Systems News

There will be a clean-up and removal of some of Copper's Programming Environments (PE) and their associated modules on 04 March. In their place, the December 2015 programming environment will be installed, which will include newer versions of the compilers and libraries.

The current default modules will not be changed.

The modules and their associated libraries that will be removed:

Module DescriptionModule NameModule Version
Cray compiling CCE 8.1.9, 8.2.5, 8.3.2
Cray Debuggers atp 1.6.3, 1.7.4
ccdb 1.0.2, 1.0.3
lgdb 2.1.0, 2.2.4
stat 2.0.0.1
Cray ENV craype
MPICH cray-mpich shmem 5.6.5, 6.0.0, 6.2.1, 6.3.0, 7.0.2
MPICH-Compat 1.0.0(new)
PMI
Global arrays ga
Cray Perfomance Perftools 6.1.1, 6.1.4, 6.2.0
PAPI 5.1.1, 5.3.0, 5.3.1
Cray SciLibs acml 5.3.0
fftw2 2.1.5.5, 2.1.5.6, 2.1.5.7
fftw3 3.3.0.3, 3.3.0.4, 3.3.4.0
petsc 3.3.06, 3.4.3.1, 3.4.4.0
trilinos 11.2.2.0, 11.6.1.0, 11.8.1.0
Cray LibSci libsci 11.1.01, 12.1.00, 12.2.0, 13.0.0
tpsl 1.4.0, 1.4.1
Allinea ddt 4.0.0.0, 4.2.0.1, 4.2.1.2
Totalview 8.12.0, 8.13.0, 8.13.0
Totalview support 1.1.4, 1.2.0.1, 1.2.0.1
PGI 13.6.0
FLEX Flexnet LM
cray-hdf5 1.8.12
cray-netcdf 4.3.1
parallel netcdf p-netcdf 1.3.1.1, 1.4.0, 1.4.1
java 1.7.0_07, 1.7.0_45, 1.7.0_45
OneSided ntk
cray-gcc 4.8.0, 4.9.0
Intel (non-cray) 12.1.5.339, 13.1.2.183

The modules and their associated libraries that will be installed from Dec 2015 PE:

Module DescriptionModule NameModule Version
Cray compiling CCE 8.4.2
Cray Debuggers atp 1.8.3
ccdb 1.0.7
lgdb 2.4.5
stat 2.2.0.1
Cray ENV craype 2.5.0
MPICH cray-mpich shmem 7.3.0
MPICH-Compat 1.0.0.8
PMI 5.0.10
Global arrays ga 5.3.0.4
Cray Perfomance Perftools 6.3.1
PAPI 5.4.1.3
Cray SciLibs acml 5.3.1
fftw2 2.1.5.9
fftw3 3.3.4.6
petsc 3.6.1.0
trilinos 11.12.1.5
Cray LibSci libsci 13.3.0 acc-3.3.0
tpsl 1.5.2
Allinea ddt
Totalview 8.15.10
Totalview support
PGI 15.10
FLEX Flexnet LM 11.13.1.1
cray-hdf5 1.8.14
cray-netcdf 4.3.3.1
parallel netcdf p-netcdf 1.6.1
java 1.8.0_51
OneSided ntk 1.5.0
cray-gcc 4.9.3 (no-GA)
Intel (non-cray) 15.0.1.133 16.0.0.109

There will be a clean-up and removal of some of Garnet's Programming Environments (PE) and their associated modules on 03 March. In their place, the December 2015 programming environment will be installed, which will include newer versions of the compilers and libraries.

The current default modules will not be changed.

