Installing FSLeyes¶
There are several ways to obtain and install FSLeyes.
Install as part of FSL (recommended)¶
FSLeyes comes bundled with all versions of FSL from 5.0.10 onwards. So if you have FSL, you already have FSLeyes.
The version which comes bundled with FSL may be slightly out of date, so you may wish to update FSLeyes within your FSL installation - keep reading.
Install standalone build (recommended)¶
This is currently the recommended way to install FSLeyes.
If your operating system is supported, the easiest way to run FSLeyes is to download and install a standalone version from the FSLeyes home page.
If you wish to upgrade your version of FSLeyes which was installed as part of FSL (note: you may need to ask your system administrator to do this):
For macOS:
cd $FSLDIR/bin/
sudo mv FSLeyes.app FSLeyes.app_backup
sudo unzip /path/to/downloaded/FSLeyes_macos_latest.zip
For Linux:
cd $FSLDIR/bin/
sudo mv FSLeyes FSLeyes_backup
sudo unzip /path/to/downloaded/FSLeyes_centos6_latest.zip
If you are installing FSLeyes independently of FSL:
Download the
zip
ortar.gz
file for your platform.Unzip/untar the downloaded file to a location of your choice.
Call FSLeyes like this (you may wish to put the directory containing the
fsleyes
command on your$PATH
environment variable):Platform
Command to run FSLeyes
Linux
/path/to/downloaded/FSLeyes/fsleyes
macOS
/path/to/downloaded/FSLeyes.app/Contents/MacOS/fsleyes
Install from PyPi (advanced)¶
FSLeyes is available on PyPi, and should work with Python 2.7, 3.4, 3.5, and 3.6. The best way to install FSLeyes from PyPi is to create an isolated python environment with virtualenv For example, if you are using python 3.5:
python -m venv fsleyes-virtualenv
. fsleyes-virtualenv/bin/activate
macOS users¶
Once you have activated your virtual environment, you should be able to install FSLeyes like so:
pip install fsleyes
Linux users¶
Before installing FSLeyes, you first need to install wxPython. The easiest way to do this on Linux is to use the pre-release wxPython builds available at https://extras.wxpython.org/wxPython4/extras/linux/. For example, if you are using CentOS 7:
pip install -f https://extras.wxpython.org/wxPython4/extras/linux/gtk2/centos-7 wxpython
pip install fsleyes
You will also need to install the wxPython runtime dependencies. Under CentOS 7, you will need to run the following command:
sudo yum install freeglut SDL
Similarly, under Ubuntu:
sudo apt-get install freeglut3 libsdl1.2debian
Another option is to install wxPython directly from PyPi - if you do this, you will need to have C/C++ compilers installed, and all of the dependencies required to compile wxPython. Under CentOS 7, run the following commands:
sudo yum groupinstall "Development tools"
sudo yum install gtk2-devel gtk3-devel webkitgtk-devel webkitgtk3-devel
sudo yum install libjpeg-turbo-devel libtiff-devel SDL-devel gstreamer-plugins-base-devel libnotify-devel freeglut-devel
Under Ubuntu, run the following:
sudo apt-get install build-essential
sudo apt-get install libgtk2.0-dev libgtk-3-dev libwebkitgtk-dev libwebkitgtk-3.0-dev
sudo apt-get install libjpeg-turbo8-dev libtiff5-dev libsdl1.2-dev libgstreamer1.0-dev libgstreamer-plugins-base1.0-dev libnotify-dev freeglut3-dev
Then you should be able to run pip install fsleyes
.
Install from conda-forge
(advanced)¶
FSLeyes will soon be available on conda-forge.