Gadget2

Description
	GADGET2 can be used to address a wide array of astrophysically interesting problems, ranging from colliding and merging galaxies, to the formation of large-scale structure in the Universe. With the inclusion of additional physical processes such as radiative cooling and heating, GADGET can also be used to study the dynamics of the gaseous intergalactic medium, or to address star formation and its regulation by feedback processes
Site	Version (Latest: v2.0.4)	Notes
ngs.rl.ac.uk	2.0.3

License

The following license conditions are copied from the License page of the Gadget2 web site. Please refer back there for the latest license conditions.

"GADGET is free software, distributed under the GNU General Public License. This implies that you may freely distribute and copy the software. You may also modify it as you wish, and distribute these modified versions as long as you indicate prominently any changes you made in the original code, and as long as you leave the copyright notices, and the no-warranty notice intact. Please read the General Public License for more details. Note that the authors retain their copyright on the code."

If you use GADGET-2 for scientific work, you should reference the code's papers (see Gadget web page).

In addition users of this application should credit the NGS accordingly and where applicable the specific site where the code is installed, when publishing work using NGS resources.

Running the Application on the NGS

Gadget may be run on any NGS node via the Globus commands documented below or from the NGS web Portal. On ngs.rl.ac.uk it may be submitted directly to the local batch system as well. This is also documented below.

Gadget has many compilation time options. On the NGS we have attempted to provide a range binaries that may be used with common options, as described below. If you need a different set of compile options please either contact the NGS helpdesk, or use the Makefile stored at

gsiftp://ngs.rl.ac.uk:2811/apps/Gadget2/2.0.3/Makefile

as a template for your own compilations of Gadget and loading the required library modules

module load hdf5/gnu gsl/gcc fftw/gcc/mpi-2.1.5

to add the shared libraries to your LD_LIBRARY_PATH.

OPT   +=  -DPERIODIC
OPT   +=  -DUNEQUALSOFTENINGS
OPT   +=  -DPMGRID=128
OPT   +=  -DHAVE_HDF5
#OPT   +=  -DDOUBLEPRECISION      
#OPT   +=  -DDOUBLEPRECISION_FFTW 

#OPT   +=  -DPERIODIC
OPT   +=  -DUNEQUALSOFTENINGS
OPT   +=  -DPMGRID=128
OPT   +=  -DHAVE_HDF5
#OPT   +=  -DDOUBLEPRECISION      
#OPT   +=  -DDOUBLEPRECISION_FFTW 

#OPT   +=  -DPERIODIC
OPT   +=  -DUNEQUALSOFTENINGS
#OPT   +=  -DPMGRID=128
OPT   +=  -DHAVE_HDF5
#OPT   +=  -DDOUBLEPRECISION      
#OPT   +=  -DDOUBLEPRECISION_FFTW 

#OPT   +=  -DPERIODIC
#OPT   +=  -DUNEQUALSOFTENINGS
#OPT   +=  -DPMGRID=128
OPT   +=  -DHAVE_HDF5
#OPT   +=  -DDOUBLEPRECISION      
#OPT   +=  -DDOUBLEPRECISION_FFTW 

OPT   +=  -DPERIODIC
#OPT   +=  -DUNEQUALSOFTENINGS
OPT   +=  -DPMGRID=128
OPT   +=  -DHAVE_HDF5
#OPT   +=  -DDOUBLEPRECISION      
#OPT   +=  -DDOUBLEPRECISION_FFTW 

• Submission Using the UI/WMS

Comming soon...

• NGS Web Portal Submission

  After logging in to the NGS portal, select the "Gadget" template under the "Astrophysics" category and make the amendments appropriate for your specific job. Read the description page of the template for further details.

• Submission Using Globus

  To submit a Gadget simulation using Globus, for example on ngs.rl.ac.uk, use the following command (one line excluding the backslashes) for a parallel job:

  globusrun -b -r ngs.rl.ac.uk/jobmanager-lsf \
  '&(executable=/usr/ngs/GADGET)(jobtype=mpi)(count=16) \
  (directory=/home/ngsXXXX/galaxy) \
  (arguments= Gadget2.galaxy galaxy.param) \
  (stdout=/home/ngsXXXX/galaxy/galaxy.stdout) \
  (stderr==/home/ngsXXXX/galaxy/galaxy.stderr)'

   

where you modify the galaxy.param according to your parameter file name and substitute your run directory (Eg replacing /home/ngsXXXX/galaxy by your home and run directory). Note that the galaxy.param file contains parameters: InitCondFile ,OutputDir ,OutputListFilename which should be set to the local directory (or ICs can be referenced or copied from the install at /apps/Gadget2/2.0.3/ICs on ngs.rl.ac.uk for example).

Note that the binary name appears in the "arguments" section of the above string. The "executable" value of /usr/ngs/GADGET should remain the same regardless of which Gadget binary name (chosen from the table above) you choose in the "arguments". The Gadget2 restart argument can be placed in the arguments section as well if required.

Compilation Information

• ngs.rl.ac.uk
  • GNU gcc compiler 3.4.6 20060404
  • ScaliMPI MPI Library
  • GNU Scientific Library 1.11
  • FFTW 2.1.5 mpi option
  • HDF5 1.6.6 Library

Further Information

• Gadget2 Web site
• User documentation
• Join the Gadget 2 mailing list by sending an email to minimalist@mpa-garching.mpg.de with the subject of "subscribe gadget-list"
• Gadget is supplied with some IDL examples for analysis of the output files. The NGS provides access to IDL on ngs.rl.ac.uk (only), see here. The IDL examples are in the:
  

  gsiftp://ngs.rl.ac.uk:2811/apps/Gadget2/2.0.3/Analysis