The modules and their associated libraries that will be removed:

Module DescriptionModule NameModule Version
Cray compiling CCE 8.1.9, 8.2.5, 8.3.2
Cray Debuggers atp 1.6.3, 1.7.4
ccdb 1.0.2, 1.0.3
lgdb 2.1.0, 2.2.4
stat 2.0.0.1
Cray ENV craype
MPICH cray-mpich shmem 5.6.5, 6.0.0, 6.2.1, 6.3.0, 7.0.2
MPICH-Compat 1.0.0(new)
PMI
Global arrays ga
Cray Perfomance Perftools 6.1.1, 6.1.4, 6.2.0
PAPI 5.1.1, 5.3.0, 5.3.1
Cray SciLibs acml 5.3.0
fftw2 2.1.5.5, 2.1.5.6, 2.1.5.7
fftw3 3.3.0.3, 3.3.0.4, 3.3.4.0
petsc 3.3.06, 3.4.3.1, 3.4.4.0
trilinos 11.2.2.0, 11.6.1.0, 11.8.1.0
Cray LibSci libsci 11.1.01, 12.1.00, 12.2.0, 13.0.0
tpsl 1.4.0, 1.4.1
Allinea ddt 4.0.0.0, 4.2.0.1, 4.2.1.2
Totalview 8.12.0, 8.13.0, 8.13.0
Totalview support 1.1.4, 1.2.0.1, 1.2.0.1
PGI 13.6.0
FLEX Flexnet LM
cray-hdf5 1.8.12
cray-netcdf 4.3.1
parallel netcdf p-netcdf 1.3.1.1, 1.4.0, 1.4.1
java 1.7.0_07, 1.7.0_45, 1.7.0_45
OneSided ntk
cray-gcc 4.8.0, 4.9.0
Intel (non-cray) 12.1.5.339, 13.1.2.183

The modules and their associated libraries that will be installed from Dec 2015 PE:

Module DescriptionModule NameModule Version
Cray compiling CCE 8.4.2
Cray Debuggers atp 1.8.3
ccdb 1.0.7
lgdb 2.4.5
stat 2.2.0.1
Cray ENV craype 2.5.0
MPICH cray-mpich shmem 7.3.0
MPICH-Compat 1.0.0.8
PMI 5.0.10
Global arrays ga 5.3.0.4
Cray Perfomance Perftools 6.3.1
PAPI 5.4.1.3
Cray SciLibs acml 5.3.1
fftw2 2.1.5.9
fftw3 3.3.4.6
petsc 3.6.1.0
trilinos 11.12.1.5
Cray LibSci libsci 13.3.0 acc-3.3.0
tpsl 1.5.2
Allinea ddt
Totalview 8.15.10
Totalview support
PGI 15.10
FLEX Flexnet LM 11.13.1.1
cray-hdf5 1.8.14
cray-netcdf 4.3.3.1
parallel netcdf p-netcdf 1.6.1
java 1.8.0_51
OneSided ntk 1.5.0
cray-gcc 4.9.3 (no-GA)
Intel (non-cray) 15.0.1.133 16.0.0.109

The HPC Portal is now available on the HPCMP ERDC DSRC TOPAZ supercomputer, joining GARNET. For convenience, all users of TOPAZ have been enabled for access via the HPC Portal at https://portal.hpc.mil without any additional requirements. The HPC Portal enables supercomputing and visualization capability from a web browser, and requires no user-installed software on the local workstation.

What capabilities does the HPC Portal provide?

The HPC Portal enables access to supercomputing with a web browser. No software installation is required to use the HPC Portal, only a browser with CAC or YubiKey authentication, which enables access from desktops which do not permit user-installed software. The HPC Portal provides a full-featured File Manager, a quick webshell, ParaViewWeb, "Distributed" Matlab, a complete X-terminal, GNOME Desktop, Carpenter, Ensight, ParaView, Tecplot, FieldView, Pointwise/Gridgen, VisIT, Blacksmith, Ligase, Totalview, ANSYS, Fluent, GAMBIT, Workbench, Abaqus, STAR-CCM+, DDT, CFD++, LS-PrePost, CUBIT, GASP, "Distributed" Matlab, a job status dashboard, and, for approved users, the HPCMP CREATE(TM) analysis codes Kestrel, Helios, SENTRi, Capstone, and DaVinci, as well as the MATLAB IDE, among other applications.

