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doku:smrtanalysis [2017/01/31 10:04] – created markus | doku:smrtanalysis [2017/01/31 12:14] (current) – markus | ||
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- | ==== SMRTAnalysis installation ==== | + | ==== SMRTAnalysis |
- | + | === installation === | |
- | < | + | - add SMRTAnalysis_HOME to your .bashrc:< |
- | start_dir=`pwd` | + | source ~/ |
+ | - Run the installer, use default optionx except for the points below:< | ||
+ | cd $SMRTAnalysis_HOME | ||
./ | ./ | ||
+ | |||
#DNS name: localhost | #DNS name: localhost | ||
#TOMCAT port: 8090 (8080 in use by cmd) | #TOMCAT port: 8090 (8080 in use by cmd) | ||
Line 9: | Line 12: | ||
#job management system: NONE | #job management system: NONE | ||
#cores used: 16 | #cores used: 16 | ||
+ | </ | ||
+ | - Reset MYSQL password: < | ||
+ | cd $SMRTAnalysis_HOME | ||
./ | ./ | ||
- | export LD_LIBRARY_PATH=$LD_LIBRARY_PATH: | + | export LD_LIBRARY_PATH=$LD_LIBRARY_PATH: |
- | ${start_dir}/ | + | ${SMRTAnalysis_HOME}/ |
</ | </ | ||
+ | - edit ' | ||
+ | [client] | ||
+ | user = root | ||
+ | password = yourpassword | ||
+ | |||
+ | </ | ||
+ | |||
+ | |||
+ | |||
+ | === running === | ||
+ | |||
+ | |||
+ | - allocate a node: < | ||
+ | - start server on allocated: < | ||
+ | - create SSH tunnel | ||
+ | * on the login node: < | ||
+ | * on your local machine: paste the command from the previous step and create the SSH tunnel | ||
+ | - navigate to http:// | ||
+ | - when finished stop the server on the compute node: < | ||
+ | - follow the instructions on [[http:// | ||
+ | |||
+ | |||
+ |