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--- system_overview [2016/01/20 21:56]
Editor [Software]
+++ system_overview [2024/07/30 18:44] (current)
Editor [2 Racks of compute hardware]
@@ Line 1: / Line 1: @@
-====== Installed Ranger Specifications ======
+====== Installed Stampede Specifications ======
-===== 2 Racks of compute hardware =====
+===== 1 Rack of compute hardware =====
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-Each Rack containing 48 blades, divided into 4 shelves.
+The Rack containing 40 Compute Nodes, divided into 4 shelves.
-Each Blade consists:
+Each Compute Node consists:
  <ul><li> 4 Quad-core CPUs (total 1,536 cores)</li>
      <li>16, 2GB DIMMs </li>
@@ Line 16: / Line 16: @@
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@@ Line 22: / Line 23: @@
 ===== File System =====
-ZAMREN users NFS to serve two directories, HOME and SCRATCH . The HOME directory has a 2.5 GB quota and
+ZAMREN uses NFS to serve two directories, HOME and SCRATCH . The HOME directory has a 2.5 GB quota and
-is  backed up. SCRATCH is not for temporal storage and is purged periodically and hence not backed up.
+is  backed up. SCRATCH is for temporal storage and is purged periodically and hence not backed up.
 It has a 5TB quota.
@@ Line 34: / Line 35: @@
 ==== Scratch ====
-It is a link in a users home directory in the format /home/xxxxxxxx/scratch/ where xxxxxxxx is the username. The directory is meant for storing temporary files and is accessible from compute nodes. Execution of jobs should be done from here.
+The directory is meant for storing temporary files and is accessible from compute nodes. Execution of jobs should be done from here.
-Please noted that files are not backup up in this directory and can be purged at anytime. No recovery services will be available for files once purged. Users are urged to be saving their files in their home directories.
+Please note that files are not backup up in this directory and can be purged at anytime. No recovery services will be available for files once purged. Users are urged to be saving their files in their home directories.
 ====Software ====
-The following packges are currently installed and supported on the cluster. Users can compile and install their own applications, however, these are not supported.
+ZAMREN provides a range of third party and open source software for general use. The following packages are currently installed and supported on the cluster. Users can compile and install their own applications, however, these are not supported.
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 <table>
 <tr><td>Package Name</td><td>Brief Description</td><td>Field of Study</td><td>Link to Guides</td></tr>
-<tr><td>GADGET</td><td></td><td></td><td></td></tr>
+<tr><td>GADGET</td><td> GAlaxies with Dark matter and GasintEracT -  A code for collisionless and
-<tr><td>GROMACS</td><td></td><td></td><td></td></tr>
+gasdynamical cosmological simulations
-<tr><td>NAMD</td><td></td><td></td><td></td></tr>
+  </td><td>Astrophysics</td><td>http://astro.phy.vanderbilt.edu/~sinham/tutorials.html</td></tr>
-<tr><td>QUANTUM EXPRESSO</td><td></td><td></td><td></td></tr>
+<tr><td>GROMACS</td><td> GROningen MAchine for Chemical Simulations is used for simulation of Newtonian equations of motion for systems with hundreds to millions of particles. Designed for biochemical molecules like proteins, lipids and nucleic acids that have a lot of complicated bonded interactions</td><td>Molecular Dynamics</td><td>http://www.gromacs.org/</td></tr>
+<tr><td>NAMD</td><td>NAMD is a parallel, object-oriented molecular dynamics code designed for high-performance simulation of large biomolecular systems</td><td>Molecular Dynamics</td><td>http://www.ks.uiuc.edu/Research/namd/</td></tr>
+<tr><td>QUANTUM EXPRESSO</td><td>An integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials</td><td></td><td></td></tr>
 </table>
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+To see the list of available software on a cluster, please use the Modules command. The resulting output lists the name of the software and version number:

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