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# ===========================================================================
#
# PUBLIC DOMAIN NOTICE
# National Center for Biotechnology Information
#
# This software/database is a "United States Government Work" under the
# terms of the United States Copyright Act. It was written as part of
# the author's official duties as a United States Government employee and
# thus cannot be copyrighted. This software/database is freely available
# to the public for use. The National Library of Medicine and the U.S.
# Government have not placed any restriction on its use or reproduction.
#
# Although all reasonable efforts have been taken to ensure the accuracy
# and reliability of the software and data, the NLM and the U.S.
# Government do not and cannot warrant the performance or results that
# may be obtained by using this software or data. The NLM and the U.S.
# Government disclaim all warranties, express or implied, including
# warranties of performance, merchantability or fitness for any particular
# purpose.
#
# Please cite the author in any work or product based on this material.
#
# ===========================================================================
if( Python3_EXECUTABLE )
set( SOURCES
AlignTest.py
AlignSliceTest.py
FragTest.py
PileupTest.py
RefTest.py
)
if ( SINGLE_CONFIG )
if ( NOT TOOLS_ONLY )
macro( RunAndDiff TestName TestParams )
add_test( NAME Test_NgsPythonExamples_${TestName}
COMMAND
bash -c "NCBI_VDB_QUALITY=R ${Python3_EXECUTABLE} ${TestName}.py ${TestParams} > actual/${TestName} && diff expected/${TestName} actual/${TestName}"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
)
set_tests_properties( Test_NgsPythonExamples_${TestName}
PROPERTIES ENVIRONMENT "NGS_PY_DOWNLOAD_LIBRARY=0;PYTHONUSERBASE=${PythonUserBase};NGS_PY_LIBRARY_PATH=${LIBDIR}" DEPENDS Test_NGS_Python_install
LABELS "online"
)
endmacro()
RunAndDiff( FragTest "ERR225922 10000 2" )
RunAndDiff( AlignTest "ERR225922 10000 2" )
RunAndDiff( AlignSliceTest "SRR1121656 1 1 9999" )
RunAndDiff( PileupTest "SRR1121656 1 9999 10003" )
RunAndDiff( RefTest "SRR1121656" )
endif()
set( INSTALL_DEST ${CMAKE_INSTALL_PREFIX}/share/examples-python )
install(FILES ${SOURCES} expected.txt
DESTINATION ${INSTALL_DEST} )
install(FILES ${CMAKE_CURRENT_SOURCE_DIR}/Makefile.install
DESTINATION ${INSTALL_DEST}
RENAME Makefile
)
install(FILES ${CMAKE_CURRENT_SOURCE_DIR}/README.install
DESTINATION ${INSTALL_DEST}
RENAME README.txt
)
endif()
endif()
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