JAGS was developed to help those non-Window users to be able to use BUGS. However, I found it is very hard to install JAGS and its R package-rjags. Here is my note on how to install JAGS and rjags in Fedora 10. The note here should work for all Linux systems.
1. Download JAGS source code from JAGS website into any folder. The file you are looking for should look like this JAGS-1.0.3.tar.gz. The version number which might be changed if JAGS is updated.
2. Extract the tar.gz file as: tar xfvz JAGS-1.0.3.tar.gz. This will create a JAGS-1.0.3 folder that contains JAGS files.
3. Go to JAGS folder as: cd JAGS-1.0.3.
4. Do the following to install JAGS:
sudo make install
sudo is just a Linux command that force to execute command as the administrator
5. Type jags in the terminal console to see if JAGS is installed properly. Quite JAGS by typing exit.
1. In the terminal console, start R as:
2. Install rjags. In the R console, type:
install.packages("rjags", configure.args="--with-jags-include=/usr/local/include/JAGS --with-jags-lib=/usr/local/lib/JAGS --with-jags-modules=/usr/local/lib/JAGS/modules")
In each --with above, there is an empty space to separate the code.
The trick here is that rjags will ask for JAGS HEADER file, libraries and modules. So if the above code does not work, search for them and specify the right PATH in the above code.
We have also written a package called R2jags that emulates what R2WinBUGS does. But it depends on rjags. So if you have successfully installed rjags, you might want to try R2jags. It has a powerful feature which is imported from rjags that you can pick up your previous saved MCMC and update it. I have a blog entry that discuss about this feature here.
1 day ago