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Amber Herold, 08/09/2012 03:01 PM
- Enable the processing plug-in by uncommenting out the following line in the file`myamiweb/config.php`
addplugin("processing");
- IMAGIC and Other features:
// 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);
- Add processing host information
Appion version 2.2 and later:
The following code should be added and modified for each processing host available.$PROCESSING_HOSTS[] = array( 'host' => 'LOCAL_CLUSTER_HEADNODE.INSTITUTE.EDU', // for a single computer installation, this can be 'localhost' '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' );
Appion version 2.1 and prior:// --- 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); -- // // $PROCESSING_HOSTS[] = array('host' => '', 'nproc' => );
- Microscope spherical aberration constant
Not needed for Appion version 2.2 and later. Version 2.1 and earlier only:$DEFAULTCS = "2.0";
- Redux server information
This is a very new feature, post Appion 2.2, so you only need this if you are running the trunk.
The Redux server replaces the old mrc_php module and will be released in Appion version 3.0.
Information on redux parameters to add to the config.php
Updated by Amber Herold over 12 years ago · 3 revisions