GROMACS 1.0.0

system/gromacs-1.0.0 - 02 August 2024 - Add system/gromacs version of pts/gromacs.

downloads.xml

<?xml version="1.0"?>
<!--Phoronix Test Suite v10.8.5-->
<PhoronixTestSuite>
  <Downloads>
    <Package>
      <URL>http://ftp.gromacs.org/pub/benchmarks/water_GMX50_bare.tar.gz</URL>
      <MD5>d843376d598299d6a209dae063157dc5</MD5>
      <SHA256>2219c10acb97787f80f6638132bad3ff2ca1e68600eef1bc8b89d9560e74c66a</SHA256>
      <FileName>water_GMX50_bare.tar.gz</FileName>
      <FileSize>138438061</FileSize>
    </Package>
  </Downloads>
</PhoronixTestSuite>

install.sh

#!/bin/sh
if which gmx_mpi >/dev/null 2>&1 ;
then
	echo 0 > ~/install-exit-status
else
	echo "ERROR: GROMACS gmx_mpi is not found on the system! This test profile needs a working gmx_mpi binary in the PATH."
	echo 2 > ~/install-exit-status
fi
tar -xf water_GMX50_bare.tar.gz
echo "#!/bin/sh
mpirun --allow-run-as-root -np \$NUM_CPU_PHYSICAL_CORES gmx_mpi grompp -f pme.mdp  -o bench.tpr
mpirun --allow-run-as-root -np \$NUM_CPU_PHYSICAL_CORES gmx_mpi mdrun -resethway -npme 0 -notunepme -noconfout -nsteps 1000 -v -s  bench.tpr" >  run-gromacs
chmod +x run-gromacs
echo "#!/bin/sh
unset OMP_NUM_THREADS
cd \$1
rm -f *bench.tpr*
\$HOME/run-gromacs > \$LOG_FILE 2>&1
echo \$? > ~/test-exit-status
gmx_mpi --version | grep GROMACS | grep version > ~/pts-footnote > ~/pts-footnote" > gromacs
chmod +x gromacs

results-definition.xml

<?xml version="1.0"?>
<!--Phoronix Test Suite v10.8.5-->
<PhoronixTestSuite>
  <ResultsParser>
    <OutputTemplate>Performance:        #_RESULT_#        3.682</OutputTemplate>
    <LineHint>Performance:</LineHint>
  </ResultsParser>
</PhoronixTestSuite>

test-definition.xml

<?xml version="1.0"?>
<!--Phoronix Test Suite v10.8.5-->
<PhoronixTestSuite>
  <TestInformation>
    <Title>GROMACS</Title>
    <Description>The GROMACS (GROningen MAchine for Chemical Simulations) molecular dynamics package testing with the water_GMX50 data. This system/gromacs test profile relies on the OS provided GROMACS (gmx_mpi) package as opposed to the existing pts/gromacs test profile that builds the same version from the upstream source code.</Description>
    <ResultScale>Ns Per Day</ResultScale>
    <Proportion>HIB</Proportion>
    <SubTitle>Water Benchmark</SubTitle>
    <TimesToRun>3</TimesToRun>
  </TestInformation>
  <TestProfile>
    <Version>1.0.0</Version>
    <SupportedPlatforms>Linux, BSD, MacOSX</SupportedPlatforms>
    <SoftwareType>Benchmark</SoftwareType>
    <TestType>System</TestType>
    <License>Free</License>
    <Status>Verified</Status>
    <ExternalDependencies>openmpi-development</ExternalDependencies>
    <EnvironmentSize>1100</EnvironmentSize>
    <ProjectURL>https://www.gromacs.org/</ProjectURL>
    <RepositoryURL>https://github.com/gromacs/gromacs</RepositoryURL>
    <InternalTags>SMP, MPI</InternalTags>
    <Maintainer>Michael Larabel</Maintainer>
    <SystemDependencies>gmx_mpi</SystemDependencies>
  </TestProfile>
  <TestSettings>
    <Option>
      <DisplayName>Input</DisplayName>
      <Identifier>input</Identifier>
      <Menu>
        <Entry>
          <Name>water_GMX50_bare</Name>
          <Value>water-cut1.0_GMX50_bare/1536</Value>
        </Entry>
      </Menu>
    </Option>
  </TestSettings>
</PhoronixTestSuite>