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|
Author: Aaron M. Ucko
Last-Update: 2024-04-12 17:29;10
Description: Label tests "online" to have an easy option to run/ignore them properly
--- a/ngs/ngs-sdk/examples/CMakeLists.txt
+++ b/ngs/ngs-sdk/examples/CMakeLists.txt
@@ -52,7 +52,7 @@ if ( NOT TOOLS_ONLY )
add_test( NAME SlowTest_NGS_Run_and_diff COMMAND ${CMAKE_CURRENT_SOURCE_DIR}/run_and_diff.sh ${TESTBINDIR}
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
set_tests_properties( SlowTest_NGS_Run_and_diff
- PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R"
+ PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R" LABELS "online"
)
endif()
--- a/ngs/ngs-java/examples/CMakeLists.txt
+++ b/ngs/ngs-java/examples/CMakeLists.txt
@@ -59,6 +59,8 @@ if ( Java_FOUND )
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
COMMAND_EXPAND_LISTS
)
+ set_tests_properties(Test_NgsJavaExamples_${TestName}
+ PROPERTIES LABELS "online")
endmacro()
RunAndDiff( FragTest "ERR225922 10000 2" )
--- a/ngs/ngs-python/examples/CMakeLists.txt
+++ b/ngs/ngs-python/examples/CMakeLists.txt
@@ -43,6 +43,7 @@ if( Python3_EXECUTABLE )
)
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()
--- a/test/internal/align/CMakeLists.txt
+++ b/test/internal/align/CMakeLists.txt
@@ -33,3 +33,4 @@ endif()
include_directories( ${VDB_INTERFACES_DIR}/ext/ ) # zlib.h
include_directories( ${CMAKE_SOURCE_DIR} ${CMAKE_SOURCE_DIR}/../ncbi-vdb/interfaces/ext/ )
AddExecutableTest( SlowTest_Align_estimator "pileup_estimator" "ncbi-ngs-c++;ngs-c++;${COMMON_LINK_LIBRARIES};${COMMON_LIBS_READ}" "" )
+set_tests_properties(SlowTest_Align_estimator PROPERTIES LABELS "online")
--- a/test/loaders/kar/CMakeLists.txt
+++ b/test/loaders/kar/CMakeLists.txt
@@ -30,6 +30,7 @@ if ( NOT WIN32 )
${CMAKE_COMMAND} -E env ${CONFIGTOUSE}=/ NCBI_VDB_QUALITY=R
sh -c "./kar-ntest.sh ${DIRTOTEST}/kar ${DIRTOTEST}/prefetch"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Kar PROPERTIES LABELS "online")
if( TARGET kar-asan )
add_test( NAME Test_Kar-asan
--- a/test/external/kdbmeta/CMakeLists.txt
+++ b/test/external/kdbmeta/CMakeLists.txt
@@ -28,6 +28,7 @@ if ( NOT WIN32 )
add_test( NAME Test_Kdbmeta
COMMAND sh -c "NCBI_SETTINGS=/ ${DIRTOTEST}/kdbmeta SRR053325 > /dev/null"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Kdbmeta PROPERTIES LABELS "online")
if( TARGET kdbmeta-asan )
add_test( NAME Test_Kdbmeta-asan
--- a/test/external/ngs/ngs-java/CMakeLists.txt
+++ b/test/external/ngs/ngs-java/CMakeLists.txt
@@ -81,5 +81,6 @@ if ( Java_FOUND )
${Java_JAVA_EXECUTABLE} -cp "${CLASSPATH}" "-Djava.library.path=${LIBPATH}" ${VARS} org.junit.runner.JUnitCore ngs_test_CSRA1
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
)
+ set_tests_properties(SlowTest_NgsJava_CSRA1 PROPERTIES LABELS "online")
endif()
--- a/test/external/ngs-pileup/CMakeLists.txt
+++ b/test/external/ngs-pileup/CMakeLists.txt
@@ -31,6 +31,7 @@ set( NGS_PILEUP_LIBS
${COMMON_LIBS_READ}
)
AddExecutableTest( Test_Ngs_Pileup "test-ngs-pileup.cpp" "${NGS_PILEUP_LIBS}" "" )
+set_tests_properties(Test_Ngs_Pileup PROPERTIES LABELS "online")
if( NOT WIN32 )
ToolsRequired(ngs-pileup)
@@ -43,6 +44,7 @@ if( NOT WIN32 )
add_test( NAME Test_Ngs_Pileup_2
COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 2.0 SRR1166393
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Ngs_Pileup_2 PROPERTIES LABELS "online")
if( TARGET Test_Ngs_Pileup-asan )
add_test( NAME Test_Ngs_Pileup_2-asan
COMMAND ./runtestcase.sh ${BINDIR} "-asan" ${CMAKE_CURRENT_SOURCE_DIR} 2.0 SRR1166393
@@ -58,6 +60,7 @@ if( NOT WIN32 )
add_test( NAME Test_Ngs_Pileup_3
COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 3.0 ERR334733
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Ngs_Pileup_3 PROPERTIES LABELS "online")
if( TARGET Test_Ngs_Pileup-asan )
add_test( NAME Test_Ngs_Pileup_3-asan
COMMAND ./runtestcase.sh ${BINDIR} "-asan" ${CMAKE_CURRENT_SOURCE_DIR} 3.0 ERR334733
@@ -72,6 +75,7 @@ if( NOT WIN32 )
add_test( NAME Test_Ngs_Pileup_4
COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 4.0 SRR1068006
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Ngs_Pileup_4 PROPERTIES LABELS "online")
if( TARGET Test_Ngs_Pileup-asan )
add_test( NAME Test_Ngs_Pileup_4-asan
COMMAND ./runtestcase.sh ${BINDIR} "-asan" ${CMAKE_CURRENT_SOURCE_DIR} 4.0 SRR1068006
@@ -87,6 +91,7 @@ if( NOT WIN32 )
add_test( NAME SlowTest_Ngs_Pileup_5
COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 5.0 SRR619510
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(SlowTest_Ngs_Pileup_5 PROPERTIES LABELS "online")
if( TARGET Test_Ngs_Pileup-asan )
add_test( NAME SlowTest_Ngs_Pileup_5-asan
COMMAND ./runtestcase.sh ${BINDIR} "-asan" ${CMAKE_CURRENT_SOURCE_DIR} 5.0 SRR619510
@@ -103,11 +108,13 @@ if( NOT WIN32 )
# add_test( NAME Test_Ngs_Pileup_6
# COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 6.0 SRR1251988
# WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ # set_tests_properties(Test_Ngs_Pileup_6 PROPERTIES LABELS "online")
# ION_TORRENT
add_test( NAME Test_Ngs_Pileup_7
COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 7.0 SRR1186012
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Ngs_Pileup_7 PROPERTIES LABELS "online")
if( TARGET Test_Ngs_Pileup-asan )
add_test( NAME Test_Ngs_Pileup_7-asan
COMMAND ./runtestcase.sh ${BINDIR} "-asan" ${CMAKE_CURRENT_SOURCE_DIR} 7.0 SRR1186012
@@ -124,17 +131,20 @@ if( NOT WIN32 )
# add_test( NAME Test_Ngs_Pileup_8.1
# COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 8.1 SRR556739 -r chrY
# WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ # set_tests_properties(Test_Ngs_Pileup_8.1 PROPERTIES LABELS "online")
#TODO: fix
# COMPLETE_GENOMICS, circular reference
# add_test( NAME Test_Ngs_Pileup_8.2
# COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 8.2 SRR556739 -r chrM
# WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ # set_tests_properties(Test_Ngs_Pileup_8.2 PROPERTIES LABELS "online")
#:19900-20022
add_test( NAME Test_Ngs_Pileup_9
COMMAND ./runtestcase.sh ${BINDIR} "" ${CMAKE_CURRENT_SOURCE_DIR} 9.0 SRR341578 -r NC_011752.1
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Ngs_Pileup_9 PROPERTIES LABELS "online")
if( TARGET Test_Ngs_Pileup-asan )
add_test( NAME Test_Ngs_Pileup_9-asan
COMMAND ./runtestcase.sh ${BINDIR} "-asan" ${CMAKE_CURRENT_SOURCE_DIR} 9.0 SRR341578 -r NC_011752.1
@@ -145,4 +155,4 @@ if( NOT WIN32 )
COMMAND ./runtestcase.sh ${BINDIR} "-tsan" ${CMAKE_CURRENT_SOURCE_DIR} 9.0 SRR341578 -r NC_011752.1
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
endif()
-endif()
\ No newline at end of file
+endif()
--- a/test/external/ngs/ngs-python/CMakeLists.txt
+++ b/test/external/ngs/ngs-python/CMakeLists.txt
@@ -33,6 +33,7 @@ if( Python3_EXECUTABLE )
PROPERTIES
DEPENDS Test_NGS_Python_install
ENVIRONMENT "LD_LIBRARY_PATH=${NCBI_VDB_LIBDIR};NCBI_VDB_QUALITY=R;NGS_PY_LIBRARY_PATH=${LIBDIR};PYTHONUSERBASE=${PythonUserBase}"
+ LABELS "online"
)
elseif( WIN32 )
add_test( NAME SlowTest_NgsPython
--- a/test/external/prefetch/CMakeLists.txt
+++ b/test/external/prefetch/CMakeLists.txt
@@ -43,6 +43,8 @@ if ( NOT WIN32 )
add_test( NAME Test_Prefetch_urls_and_accs
COMMAND perl urls_and_accs.pl ${DIRTOTEST} ${BINDIR} prefetch #VERBOSE
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Prefetch_urls_and_accs
+ PROPERTIES LABELS "online")
if( TARGET prefetch-asan )
add_test( NAME Test_Prefetch_urls_and_accs-asan
COMMAND perl urls_and_accs.pl ${DIRTOTEST} ${BINDIR} prefetch-asan
@@ -58,6 +60,8 @@ if ( NOT WIN32 )
COMMAND
perl out_dir_and_file.pl ${DIRTOTEST} ${BINDIR} prefetch #VERBOSE
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Prefetch_out_dir_and_file
+ PROPERTIES LABELS "online")
if( TARGET prefetch-asan )
add_test( NAME Test_Prefetch_out_dir_and_file-asan
COMMAND perl out_dir_and_file.pl ${DIRTOTEST} ${BINDIR} prefetch-asan
@@ -74,6 +78,7 @@ if ( NOT WIN32 )
${CMAKE_COMMAND} -E env ${CONFIGTOUSE}=/
sh runtests.sh ${DIRTOTEST} prefetch ${TESTBINDIR} # 123
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(SlowTest_Prefetch_dflt PROPERTIES LABELS "online")
if( TARGET prefetch-asan )
add_test( NAME SlowTest_Prefetch_dflt-asan
COMMAND
@@ -92,6 +97,7 @@ if ( NOT WIN32 )
add_test( NAME Test_Prefetch_outs
COMMAND perl test-prefetch-outs.pl ${DIRTOTEST} prefetch 0 # 1234
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Prefetch_outs PROPERTIES LABELS "online")
if( TARGET prefetch-asan )
add_test( NAME Test_Prefetch_outs-asan
COMMAND perl test-prefetch-outs.pl ${DIRTOTEST} prefetch-asan
@@ -106,6 +112,7 @@ if ( NOT WIN32 )
add_test( NAME SlowTest_Prefetch_1GB
COMMAND perl ncbi1GB.pl ${DIRTOTEST} prefetch # 23
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(SlowTest_Prefetch_1GB PROPERTIES LABELS "online")
if( TARGET prefetch-asan )
add_test( NAME SlowTest_Prefetch_1GB-asan
COMMAND perl ncbi1GB.pl ${BINDIR} prefetch-asan
@@ -126,6 +133,8 @@ if ( NOT WIN32 )
dbgap|110603={\"\":400,\"result\":[{\"status\":200,\"files\":[{\"object\":\"dbgap|110603\",\"locations\":[{\"link\":\"https://trace.ncbi.nlm.nih.gov/Traces/sdlr/sdlr.cgi\"}]}]}]}
./test-bad-kart.sh ${DIRTOTEST} prefetch
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Prefetch_Bad_Kart
+ PROPERTIES LABELS "online")
if( TARGET prefetch-asan )
add_test( NAME Test_Prefetch_Bad_Kart-asan
COMMAND
@@ -152,6 +161,8 @@ if ( NOT WIN32 )
add_test( NAME SlowTest_Prefetch_vdbcache
COMMAND perl vdbcache.pl ${DIRTOTEST} prefetch 0 # 23
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(SlowTest_Prefetch_vdbcache
+ PROPERTIES LABELS "online")
if( TARGET prefetch-asan )
add_test( NAME SlowTest_Prefetch_vdbcache-asan
COMMAND perl vdbcache.pl ${BINDIR} prefetch-asan
--- a/test/external/srapath/CMakeLists.txt
+++ b/test/external/srapath/CMakeLists.txt
@@ -42,6 +42,7 @@ if ( NOT WIN32 )
${CMAKE_COMMAND} -E env VDB_CONFIG=../..
