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Difference between revisions of "HPE Hawk"

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== TODO ==
 
== TODO ==
  
 +
* 2019-08-22, niethammer@hlrs.de: missing pbs headers (tm.h, ...)
 
* 2019-08-18, dick@hlrs.de: (exuberant) ctags missing on frontend, probably available from RHEL repository
 
* 2019-08-18, dick@hlrs.de: (exuberant) ctags missing on frontend, probably available from RHEL repository
 
* 2019-08-18, dick@hlrs.de: manpages are missing on the frontend
 
* 2019-08-18, dick@hlrs.de: manpages are missing on the frontend
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== Training ==
 
== Training ==

Revision as of 02:31, 23 August 2019

Hawk is the next generation HPC system at HLRS. It will replace the existing HazelHen system. The installation is planed to take place in Q4 2019. For more detailed information see the Hawk installation schedule.

This Page is under construction!


Topics for Software Installation Meeting

  • hands-on sit (software installation tool)
  • template for modulefiles; see #Modulefile best practices
  • hierarchy of modulefiles #Hierarchy of modules
  • default compiler / MPI / others
  • how to deal with software from base linux which should not be visible on cluster, i.e. system compiler (gcc 4.8.5)
  • how to inform users about software updates in the future

Access

Login-Node: hawk-tds-login2.hww.hlrs.de

Note: Access to the Hawk TDS is limited to support staff at the moment. Please check the Hawk installation schedule for details about the start of user access.


Batch System

Batch System PBSPro (Hawk)


MPI

In order to use the MPI implementation provided by HPE, please load the Message Passing Toolkit (MPT) module mpt (not ABI-compatible to other MPI implementations) or hmpt (ABI-compatible to MPICH-derivatives). For detailed information see the HPE Message Passing Interface (MPI) User Guide.


Modulefile best practices

  • Set an environment variable to the root path of your installation (cf. e.g. MPI_ROOT in /usr/share/Modules/modulefiles/hmpt/2.19).
  • Set not only CPATH but also respective variables used by PGI / Intel / etc. -> someone has to figure out the list of those variables, same w.r.t. (LD_)LiBRARY_PATH.
  • Include your Name (finger does not work anymore), E-Mail and date of installation into the modulefile.
  • It's possible to hold the modulefile(s) together with the actual installation in the respective directory and just create symlinks in /opt/hlrs/modulefiles/.
  • Directory structure of /opt/hlrs/ shall be replicated in /opt/hlrs/unsupported-modulefiles/.
  • In case of dependencies, load explicit versions instead of default one!

As an example a modulefile for package "foo" version 1.23 (within the category "performance") should look like:

#%Module1.0
#
# Change log:
#   Updated   12 Jul 2019, Christoph Niethammer <niethammer@hlrs.de>
#   Installed 08 Aug 2018, Jose Gracia <gracia@hlrs.de>

BASE_DIR=/opt/hlrs/
CAT=performance
PACKAGE=Foo
VERSION=1.23

FOO_ROOT=$BASE_DIR/$CAT/$PACKAGE/$VERSION

setenv FOO_ROOT $FOO_ROOT
setenv FOO_VERSION $VERSION

prepend-path PATH                $FOO_ROOT/bin
prepend-path LD_LIBRARY_PATH     $FOO_ROOT/lib        # library search path at time of execution (i.e. in case of _dynamic_ linking)
prepend-path LIBRARY_PATH        $FOO_ROOT/lib        # equivalent of "-L" for C, C++, and Fortran
prepend-path CPATH               $FOO_ROOT/include    # equivalent to "-I" for C, C++ and Fortran
prepend-path CPLUS_INCLUDE_PATH  $FOO_ROOT/include    # equivalent to "-I" only for C++ compiler; usually not needed as CPATH will do
prepend-path C_INCLUDE_PATH      $FOO_ROOT/include    # equivalent to "-I" only for C compiler; usually not needed as CPATH will do
prepend-path MANPATH             $FOO_ROOT/share/man  # manpages

Hierarchy of modules

On Vulcan and Hazel Hen we have various module directories like tools, utils, misc. However, it is not very clear what should go here; at the end anything is a tool. I would therefore propose to be more specific.

