Analytics

CoGe - Analytics

CoGe Analytics is a metrics and analytics engine for the CoGe platform written on Clojure's web framework Noir.

How To: Deploy on a Server via Apache Webserver

Prerequisites:

(You can install these CLI tools using your linux distributions preferred package manager)

• Apache2 - with plugins
  • libapache2-mod-proxy-html - For proxying the running port to the correct endpoints.
  • libxml2-dev
• Maven - For Clojure Dependencies
• Git - For cloning repos in from github
• Leingingen - Leiningen - Automate Clojure projects without setting your hair on fire.

Get Analytics Running:

1. Once you have all the prerequisites installed, you need to get the Greentea (Analytics) repo from Github.
   1. Run: `$ git clone https://github.com/LyonsLab/Greentea.git`
2. Inside the cloned directory run: `$ lein run &` it should pull in all the required dependencies* and start a Jetty servlet running on port 3456.
   1. Check localhost:3456 to verify that the analytics platform is running.

Configure Apache to Proxy the /analytics Endpoint

1. Now to setup apache to point localhost/analytics/ to port 3456
   1. Open '/etc/apache2/apache.conf' in your favorite editor and add these lines:

RewriteEngine On 
NameVirtualHost *:90 
Listen 90

<VirtualHost *:90> 
 ServerAdmin coge.genome@gmail.com ServerName localhost 
 #ServerAlias geco.com.analytics
 ErrorLog /home/rchasman/logs/error.log CustomLog <PATH>/logs/access.log combined LogLevel warn 
 <Directory <PATH>/Greentea/resources/public/>                    
   AllowOverride All                                                        
   Order Allow,Deny                                                         
   Allow from all                                                           
 </Directory>                                                                 
                                                               
 DocumentRoot <PATH>/Greentea/resources/public                    
                                                               
 ProxyPass /analytics/ http://localhost:3456/analytics/                       
 ProxyPassReverse /analytics/ http://localhost:3456/analytics/                
                                                               
 ProxyPass /analytics http://localhost:3456/analytics/                        
 ProxyPassReverse /analytics http://localhost:3456/analytics/                 
                                                               
 ProxyPass /greentea/ http://localhost:3456/greentea/                         
 ProxyPassReverse /greentea/ http://localhost:3456/greentea/                  
                                                               
 ProxyPass /greentea http://localhost:3456/greentea/                          
 ProxyPassReverse /greentea http://localhost:3456/greentea/                   
</VirtualHost> 

*In the case of a common dependency issue with iplant-clojure-commons:

1. We need to point to the missing dependency manually:
   1. Run: `$ git clone https://github.com/iPlantCollaborativeOpenSource/iplant-clojure-commons.git`
   2. In lein 2.0 this will create a file at "../iplant-clojure-commons/clojure-commons-1.3.3-SNAPSHOT-standalone.jar"
   3. Run: `$ lein uberjar` in the iplant-clojure-commons directory.
   4. Run: `mvn install:install-file -DgroupId=org.iplantc -DartifactId=clojure-commons -Dversion=1.3.3-SNAPSHOT -Dpackaging=jar -Dfile=<PATH>/iplant-clojure-commons/clojure-commons-1.3.3-SNAPSHOT-standalone.jar`
   5. Try `$ lein clean` and then `$ lein run` again, the dependency issue should be resolved.