sh -c "./test-srapath.sh ${DIRTOTEST} srapath"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Srapath PROPERTIES LABELS "online")
if( TARGET srapath-asan )
add_test( NAME Test_Srapath-asan
COMMAND
--- a/test/internal/vdb-diff/CMakeLists.txt
+++ b/test/internal/vdb-diff/CMakeLists.txt
@@ -77,4 +77,8 @@ if( NOT WIN32 )
COMMAND test_failure.sh "${DIRTOTEST}" ${ACCESSION} vdb-diff-tsan
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
endif()
+
+ set_tests_properties(
+ Test_VDB_Diff_Check_success Test_VDB_Diff_Check_failure
+ PROPERTIES LABELS "online")
endif()
--- a/test/external/vdb-dump/CMakeLists.txt
+++ b/test/external/vdb-dump/CMakeLists.txt
@@ -60,6 +60,7 @@ if ( NOT WIN32 )
sh -c "./vdb_dump.sh ${TESTBINDIR}/vdb-dump-makedb ${DIRTOTEST} vdb-dump"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
)
+ set_tests_properties(Test_Vdb_dump PROPERTIES LABELS "online")
if( TARGET vdb-dump-asan )
add_test( NAME Test_Vdb_dump_asan
@@ -85,4 +86,5 @@ if ( NOT WIN32 )
"${CMAKE_SOURCE_DIR}/tools/external/vdb-dump"
)
+ set_tests_properties(Test_Vdb_dump_view-alias PROPERTIES LABELS "online")
endif()
--- a/libs/ngs-vdb/test/CMakeLists.txt
+++ b/libs/ngs-vdb/test/CMakeLists.txt
@@ -70,32 +70,39 @@ add_test ( NAME Test_Ngs COMMAND test-ng
add_executable ( test-ngs_sra ngstest_sra.cpp )
target_link_libraries ( test-ngs_sra ${TEST_LIBS})
add_test ( NAME Test_Ngs_Sra COMMAND test-ngs_sra WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( Test_Ngs_Sra PROPERTIES LABELS online )
add_executable ( test-ngs_sradb ngstest_sradb.cpp )
target_link_libraries ( test-ngs_sradb ${TEST_LIBS})
add_test ( NAME Test_Ngs_SraDb COMMAND test-ngs_sradb WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( Test_Ngs_SraDb PROPERTIES LABELS online )
add_executable ( test-ngs_csra1 ngstest_csra1.cpp )
target_link_libraries ( test-ngs_csra1 ${TEST_LIBS})
add_test ( NAME SlowTest_Ngs_Csra1 COMMAND test-ngs_csra1 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
-set_tests_properties( SlowTest_Ngs_Csra1 PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R" )
+set_tests_properties( SlowTest_Ngs_Csra1 PROPERTIES
+ ENVIRONMENT "NCBI_VDB_QUALITY=R" LABELS online )
add_executable ( test-ngs_csra1_readcollection ngstest_csra1_readcollection.cpp )
target_link_libraries ( test-ngs_csra1_readcollection ${TEST_LIBS})
add_test ( NAME Test_Ngs_Csra1_ReadCollection COMMAND test-ngs_csra1_readcollection WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( Test_Ngs_Csra1_ReadCollection PROPERTIES LABELS online )
add_executable ( test-ngs_csra1_refwin ngstest_csra1_refwin.cpp )
target_link_libraries ( test-ngs_csra1_refwin ${TEST_LIBS})
add_test ( NAME SlowTest_Ngs_Csra1_RefWin COMMAND test-ngs_csra1_refwin WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
-set_tests_properties( SlowTest_Ngs_Csra1_RefWin PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R" )
+set_tests_properties( SlowTest_Ngs_Csra1_RefWin PROPERTIES
+ ENVIRONMENT "NCBI_VDB_QUALITY=R" LABELS online )
add_executable ( test-ngs_csra1_pileup ngstest_csra1_pileup.cpp )
target_link_libraries ( test-ngs_csra1_pileup ${TEST_LIBS})
add_test ( NAME SlowTest_Ngs_Csra1_Pileup COMMAND test-ngs_csra1_pileup WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( SlowTest_Ngs_Csra1_Pileup PROPERTIES LABELS online )
add_executable ( test-ngs_reference ngstest_reference.cpp )
target_link_libraries ( test-ngs_reference ${TEST_LIBS})
add_test ( NAME SlowTest_Ngs_Reference COMMAND test-ngs_reference WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( SlowTest_Ngs_Reference PROPERTIES LABELS online )
add_executable ( test-fragmentblob ngstest_fragmentblob.cpp )
@@ -103,14 +110,17 @@ target_link_libraries ( test-fragmentblo
add_test ( NAME SlowTest_Ngs_FragmentBlob COMMAND test-fragmentblob WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
# SlowTest_Ngs_FragmentBlob requires MakeDB to be run first
set_property(TEST SlowTest_Ngs_FragmentBlob PROPERTY FIXTURES_REQUIRED MakeDB)
+set_tests_properties( SlowTest_Ngs_FragmentBlob PROPERTIES LABELS online )
add_executable ( test-referenceblob ngstest_referenceblob.cpp )
target_link_libraries ( test-referenceblob ${TEST_LIBS})
add_test ( NAME Test_Ngs_ReferenceBlob COMMAND test-referenceblob WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( Test_Ngs_ReferenceBlob PROPERTIES LABELS online )
add_executable ( test-byteblob ngstest_byteblob.cpp )
target_link_libraries ( test-byteblob ${TEST_LIBS})
add_test ( NAME Test_Ngs_ByteBlob COMMAND test-byteblob WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( Test_Ngs_ByteBlob PROPERTIES LABELS online )
#-------------------------------------------------------------------------------
# tests for the NGS C++ APIs
@@ -118,20 +128,24 @@ add_test ( NAME Test_Ngs_ByteBlob COMMAN