Proposal for module hierarchy (please extend)

development/    # development tools
    # svn, git, binutils, cmake 

mpi/             # nobody will suspect MPI under mpt/ 
    # mpt, hmpt, ....

compiler/
    # gcc, oacc, intel, pgi, ...

numlib/         # numerical libraries
    # mkl, trillinos, ...

debugger/       # debugging tools
    # forge, ...

performance/    # performance analysis tools
    # vampir, extrae, scalasca, inspector, advisor, darshan, ...

visualization/  # data visualization tools
    # paraview, ...

python/
    # 3.X; do we need/want 2.7?

What to do with libraries which are not necessarily "numlib", e.g.

boost/ -> libraries/boost
hdf5/  -> libraries/hdf5

Libraries which are actually some kind of programming model:

gpi2    -> libraries/gpi2
tbb     -> libraries/tbb

What to do with software for projects? Such as

tools/hidalgo/fenics_hpc/3dairq
prace/prace

Put them in directories which are readable only for a certain group?

Test cases best practices

Test cases will help to identify and determine the scaling/ performance behavior of the new system. Ideally, those test cases can be compared to other systems as well to get a full picture.

To do:

  • Definition of a best practice guideline on how to set up a correct test case
    • Only measurement of time-stepping loop or equivalent excluding the initialization phase or cleanup
    • Well defined measure of computational progress (e.g. LUPS, DoF-UPS, Iterations/s or Flop/s)
    • Ideally, the test case is mostly automated with scripts and does also the evaluation on top with a meaningful result file


TODO

  • 2019-08-22, niethammer@hlrs.de: missing pbs headers (tm.h, ...)
  • 2019-08-18, dick@hlrs.de: (exuberant) ctags missing on frontend, probably available from RHEL repository
  • 2019-08-18, dick@hlrs.de: manpages are missing on the frontend
  • 2019-08-15, niethammer@hlrs.de: need more explanation on how omplace works for pinning in the context of SMT (numbering of cores?)
  • 2019-08-15, niethammer@hlrs.de: how to run correctly scripts/wrappers with mpirun? (executes script only once per node, but MPI application if called inside multiple times)
  • 2019-08-15, niethammer@hlrs.de: missing commands:
    • resize (likely coming with xterm)
  • 2019-08-15, niethammer@hlrs.de:
    • MPT = Message Passing Toolkit
    • MPI from the mpt module uses the SGI ABI, MPI from the hmpt module uses the MPICH ABI
    • for the MPI compiler wrappers to detect the correct compiler please set MPICC_CC, MPICXX_CXX, MPIF90_F90, MPIF08_F08 to the corresponding compiler commands (2019-08-15, dick@hlrs.de: done)
    • Should e.g. applications using cae/platform_mpi use perfboost?
  • 2019-08-07, dick@hlrs: hmpt is ABI-compatible with MPICH-derivativs, but not so mpt
    • user should know about this!
    • @HPE: is hmpt a MPICH-derivative, but not so mpt?
  • 2019-08-07, dick@hlrs: unclear that (h)mpt provides MPI lib -> call it "mpi/hmpt" and "mpi/mpt" instead?
  • 2019-08-07, dick@hlrs: remove MPI delivered with RHEL
  • 2019-08-07, dick@hlrs: Intel loads gcc module -> use (LD_)LIBRARY_PATH intead
  • 2019-08-07, dick@hlrs: be careful: cc points to /usr/bin/gcc!
  • 2019-08-14, khabi/offenhaeuser@hlrs.de: How to pin OpenMP-threads in hybrid jobs (naive approach pins 2 threads to _same_ core instead of two different), i.e.: how to do aprun -d?


Training

There will be internal (i.e. HLRS staff only) trainings on the following topics (tentative):

  • HPE Performance MPI
    • survey to set date
    • topics available via the above link
    • target audience: user support staff, internal users of the system
  • Processor
    • survey to set date
    • (tentative) schedule available via the above link
    • target audience: user support staff, internal users of the system
  • Workload Management PBSpro for end users
    • survey coming soon
    • target audience: user support staff, internal users of the system
  • Cluster and System Administration using HPCM
    • target audience: admin staff
  • Infiniband-Administration and Tuning
    • target audience: admin staff
  • Lustre and Storage Administration
    • target audience: admin staff
  • Workload Management PBSpro Administration and Tuning
    • target audience: admin staff