Install SEA: Difference between revisions
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This is | This is intended for Shoichet lab setup. But we hope other find it useful. | ||
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svn co file:///raid4/svn/sea/trunk /tmp/sea | svn co file:///raid4/svn/sea/trunk /tmp/sea | ||
Users outside of the network should see the [http://sea.bkslab.org/ SEA website] for source code | Users outside of the network should see the [http://sea.bkslab.org/ SEA website] for source code availability. | ||
Notes | Notes about checkout: | ||
* If you will be installing SEA into the system's Python site-packages the source code will need to be checked out into a location with write access for both the active user account **and** the local root user, hence `/tmp/sea`. | * If you will be installing SEA into the system's Python site-packages the source code will need to be checked out into a location with write access for both the active user account **and** the local root user, hence `/tmp/sea`. |
Revision as of 20:24, 30 August 2012
This is intended for Shoichet lab setup. But we hope other find it useful.
The full SEA installation requires a few Python packages:
These are best installed using your your distribution's package manager:
yum install scipy numpy atlas atlas-devel mysql mysql-server
On CentOS systems you may need to add an additional repository to make all of these packages available:
wget http://dl.fedoraproject.org/pub/epel/6/x86_64/epel-release-6-7.noarch.rpm sudo rpm -Uvh epel-release-6-7.noarch.rpm yum update yum install scipy numpy numpy-f2py atlas atlas-devel mysql mysql-server
The additional web-based results viewer requires:
- Apache
- PHP
- PHP MySQL Libraries
sudo yum install php php-mysql php-cli
You will need to checkout the most recent version of the SEA source code. From within the BKS network this can be done by:
svn co file:///raid4/svn/sea/trunk /tmp/sea
Users outside of the network should see the SEA website for source code availability.
Notes about checkout:
- If you will be installing SEA into the system's Python site-packages the source code will need to be checked out into a location with write access for both the active user account **and** the local root user, hence `/tmp/sea`.
- It is important that you are using the version of python into which you NumPy and SciPy have been added and which you intent to install SEA to. For example if you wish to install SEA to the local python instance `which python` should return `/usr/bin/python`. If it does not, the easiest way to remidy this is `alias python /usr/bin/python`. This can be the source of many headaches.
Note that there is a useful manunal distriputed with the source code located in `${seapath}/sea/data/doc/manual.html`.