add_executable ( test-ngs_sra_c++ SRAtest.cpp )
target_link_libraries ( test-ngs_sra_c++ ${TEST_LIBS})
add_test ( NAME Test_Ngs_CPP_Sra COMMAND test-ngs_sra_c++ WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( Test_Ngs_CPP_Sra PROPERTIES LABELS online )
add_executable ( test-ngs_sradb_c++ SRADBtest.cpp )
target_link_libraries ( test-ngs_sradb_c++ ${TEST_LIBS})
add_test ( NAME Test_Ngs_CPP_SraDb COMMAND test-ngs_sradb_c++ WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
+set_tests_properties( Test_Ngs_CPP_SraDb PROPERTIES LABELS online )
add_executable ( test-ngs_csra1_c++ CSRA1test.cpp )
target_link_libraries ( test-ngs_csra1_c++ ${TEST_LIBS})
add_test ( NAME SlowTest_Ngs_CPP_CSRA1 COMMAND test-ngs_csra1_c++ WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
-set_tests_properties( SlowTest_Ngs_CPP_CSRA1 PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R" )
+set_tests_properties( SlowTest_Ngs_CPP_CSRA1 PROPERTIES
+ ENVIRONMENT "NCBI_VDB_QUALITY=R" LABELS online )
add_executable ( test-ngs_csra1pileup++ CSRA1PileupTest.cpp )
target_link_libraries ( test-ngs_csra1pileup++ ${TEST_LIBS})
add_test ( NAME SlowTest_Ngs_CPP_CSRA1Pileup COMMAND test-ngs_csra1pileup++ WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
-set_tests_properties( SlowTest_Ngs_CPP_CSRA1Pileup PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R" )
+set_tests_properties( SlowTest_Ngs_CPP_CSRA1Pileup PROPERTIES
+ ENVIRONMENT "NCBI_VDB_QUALITY=R" LABELS online )
#-------------------------------------------------------------------------------
# tests for this library, ngs-vdb
@@ -146,4 +160,5 @@ target_link_libraries ( test-ngs-vdb
)
add_test ( NAME SlowTest_NgsVdbWhiteBox COMMAND test-ngs-vdb )
+set_tests_properties( SlowTest_NgsVdbWhiteBox PROPERTIES LABELS online )
--- a/test/external/ngs/testy-the-bear/CMakeLists.txt
+++ b/test/external/ngs/testy-the-bear/CMakeLists.txt
@@ -30,6 +30,6 @@ if( NOT WIN32 )
COMMAND runtestcase.sh "${TESTBINDIR}/testy-the-bear" "1" "0"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
set_tests_properties( SlowTest_testy-the-bear
- PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R"
+ PROPERTIES ENVIRONMENT "NCBI_VDB_QUALITY=R" LABELS online
)
endif()
--- a/tools/external/sra-search/test/CMakeLists.txt
+++ b/tools/external/sra-search/test/CMakeLists.txt
@@ -48,11 +48,13 @@ AddExecutableTest ( Test_SraSearch
"test-sra-search.cpp;../vdb-search.cpp;../searchblock.cpp;../blobmatchiterator.cpp;../fragmentmatchiterator.cpp;../referencematchiterator.cpp"
"ksrch" ""
)
+set_tests_properties( Test_SraSearch PROPERTIES LABELS online )
AddExecutableTest ( Test_SraSearchSlow
"test-sra-search-slow.cpp;../vdb-search.cpp;../searchblock.cpp;../blobmatchiterator.cpp;../fragmentmatchiterator.cpp;../referencematchiterator.cpp"
"ksrch" ""
)
+set_tests_properties( Test_SraSearchSlow PROPERTIES LABELS online )
AddExecutableTest ( Test_SraSearch_SearchBlock
"test-searchblock.cpp;../searchblock.cpp"
@@ -62,8 +64,10 @@ AddExecutableTest ( Test_SraSearch_Searc
# white box tests
add_test ( NAME Test_SraSearchBlockWhiteBox COMMAND Test_SraSearch_SearchBlock )
add_test ( NAME Test_SraSearchWhiteBox COMMAND Test_SraSearch )
+set_tests_properties( Test_SraSearchWhiteBox PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearchWhiteBox COMMAND Test_SraSearchSlow )
-set_tests_properties(SlowTest_SraSearchWhiteBox PROPERTIES TIMEOUT 5000)
+set_tests_properties(SlowTest_SraSearchWhiteBox PROPERTIES TIMEOUT 5000
+ LABELS online)
# command line tests
if ( NOT WIN32)
@@ -94,44 +98,76 @@ if ( NOT WIN32)
# single run
add_test ( NAME SlowTest_SraSearch-3.0-single-run-default WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.0-single-run-default --args "AGCTAGCTAGCT -T 1 SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.0-single-run-default
+ PROPERTIES LABELS online )
add_test ( NAME Test_SraSearch-3.05-single-run-default-WGS WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.05-single-run-default-WGS --sort --args "AGCTAGCTA ALAI01" )
+ set_tests_properties( Test_SraSearch-3.05-single-run-default-WGS
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.1-single-run-fgrep-standard WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.1-single-run-fgrep-standard --args "AGCTAGCTAGCT -T 1 -a FgrepStandard SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.1-single-run-fgrep-standard
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.2-single-run-fgrep-boyer-moore WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.2-single-run-fgrep-boyer-moore --args "AGCTAGCTAGCT -T 1 --algorithm FgrepBoyerMoore SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.2-single-run-fgrep-boyer-moore
