
</pre>
# Microscope spherical aberration constant
Not needed for Appion version 2.2 and later. Version 2.1 and earlier only:
<pre>
$DEFAULTCS = "2.0";
</pre>
We will not include the cluster registration now. It is covered in the last part of this document.
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