Installation linux
Contents
Installing the relax dependencies
The python-devel and scons packages are only required if the C modules need to be compiled for your system.
- Grace software is used for visualisation of 2D data sets.
- subversion is only if you wan't to checkout the source code.
- matplotlib is not a necessity, but is likely to be implemented later for extended plotting.
RHEL 5 and compatible distributions
For RPM-based Linux distributions with access to the YUM installer, first install the relax dependencies with:
yum install python
yum install python-devel
yum install numpy
yum install scipy
yum install scons
yum install wxPython
yum install grace
yum install subversion
yum install python-matplotlib
# We can manage python package installations with pip
sudo easy_install pip
If you do not have root access but are in the sudo group, then add a sudo before each of the above commands.
Minfx and Bmrblib
Testing the Python installation
Before installing relax, it is best to be sure that the Python modules are functional by importing them:
Checking out a relax branch
If you would like to play with relax branch rather than the main relax downloads, the Subversion program should first be installed.
You can see the different branches here.
First the relax sources can be checked out of the source code repository and the C modules compiled:
Using git
To check out the relax trunk using the git client, simply type:
git clone git://git.code.sf.net/p/nmr-relax/code/ relax
Compilation of the C modules
For the R1 and R2 and relaxation dispersion analyses, the relax C modules must be compiled. This is done using the scons program, by simply typing:
cd relax_trunk
scons
You must be in the base relax directory for this to work.
In addition, if you would like to compile the relax user manual via LaTeX, you can also use scons. See the wiki page manual.:
Add to path - C_shell / Tcsh
cd relax_trunk
echo "setenv PATH $PWD"':$PATH' >> $HOME/.cshrc
Restart the terminal, to load the new variables.
Start relax
Normal
# Normal
relax
# See help
relax -h
# In GUI mode
relax -g
# Execute script
relax -g
Test installation
| Caution After an installation you should really run an Installation_test. |
Trouble shooting
On some Linux systems, the icons for the menu items are not shown. This was a decision taken by the Gnome developers at some point to keep the GUI minimal, though in recent versions this behaviour has been reverted.
If you suffer from this problem, to reactive the icons simply type in the shell:
gconftool-2 --get /desktop/gnome/interface/menus_have_icons gconftool-2 --type boolean --set /desktop/gnome/interface/menus_have_icons true
For GNOME 3
# Get schemas gsettings list-schemas gsettings list-schemas | grep org.gnome.desktop gsettings list-schemas | grep org.gnome.desktop.interface
# Get keys gsettings list-keys org.gnome.desktop.interface gsettings list-keys org.gnome.desktop.interface | grep icon gsettings list-keys org.gnome.desktop.interface | grep desktop
# Get value gsettings get org.gnome.desktop.interface icon-theme
# https://wiki.archlinux.org/index.php/GNOME/Tips_and_tricks#Enable_button_and_menu_icons # Since GTK+ 3.10, the GSettings key 'menus-have-icons' has been deprecated. Icons in buttons and menus can still be enabled by setting the following overrides: gsettings set org.gnome.settings-daemon.plugins.xsettings overrides "{'Gtk/ButtonImages': <1>, 'Gtk/MenuImages': <1>}"
# Check gsettings list-keys org.gnome.settings-daemon.plugins.xsettings gsettings get org.gnome.settings-daemon.plugins.xsettings overrides
