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Generally, you will want to create a user account for running emen2, e.g. 'emen2.' This has the benefit of working well with the default config file. Running as any other user also works fine, you will just have to change one or two paths in config.yml. |
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| Download the latest EMEN2 source code release and untar | Download the latest EMEN2: |
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| If there is an existing source tree installed, you may want to rename it in case you need to revert to the previous version, e.g. mv emen2 emen2.old.03.20.2010. If you have an existing EMEN2 environment, I strongly recommend taking an additional tar backup of that directory before proceeding, in addition to normal backup procedures (log archive, db hot backup) in case you need to revert without the difficulty of performing a full recovery from archives. |
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The instructions below assume you are setting EMEN2 up in a separate user account called 'emen2', with a default home directory '/home/emen2', and the emen2 source code in '/home/emen2/src/emen2' You will need to create a directory for your EMEN2 environment. A reasonable default is /home/emen2/db. It is strongly recommended to set the DB_HOME environment variable to this path for convenience. You will also need to add the parent of the EMEN2 source directory to your PYTHONPATH environment variable. Adjust the paths below, and place in your .bash_profile: {{{ export DB_HOME=/home/emen2/db export PYTHONPATH=$PYTHONPATH:/home/emen2/src }}} Create the DB_HOME directory and copy the default configuration file. {{{ mkdir $DB_HOME cp config/config.sample.yml $DB_HOME/config.yml }}} |
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| Edit the various settings in $DB_HOME/config.yml. See [[EMEN2/config.yml]]. Primarily, you will want to check the path and network settings. A simple configuration will have most EMEN2 directories (db, applog, archive, db_hotbackup, emen2files, etc.) placed under the path specified by the "&root" element, which is /home/emen2/ by default. {{{ root: &root /home/emen2/ }}} |
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After config.yml is to your liking, run {{{ python ./setup.py }}} The rest of the EMEN2 environment will be created, skeleton parameter/protocol definitions will be installed, and a root user created. You will be prompted on the shell for a root password. |
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| {{{ python ./TwistServer.py }}} You should be able to connect to this web server instance once it is "listening..." The default port is 8080. You may login with the root password you specified previously. |
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You may want to import the parameter and protocol definitions from the EMEN2 installation at the NCMI. In the future, these will be published in an open format, and made available by default. {{{ python ./clients/clone.py -- --defs --host http://ncmidb.bcm.edu }}} Note: the first "--" is intentional and required at the moment. Command arguments for the local database go before "--", arguments to the cloning script go after ("--defs") You will be prompted for two sets of credentials. First, an NCMI DB account, and second, the root password for the local database. If you do not have an NCMI DB account, you may specify "anonymous" as the username, and your email address as the password. |
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| EMEN2 includes a C module that increases index read speed by using some features of the Berkeley DB interface that are not exposed by the bsddb3 module. See [[EMEN2/bulk.so]] for information on how to build this module. This module is not required, and can be enabled/disabled at any time. |
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After you are satisfied with your setup, you can run EMEN2 in the background {{{ python ./emen2control.py --start }}} |
Installing and configuring EMEN2
Contents
Install Dependencies
You will first need to install the various EMEN2 dependencies. They are all straight-forward to install, and can generally be installed using Python's easy_install system.
Download EMEN2
Download the latest EMEN2:
http://ncmi.bcm.edu/ncmi/software/software_details?selected_software=EMEN2
Create EMEN2 Environment
Edit Configuration
Initialize EMEN2 Environment
Test Web Server
Optional: Import
Optional: Accelerator Module