Support #877
Updated by Daniel Curtis about 8 years ago
{{>toc}}
This is a guide for setting up FlowCytometryTools on Arch Linux.
h2. Prepare the Environment
* Make sure the system is up to date:
<pre>
pacman -Syyuu
</pre>
* Install a few dependencies:
<pre>
pacman -S gcc-fortran-multilib git freetype2 pkgconf png
</pre>
*NOTE*: The +multilib+ repository must be enabled in the pacman config file.
*NOTE*: To use the FlowCytometryTools GUI, wxPython must be installed as well:
<pre>
pacman -S wxpython2.8
</pre>
* Setup a Python development envirnoment, refer to issue #876
h2. Install FlowCytometry with Pip
* Switch to the pydev user:
<pre>
su - pydev
</pre>
* Create the FlowCytometryTools virtualenv:
<pre>
virtualenv2 FCT
</pre>
* Activate the virtualenv:
<pre>
source ./FCT/bin/activate
</pre>
* *NOTE*: If using the GUI utility, create a symbolic link of the host wxpython library in the virtualenv library:
<pre>
ln -s /usr/lib/python2.7/site-packages/wx.pth ~/venv/FCT/lib/python2.7/site-packages/
</pre>
* Install FlowCytometryTools:
<pre>
pip --no-cache-dir install flowcytometrytools
</pre>
*NOTE*: I needed to install ipython inside the virtualenv, deactivate, then reactivate for the interactive shell to work:
<pre>
pip install ipython
</pre>
h2. Install FlowCytometryTools from GitHub
* Switch to the pydev user:
<pre>
su - pydev
</pre>
* Create the FlowCytometryTools virtualenv:
<pre>
virtualenv FCT
</pre>
* Activate the virtualenv:
<pre>
source ./FCT/bin/activate
</pre>
* Clone the FlowCytometryTools from GitHub:
<pre>
git clone https://github.com/eyurtsev/FlowCytometryTools.git
cd FlowCytometryTools
</pre>
* Run the install script:
<pre>
python setup.py install
</pre>
h2. Resources
* https://github.com/eyurtsev/FlowCytometryTools
* https://pypi.python.org/pypi/FlowCytometryTools
* http://eyurtsev.github.io/FlowCytometryTools/install.html
* http://eyurtsev.github.io/FlowCytometryTools/tutorial.html