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.3-single-run-fgrep-aho WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.3-single-run-fgrep-aho --args "AGCTAGCTAGCT -T 1 --algorithm FgrepAho SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.3-single-run-fgrep-aho
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.4-single-run-agrep-dp WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.4-single-run-agrep-dp --args "AGCTAGCTAGCT -T 1 --algorithm AgrepDP SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.4-single-run-agrep-dp
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.5-single-run-agrep-wumanber WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.5-single-run-agrep-wumanber --args "AGCTAGCTAGCT -T 1 --algorithm AgrepWuManber SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.5-single-run-agrep-wumanber
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.6-single-run-agrep-myers WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.6-single-run-agrep-myers --args "AGCTAGCTAGCT -T 1 --algorithm AgrepMyers SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.6-single-run-agrep-myers
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.7-single-run-agrep-myers-unltd WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.7-single-run-agrep-myers-unltd --args "AGCTAGCTAGCT -T 1 --algorithm AgrepMyersUnltd SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.7-single-run-agrep-myers-unltd
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.8-single-run-nucstrstr WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.8-single-run-nucstrstr --args "AGCTAGCTAGCT -T 1 --algorithm NucStrstr SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.8-single-run-nucstrstr
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-3.9-single-run-smith-waterman WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.9-single-run-smith-waterman --args "AGCTAGCTAGCT -T 1 --algorithm SmithWaterman -m 4 SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-3.9-single-run-smith-waterman
+ PROPERTIES LABELS online )
# single run, fasta format
add_test ( NAME Test_SraSearch-3.10-single-run-fasta WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.10-single-run-fasta --args "AGCTAGCTA ALAI01 --fasta --max 2" )
+ set_tests_properties( Test_SraSearch-3.10-single-run-fasta
+ PROPERTIES LABELS online )
add_test ( NAME Test_SraSearch-3.11-single-run-fasta-custom-line-size WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 3.11-single-run-fasta-custom-line-size --args "AGCTAGCTA ALAI01 --fasta 80 --max 2" )
+ set_tests_properties( Test_SraSearch-3.11-single-run-fasta-custom-line-size
+ PROPERTIES LABELS online )
# multiple runs, single threaded
add_test ( NAME Test_SraSearch-4.0-multiple-runs WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 4.0-multiple-runs --args "TACTGGGCGTAAAGCGTGCGCAGGCGGT -T 1 --algorithm NucStrstr SRR600096 SRR600097" )
+ set_tests_properties( Test_SraSearch-4.0-multiple-runs
+ PROPERTIES LABELS online )
# query expressions
add_test ( NAME SlowTest_SraSearch-5.0-run-nucstrstr-with-expression WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 5.0-run-nucstrstr-with-expression --sort --args "AAAAAAACCCCCCCAAAAAAACCCCCCC\\|\\|AGCTAGCTAGCT -T 1 --algorithm NucStrstr --expression SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-5.0-run-nucstrstr-with-expression
+ PROPERTIES LABELS online )
# query expressions, bad arguments
add_test ( NAME Test_SraSearch-5.1-run-not-nucstrstr-with-expression WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 5.1-run-not-nucstrstr-with-expression --args "AAAAAAACCCCCCCAAAAAAACCCCCCC\\|\\|AGCTAGCTAGCT --algorithm FgrepStandard --expression SRR000001" --rc 3 )
+ set_tests_properties( Test_SraSearch-5.1-run-not-nucstrstr-with-expression
+ PROPERTIES LABELS online )
# imperfect match, bad arguments
add_test ( NAME Test_SraSearch-6.0.1-imperfect-match-no-arg WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
@@ -149,16 +185,26 @@ if ( NOT WIN32)
# imperfect match
add_test ( NAME SlowTest_SraSearch-6.4-imperfect-match-agrep-dp WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 6.4-imperfect-match-agrep-dp --args "AGCTAGCTAGCT -T 1 --score 90 --algorithm AgrepDP SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-6.4-imperfect-match-agrep-dp
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-6.5-imperfect-match-agrep-wumanber WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 6.5-imperfect-match-agrep-wumanber --args "AGCTAGCTAGCT -T 1 --score 90 --algorithm AgrepWuManber SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-6.5-imperfect-match-agrep-wumanber
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-6.6-imperfect-match-agrep-myers WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 6.6-imperfect-match-agrep-myers --args "AGCTAGCTAGCT -T 1 --score 90 --algorithm AgrepMyers SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-6.6-imperfect-match-agrep-myers