How do I access the HPC Portal?

Browse to the site https://portal.hpc.mil where you'll be able to select authenticate to any DSRC where you have an allocation. At this site, you will authenticated via the HPCMP OpenID capability using your CAC or Yubikey. No downloaded software or Kerberos kit is required.

How do I get help?

Contact the HPC Help Desk at help@helpdesk.hpc.mil. The HPC Portal also provides a FAQ, tutorials, videos, and a community forum.

Where can I read more about the HPC Portal (including Browser Compatibility)?

The HPC Portal uses HTML5 and WebGL technology, available in the newest generation of browsers, to allow interactive visualization of large science and engineering datasets, Users with older browsers may also use the portal with some limitations on performance. Read more about the development of the HPC Portal at http://www.mhpcc.hpc.mil/portal.

What if I want to suggest a feature or develop an application for the HPC Portal?

The HPC Portal Team is interested in your thoughts and feedback, including any suggestions for new applications. The HPC Portal team has created a Developer's Guide for those interested in adding applications to the Portal. For more information, check the Support Forum at the HPC Portal.


HPC Portal Development Team

Topaz will being running a daily purge of the work file systems beginning January 26th. Files in the work file systems that have not been accessed in 30 days are subject to the purge cycle. If available space becomes critically low, a manual purge may be run, and all files in the work file systems are eligible for deletion. Using the touch command (or similar commands) to prevent files from being purged is prohibited. Users are expected to keep up with file archival and removal within the normal purge cycles.

If you have any questions/comments, please direct them to the HPC Help Desk at 1-877-222-2039 or e-mail at help@helpdesk.hpc.mil.

During the 19-23 October Scheduled Time Out (STO) for Copper, we will change the default programming environment modules to Cray's December 2014 release.

PLEASE NOTE: In order to ensure that applications are using the updated OS library, network library, and compilers we are advising users to recompile and relink their application codes after the upgrade. Applications compiled with a mixture of objects or libraries from the new default programming environment and the older December 2014 programming environment will probably fail to execute or may fail in unexpected ways.

To facilitate testing of the new programming environment, we have created an environment module called PrgEnv-test that is located with the other PrgEnv modules. To change your programming environment to the December 2014 configuration, simply load that module:

% module load PrgEnv-test

Do not unload your existing PrgEnv module or "module swap" to PrgEnv-test. Loading the PrgEnv-test module will switch all of your currently loaded compilers, scientific libraries, and profiling tools to the December 2014 versions. Once PrgEnv-test has been loaded, you may compile your applications as usual. If you have any problems during your testing of the December 2014 programming environment, please submit a ticket to the HPC Help Desk.

MODULE DETAILS: PrgEnv-test module performs one of the following compiler switches, depending on the compiler you have currently loaded:

module swap cce cce/8.3.6
module swap gcc gcc/4.9.2
module swap intel intel/14.0.2.144
module swap pgi pgi/14.2.0

To match the changes that will be made by the December 2014 PrgEnv modules, the following module commands are also done by PrgEnv-test:

module swap atp atp/1.7.5
module swap xt-asyncpe xt-asyncpe/5.28
module swap cray-mpich cray-mpich/7.1.0
module swap cray-libsci cray-libsci/13.0.1
module load cray-mpich-compat/v7

Additionally, PrgEnv-test includes switches of library modules that we have determined to be necessary for compatibility with the December 2014 environment. These are only performed by PrgEnv-test if it detects that the loaded module needs to be switched. Module loads performed after loading PrgEnv-test should use these new versions for compatibility:

module swap cray-hdf5 cray-hdf5/1.8.13
module swap cray-netcdf cray-netcdf/4.3.2
module swap papi papi/5.3.2.1
module swap fftw/2.1.5.6 fftw/2.1.5.7
module swap fftw/3.3.x fftw/3.3.4.1

If you have any questions or comments please contact the HPC Help Desk: 1-877-222-2039 or help@helpdesk.hpc.mil.