WOMBAT is distributed as a pre-compiled executable file. A number of versions are available. The main target operating system is Linux. In addition, executable files for Windows environments are available.
1. Download the version appropriate to your machine from
HINT: PATH is set in your login file, e.g. .login_usr, or shell start-up
file, e.g. .tcshrc; use printenv PATH to check your current PATH
You make have to log out and log in again before changes in your PATH are recognised, and wombat is found by the system.
As a courtesy, a 64-bit version of WOMBAT, womba_W64.zip, is available that will run under Windows. This has been cross-compiled under Linux and appears to run in MSYS and CYGWIN environments or a DOS window.
This can be downloaded from
For MSYS or CYGWIN adapt the Linux instructions for installation. Otherwise unzip wombat_W64.zip. This will give you the executable file wombat.exe.
HINT: You may be able to inspect the setting for PATH by opening
a command window (type cmd.exe into the “Run” box in the start
menu & hit return) and typing ECHO %PATH%.
Under XP, right-click on My Computer (from the start menu), choose Properties, then Advanced and the Environment Variables tab. This will open a dialog box which will list the existing variables and their settings. If PATH already exists, choose Edit and add the WOMBAT directory – remember to use the full path and to separate it from the existing variables by a semi-colon. Otherwise choose New and create it.
WOMBAT is expected to be run from a command line interface, i.e. you need to open a ‘terminal’ window and type in the appropriate command, hitting return to start the program running.
The general form of the command (under Linux and its emulation) is
wombat options parfile
with parfile the ‘parameter file’ specifying everything WOMBAT needs to know about the input files and models of analysis (see 4 for full details), and options any run time options you may wish to give (see 5). If you have not put the executable file somewhere the operating system can find it (or have not modified your PATH settings), you will need to replace wombat above by the full path, e.g. /home/agbu/WOMBAT/wombat if the program has been placed in /home/agbu/WOMBAT.
If you have installed MinGW/MSYS, you should open such ‘terminal’ and run WOMBAT in it in the same way as under Linux. Otherwise, you should open a DOS type window and type the command in it. Remember to use backwards rather than forward slash(es) if you need to type a full path to the executable.
You can run wombat.exe by simply double-clicking on it. However, this is not recommended! WOMBAT creates screen output which lets you monitor how a run is progressing. More importantly, this screen output will provide some diagnostics when something has gone wrong, e.g. help you remedy errors in the parameter or other input files. Hence, if you really want to start WOMBAT by double-clicking on an icon, you should make sure that the window which is opened does not close automatically after the run finishes or aborts! A simple way to do this is to create a .bat file.
A number of worked examples, complete with output files and captured screen output, are provided; see chapter 9 for further details. These can be downloaded and installed in analogous manner to the program. This description is appropriate for Linux and Cygwin; for Windows adjust as appropriate, e.g. by replacing forward with backward slashes, etc.
Each subdirectory contains the input and output files for a run of WOMBAT, together with a records of the screen output in the file typescript. To test your installation,
N.B.: This should be a ‘parallel’ directory to sub-directories A,B,, i.e. Example/try not Example/A/try. Otherwise, you need to adjust the paths to the data and pedigree files in the parameter file for WOMBAT to be able to find them !
Repeat for at least one more example.
64-bit versions of WOMBAT have been compiled under Ubuntu 14.04 the Intel™ ifort (version 18.0.1) compiler together with the MKL library to provide highly optimised BLAS and LAPACK routines. Parallel execution is achieved by loading the multi-threaded version of this library together with OpenMP instructions.
32-bit versions are no longer maintained.
The Windows versions of WOMBAT have been ‘cross-compiled’ under Linux using the gfortan compiler (version 7.3) together with the OpenBLAS library. Only a 64-bit versions is supplied.
Previous versions compiled under Cygwin or MinGW are no longer maintained.
WOMBAT is set up to ‘expire’ after a certain date. Usually this is approximately 5–6 years after compilation (not download!) date. This feature aims at reducing the number of outdated copies being used, and any associated problems. WOMBAT will print out a warning message when used in the month preceding the expiry date. In addition, a run time option is available to query the program for this date.
If your copy of WOMBAT has expired – or you simply want to update to a newer version, please repeat the installation steps outlined above (section 3.1).