+ PROPERTIES LABELS online )
add_test ( NAME SlowTest_SraSearch-6.7-imperfect-match-agrep-myers-unltd WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 6.7-imperfect-match-agrep-myers-unltd --args "AGCTAGCTAGCT -T 1 --score 90 --algorithm AgrepMyersUnltd SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-6.7-imperfect-match-agrep-myers-unltd
+ PROPERTIES LABELS online )
add_test ( NAME SraSearch-6.8-imperfect-match-nucstrstr WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 6.8-imperfect-match-nucstrstr --args "AGCTAGCTAGCT --score 90 --algorithm NucStrstr SRR000001" --rc 3 )
add_test ( NAME SlowTest_SraSearch-6.9-imperfect-match-smith-waterman WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 6.9-imperfect-match-smith-waterman --args "AGCTAGCTAGCT -T 1 --score 90 --algorithm SmithWaterman -m 100 SRR000001" )
+ set_tests_properties( SlowTest_SraSearch-6.9-imperfect-match-smith-waterman
+ PROPERTIES LABELS online )
# multi-threading, bad arguments
add_test ( NAME Test_SraSearch-7.0.1-threads-no-arg WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
@@ -169,15 +215,23 @@ if ( NOT WIN32)
# multiple runs, thread per accession
add_test ( NAME SlowTest_SraSearch-7.1-threads-unsorted WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 7.1-threads-unsorted --sort --args "ACGTAGGGTCC --threadperacc --threads 4 SRR600094 SRR600095 SRR600096 SRR600099" )
+ set_tests_properties( SlowTest_SraSearch-7.1-threads-unsorted
+ PROPERTIES LABELS online )
# single run, thread per blob
add_test ( NAME SlowTest_SraSearch-7.2-threads-single WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 7.2-threads-single --sort --args "ACGTAGGGTCC --threads 2 SRR600094" )
+ set_tests_properties( SlowTest_SraSearch-7.2-threads-single
+ PROPERTIES LABELS online )
# multiple runs, thread per blob
add_test ( NAME SlowTest_SraSearch-7.3-threads-multiple WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 7.3-threads-multiple --sort --args "ACGTAGGGTCC --threads 2 SRR600094 SRR600095 SRR600096 SRR600099" )
+ set_tests_properties( SlowTest_SraSearch-7.3-threads-multiple
+ PROPERTIES LABELS online )
# sorting the output
add_test ( NAME SlowTest_SraSearch-7.4-threads-sort WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 7.4-threads-sort --args "ACGTAGGGTCC --threads 4 SRR600096 SRR600095 --sort" )
+ set_tests_properties( SlowTest_SraSearch-7.4-threads-sort
+ PROPERTIES LABELS online )
# nothing found
add_test ( NAME SlowTest_SraSearch-8.0-nothing-found WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
@@ -186,14 +240,20 @@ if ( NOT WIN32)
# reference mode
add_test ( NAME SlowTest_SraSearch-9.0-reference WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 9.0-reference --sort --args "ACGTAGGGTCC SRR600094 --reference -T 6" )
+ set_tests_properties( SlowTest_SraSearch-9.0-reference
+ PROPERTIES LABELS online )
# reference mode, multiple references, one accession
add_test ( NAME SlowTest_SraSearch-9.1-reference-multiple-refs WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 9.1-reference --sort --args "ACGTAGGGTCC SRR600094 --reference NC_000007.13,doesnotexist,NC_000001.10 -T 6" )
+ set_tests_properties( SlowTest_SraSearch-9.1-reference-multiple-refs
+ PROPERTIES LABELS online )
# reference mode, multiple references, accessions
add_test ( NAME SlowTest_SraSearch-9.2-reference-multiple-refs-multiple-runs WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 9.2-reference --sort --args "ACGTAGGGTCC SRR600095 SRR600094 --reference NC_000007.13,NC_000001.10 -T 6" )
+ set_tests_properties( SlowTest_SraSearch-9.2-reference-multiple-refs-multiple-runs
+ PROPERTIES LABELS online )
# reference mode, expressions not allowed
add_test ( NAME Test_SraSearch-9.3-reference-expression WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
@@ -202,5 +262,7 @@ if ( NOT WIN32)
# unaligned reads only
add_test ( NAME SlowTest_SraSearch-10.0-unaligned WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND sh runtestcase.sh
${SRA_SEARCH} 10.0-unaligned --args "AGCTAGCTAGCT SRR600099 --unaligned" )
+ set_tests_properties( SlowTest_SraSearch-10.0-unaligned
+ PROPERTIES LABELS online )
endif ()
--- a/test/external/sra-info/CMakeLists.txt
+++ b/test/external/sra-info/CMakeLists.txt
@@ -29,6 +29,7 @@ add_compile_definitions( __mod__="test/e
AddExecutableTest( Test_SraInfo_Unit "test-sra-info"
"${COMMON_LINK_LIBRARIES};${COMMON_LIBS_READ}"
"${PROJECT_SOURCE_DIR}/tools/external/sra-info" )
+set_tests_properties( Test_SraInfo_Unit PROPERTIES LABELS "online" )
ToolsRequired(sra-info)
@@ -97,6 +98,15 @@ AddQueryTest( Test_Sra_Info_Platform_WGS
AddQueryTest( Test_Sra_Info_Platform_Multiple 2.0 "-P ./input/MultiPlatform_Long.sra" )
