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Timed 16 wrapped Structure runs 1.0.1
stunts/structure_threader-structure-1.0.1
- 16 September 2015 -
Minor fix in option names.
downloads.xml
<?xml version="1.0"?> <!--Phoronix Test Suite v5.8.0 (Belev)--> <PhoronixTestSuite> <Downloads> <Package> <URL>https://github.com/StuntsPT/Structure_threader/archive/v0.1-rc3.tar.gz</URL> <MD5>ca5c134d8fc24760fd47d730adfde892</MD5> <FileSize>235897</FileSize> </Package> <Package> <URL>http://pritchardlab.stanford.edu/structure_software/release_versions/v2.3.4/structure_kernel_source.tar.gz</URL> <MD5>4e0591678cdbfe79347d272b5dceeda1</MD5> <FileSize>66375</FileSize> </Package> <Package> <URL>https://raw.githubusercontent.com/StuntsPT/Structure_threader/master/PTS/data/Reduced_dataset.structure</URL> <MD5>1665111727e05d4ba3eea253a986c374</MD5> <FileSize>5317</FileSize> </Package> <Package> <URL>https://raw.githubusercontent.com/StuntsPT/Structure_threader/master/PTS/data/mainparams</URL> <MD5>4e41f743c66c3dcd926463a831ab1cda</MD5> <FileSize>2596</FileSize> </Package> <Package> <URL>https://raw.githubusercontent.com/StuntsPT/Structure_threader/master/PTS/data/extraparams</URL> <MD5>c4f5fe55b6a496b8c55a0538fcc173d7</MD5> <FileSize>6257</FileSize> </Package> </Downloads> </PhoronixTestSuite>
install.sh
#!/bin/sh # Define test dir testdir=`pwd` # Create env dir for dependent libraries mkdir -p ${testdir}/env # Install dependencies # Structure cd ${testdir} tar -zxvf structure_kernel_source.tar.gz cd structure_kernel_src make # Install Structure_threder # Structure_threader cd ${testdir} tar xfvz v0.1-rc3.tar.gz # Create launcher script echo "#!/bin/bash workdir=`pwd` cd Structure_threader-0.1-rc3/ python3 structure_threader.py \$@ -st \${workdir}/structure_kernel_src/structure > \$LOG_FILE 2>&1 " > structure_threader-structure chmod +x structure_threader-structure
results-definition.xml
<?xml version="1.0"?> <!--Phoronix Test Suite v5.8.0 (Belev)--> <PhoronixTestSuite> <SystemMonitor> <Sensor>sys.time</Sensor> </SystemMonitor> </PhoronixTestSuite>
test-definition.xml
<?xml version="1.0"?> <!--Phoronix Test Suite v5.8.0 (Belev)--> <PhoronixTestSuite> <TestInformation> <Title>Timed 16 wrapped Structure runs</Title> <AppVersion>0.1-rc3</AppVersion> <Description>Bayesian calculation of population attribution, using the "Structure" algorithm. Calculates clusterings for 4 different values of "K" with 4 replciates for each "K".</Description> <ResultScale>Seconds</ResultScale> <Proportion>LIB</Proportion> <SubTitle>Cork Oak clustering</SubTitle> <TimesToRun>3</TimesToRun> </TestInformation> <TestProfile> <Version>1.0.1</Version> <SupportedPlatforms>Linux, Solaris, MacOSX, BSD</SupportedPlatforms> <SoftwareType>Scientific</SoftwareType> <TestType>Processor</TestType> <License>Free</License> <Status>Verified</Status> <ExternalDependencies>build-utils, python</ExternalDependencies> <EnvironmentSize>2</EnvironmentSize> <ProjectURL>http://github.com/StuntsPT/Structure_threader</ProjectURL> <Maintainer>Francisco Pina-Martins</Maintainer> </TestProfile> <TestSettings> <Default> <Arguments>-i ../Reduced_dataset.structure -o ../ -K 4 -R 4 --no-plots 1 --no-tests 1</Arguments> </Default> <Option> <DisplayName>Number of threads to use</DisplayName> <Identifier>Number_of_threads</Identifier> <ArgumentPrefix>-t </ArgumentPrefix> <DefaultEntry>0</DefaultEntry> <Menu> <Entry> <Name>1 thread</Name> <Value>1</Value> </Entry> <Entry> <Name>2 threads</Name> <Value>2</Value> </Entry> <Entry> <Name>4 threads</Name> <Value>4</Value> </Entry> <Entry> <Name>6 threads</Name> <Value>6</Value> </Entry> <Entry> <Name>8 threads</Name> <Value>8</Value> </Entry> <Entry> <Name>10 threads</Name> <Value>10</Value> </Entry> <Entry> <Name>12 threads</Name> <Value>12</Value> </Entry> <Entry> <Name>14 threads</Name> <Value>14</Value> </Entry> <Entry> <Name>16 threads</Name> <Value>16</Value> </Entry> </Menu> </Option> </TestSettings> </PhoronixTestSuite>