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Timed HMMer Search 1.2.1
pts/hmmer-1.2.1
- 13 November 2020 -
Add macOS support.
downloads.xml
<?xml version="1.0"?> <!--Phoronix Test Suite v10.0.1--> <PhoronixTestSuite> <Downloads> <Package> <URL>http://eddylab.org/software/hmmer/hmmer-3.3.1.tar.gz</URL> <MD5>07da6661a17bd4ddbaded4a0dc9c5b6d</MD5> <SHA256>8ce66a6930869534ad84bc7c9a5a566fd57188d6726c74c12fcd39c3c9c99bd5</SHA256> <FileName>hmmer-3.3.1.tar.gz</FileName> <FileSize>18622826</FileSize> </Package> <Package> <URL>http://www.phoronix-test-suite.com/benchmark-files/Pfam_ls.gz</URL> <MD5>bcc3ea17f61eb22dc0d4375f79e0ced5</MD5> <SHA256>8cee7f076530c743042e32fdbf32b816af4459f1ebf1cb39586928018c918c52</SHA256> <FileName>Pfam_ls.gz</FileName> <FileSize>83797216</FileSize> </Package> </Downloads> </PhoronixTestSuite>
install.sh
#!/bin/sh tar -zxvf hmmer-3.3.1.tar.gz cd hmmer-3.3.1/ ./configure --enable-threads make -j $NUM_CPU_CORES echo $? > ~/install-exit-status cd ~ gunzip Pfam_ls.gz -c > hmmer-3.3.1/tutorial/Pfam_ls cat>hmmer<<EOT #!/bin/sh cd hmmer-3.3.1/tutorial ../src/hmmsearch --cpu \$NUM_CPU_CORES Pfam_ls 7LESS_DROME echo \$? > ~/test-exit-status EOT chmod +x hmmer
results-definition.xml
<?xml version="1.0"?> <!--Phoronix Test Suite v10.0.1--> <PhoronixTestSuite> <SystemMonitor> <Sensor>sys.time</Sensor> </SystemMonitor> </PhoronixTestSuite>
test-definition.xml
<?xml version="1.0"?> <!--Phoronix Test Suite v10.0.1--> <PhoronixTestSuite> <TestInformation> <Title>Timed HMMer Search</Title> <AppVersion>3.3.1</AppVersion> <Description>This test searches through the Pfam database of profile hidden markov models. The search finds the domain structure of Drosophila Sevenless protein.</Description> <ResultScale>Seconds</ResultScale> <Proportion>LIB</Proportion> <SubTitle>Pfam Database Search</SubTitle> <TimesToRun>3</TimesToRun> </TestInformation> <TestProfile> <Version>1.2.1</Version> <SupportedPlatforms>Linux, Solaris, BSD, MacOSX</SupportedPlatforms> <SoftwareType>Scientific</SoftwareType> <TestType>Processor</TestType> <License>Free</License> <Status>Verified</Status> <ExternalDependencies>build-utilities</ExternalDependencies> <EnvironmentSize>719</EnvironmentSize> <ProjectURL>http://hmmer.org/</ProjectURL> <InternalTags>SMP</InternalTags> <Maintainer>Andrew Schofield</Maintainer> </TestProfile> </PhoronixTestSuite>