AddQueryTest( Test_Sra_Info_Platform_Reference 3.0 "-P NC_000001.11" )
AddQueryTest( Test_Sra_Info_Platform_Missing 4.0 "-P SRR576646" )
+set_tests_properties( Test_Sra_Info_Platform_Table PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_Platform_CSRA PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_Platform_WGS PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_Platform_Multiple
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_Platform_Reference
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_Platform_Missing
+ PROPERTIES LABELS "online" )
# formatting
AddQueryTest( Test_Sra_Info_Platform_Format_CSV 4.1 "-P ./input/MultiPlatform.sra -f csv" )
@@ -107,11 +117,17 @@ AddQueryTest( Test_Sra_Info_Platform_For
# is-aligned
AddQueryTest( Test_Sra_Info_IsAligned_No 5.1 "-A SRR000123" )
AddQueryTest( Test_Sra_Info_IsAligned_Yes 5.2 "--is-aligned ERR334733" )
+set_tests_properties( Test_Sra_Info_IsAligned_No PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_IsAligned_Yes PROPERTIES LABELS "online" )
# quality
AddQueryTest( Test_Sra_Info_Quality_Physical 6.1 "--quality ./input/MultiPlatform.sra" )
AddQueryTest( Test_Sra_Info_Quality_Physical_Refseq 6.2 "-Q NC_000001.10" )
AddQueryTest( Test_Sra_Info_Quality_delite 6.3 "-Q SRR000123" )
+set_tests_properties( Test_Sra_Info_Quality_Physical_Refseq
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_Quality_delite
+ PROPERTIES LABELS "online" )
# spot layout
AddQueryTest( Test_Sra_Info_SpotLayout_Default 7.1 "--spot-layout SRR000123" )
@@ -119,22 +135,43 @@ AddQueryTest( Test_Sra_Info_SpotLayout_J
AddQueryTest( Test_Sra_Info_SpotLayout_CSV 7.3 "--spot-layout -f csv SRR000123" )
AddQueryTest( Test_Sra_Info_SpotLayout_Tab 7.4 "--spot-layout -f tab SRR000123" )
AddQueryTest( Test_Sra_Info_SpotLayout_XML 7.5 "--spot-layout -f xml SRR000123" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Default
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Json
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_SpotLayout_CSV PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Tab PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_SpotLayout_XML PROPERTIES LABELS "online" )
# PACBIO, uses the CONSENSUS table
AddQueryTest( Test_Sra_Info_SpotLayout_Pacbio_Consensus 7.6.1 "--spot-layout DRR032985 --limit 100" )
# PACBIO, uses the SEQUENCE table
AddQueryTest( Test_Sra_Info_SpotLayout_Pacbio_Sequence 7.6.2 "--spot-layout DRR032985 --limit 100 --sequence" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Pacbio_Consensus
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Pacbio_Sequence
+ PROPERTIES LABELS "online" )
# TODO: find a smaller CG run
AddQueryTest( SlowTest_Sra_Info_SpotLayout_CG 7.7 "--spot-layout SRR546160 --limit 100" )
+set_tests_properties( SlowTest_Sra_Info_SpotLayout_CG
+ PROPERTIES LABELS "online" )
# spot layout, detail level
AddQueryTest( Test_Sra_Info_SpotLayout_Detail_Short 7.8.1 "--spot-layout SRR000123 --detail 0" )
AddQueryTest( Test_Sra_Info_SpotLayout_Detail_Abbreviated 7.8.2 "--spot-layout SRR000123 --detail 1" )
AddQueryTest( Test_Sra_Info_SpotLayout_Detail_Full 7.8.3 "--spot-layout SRR000123 --detail 2" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Detail_Short
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Detail_Abbreviated
+ PROPERTIES LABELS "online" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Detail_Full
+ PROPERTIES LABELS "online" )
# spot layout, first N rows only
AddQueryTest( Test_Sra_Info_SpotLayout_Rows 7.9 "--spot-layout SRR000123 --rows 5" )
+set_tests_properties( Test_Sra_Info_SpotLayout_Rows
+ PROPERTIES LABELS "online" )
# # multiple queries
# add_test( NAME Test_Sra_Info_MultipleQueries_8.0
@@ -166,9 +203,13 @@ AddQueryTest( Test_Sra_Info_ACPQS_Xml 10
# query for contents
AddQueryTest( Test_Sra_Info_Contents_Table 11.0 "-T SRR000123" )
+set_tests_properties(Test_Sra_Info_Contents_Table PROPERTIES LABELS online)
AddQueryTest( Test_Sra_Info_Contents_DB_Default 11.1 "--contents SRR341576" )
AddQueryTest( Test_Sra_Info_Contents_DB_Json 11.2 "--contents SRR341576 -fjson" )
+set_tests_properties(Test_Sra_Info_Contents_DB_Default
+ PROPERTIES LABELS online)
+set_tests_properties(Test_Sra_Info_Contents_DB_Json PROPERTIES LABELS online)
AddQueryTest( Test_Sra_Info_Contents_Detail_Short_Default 12.0 "--contents SRR000123 --detail 0" )
AddQueryTest( Test_Sra_Info_Contents_Detail_Short_Json 12.1 "--contents SRR341576 -fjson --detail 0" )
@@ -176,5 +217,16 @@ AddQueryTest( Test_Sra_Info_Contents_Det
AddQueryTest( Test_Sra_Info_Contents_Detail_Detailed_Json 12.3 "--contents SRR341576 -fjson --detail 1" )
AddQueryTest( Test_Sra_Info_Contents_Detail_Verbose_Default 12.4 "--contents SRR341576 --detail 2" )
AddQueryTest( Test_Sra_Info_Contents_Detail_Verbose_Json 12.5 "--contents SRR341576 -fjson --detail 3" )
-
+set_tests_properties(Test_Sra_Info_Contents_Detail_Short_Default
+ PROPERTIES LABELS online)
+set_tests_properties(Test_Sra_Info_Contents_Detail_Short_Json
+ PROPERTIES LABELS online)
+set_tests_properties(Test_Sra_Info_Contents_Detail_Detailed_Default
+ PROPERTIES LABELS online)
+set_tests_properties(Test_Sra_Info_Contents_Detail_Detailed_Json
+ PROPERTIES LABELS online)
+set_tests_properties(Test_Sra_Info_Contents_Detail_Verbose_Default
+ PROPERTIES LABELS online)
+set_tests_properties(Test_Sra_Info_Contents_Detail_Verbose_Json
+ PROPERTIES LABELS online)
endif()
--- a/test/external/sra-pileup/CMakeLists.txt
+++ b/test/external/sra-pileup/CMakeLists.txt
@@ -42,4 +42,5 @@ if ( NOT WIN32 AND Python3_EXECUTABLE )
sh -c "./runtests-slow.sh ${DIRTOTEST} ${Python3_EXECUTABLE}"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
)
+ set_tests_properties( SlowTest_SraPileup PROPERTIES LABELS online )
endif()
--- a/test/external/sra-stat/CMakeLists.txt
+++ b/test/external/sra-stat/CMakeLists.txt
@@ -34,6 +34,7 @@ if ( NOT WIN32 )
add_test( NAME Test_Sra_stat_dflt
COMMAND test-sra-stat.sh ${DIRTOTEST} sra-stat
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties( Test_Sra_stat_dflt PROPERTIES LABELS online )
if( TARGET sra-stat-asan )
add_test( NAME Test_Sra_stat-asan
COMMAND test-sra-stat.sh ${DIRTOTEST} sra-stat-asan
@@ -50,6 +51,7 @@ if ( NOT WIN32 )
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
set_tests_properties( Test_Sra_stat_local
PROPERTIES
+ LABELS online
SKIP_REGULAR_EXPRESSION "^Skipped"
)
@@ -74,6 +76,7 @@ if ( NOT WIN32 )
add_test( NAME SlowTest_Sra_stat
COMMAND test-sra-stat-slow.sh ${DIRTOTEST} sra-stat
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties( SlowTest_Sra_stat PROPERTIES LABELS online )
if( TARGET sra-stat-asan )
add_test( NAME SlowTest_Sra_stat-asan
COMMAND test-sra-stat-slow.sh ${DIRTOTEST} sra-stat-asan
--- a/test/external/vdb-validate/CMakeLists.txt
+++ b/test/external/vdb-validate/CMakeLists.txt
@@ -40,10 +40,12 @@ if ( NOT WIN32 )
add_test( NAME Test_Vdb_validate_dflt
COMMAND vdb_validate.sh "${DIRTOTEST}" vdb-validate
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Vdb_validate_dflt PROPERTIES LABELS "online")
add_test( NAME Test_Vdb_validate_redact
COMMAND sh -c "./vdb_validate_redact.sh '${DIRTOTEST}' '${VDB_LIBDIR}' '${CMAKE_SOURCE_DIR}/libs/schema:${VDB_INCDIR}' '${VDB_SRCDIR}/py_vdb'"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties(Test_Vdb_validate_redact PROPERTIES LABELS "online")
if( TARGET vdb-validate-asan )
add_test( NAME Test_Vdb_validate-asan
--- a/test/internal/vdb-copy/CMakeLists.txt
+++ b/test/internal/vdb-copy/CMakeLists.txt
@@ -51,6 +51,8 @@ if( Python3_EXECUTABLE )
COMMAND sh -c "./copy_and_compare.sh ${DIRTOTEST} SRR000123 ${BINDIR}"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties( Test_VDB_Copy_On_Short_Accession
+ PROPERTIES LABELS online )
add_test( NAME Test_VDB_Copy_Should_Fail_On_Invalid_Accession
COMMAND sh -c "./return_code_on_error.sh ${DIRTOTEST}"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
@@ -59,6 +61,8 @@ if( Python3_EXECUTABLE )
COMMAND sh -c "./test-redaction.sh '${DIRTOTEST}' '${VDB_LIBDIR}' '${SRC_INTERFACES_DIR}:${VDB_INCDIR}' '${VDB_SRCDIR}'"
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
)
+ set_tests_properties( Test_VDB_Copy_Redaction
+ PROPERTIES LABELS online )
endif()
else()
--- a/test/external/align-info/CMakeLists.txt
+++ b/test/external/align-info/CMakeLists.txt
@@ -41,6 +41,7 @@ ToolsRequired(align-info)
VDB_CONFIG=
bash test-refseq-404.sh ${BINDIR}
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties( Test_Align_Info_Refseq_404 PROPERTIES LABELS online )
else()
#TODO: make run on Windows
--- a/test/external/fasterq-dump/CMakeLists.txt
+++ b/test/external/fasterq-dump/CMakeLists.txt
@@ -37,6 +37,7 @@ if ( NOT WIN32 )
COMMAND
sh simple_test.sh ${DIRTOTEST}/fasterq-dump
WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
+ set_tests_properties( Test_FasterDump_Simple PROPERTIES LABELS online )
if( TARGET fasterq-dump-asan )
add_test( NAME Test_FasterDump_Simple-asan
COMMAND
--- a/test/libs/kfile_stream/CMakeLists.txt
+++ b/test/libs/kfile_stream/CMakeLists.txt
@@ -23,4 +23,5 @@
# ===========================================================================
AddExecutableTest( Test_KFile_Stream "custom_stream.cpp" "${COMMON_LINK_LIBRARIES};${COMMON_LIBS_READ}" "" )
+set_tests_properties( Test_KFile_Stream PROPERTIES LABELS online )
--- a/tools/internal/dump_ref_fasta/test/CMakeLists.txt
+++ b/tools/internal/dump_ref_fasta/test/CMakeLists.txt
@@ -41,17 +41,24 @@ if ( NOT WIN32)
add_test ( NAME dump-ref-fasta-1.4-version WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND ./execandgrep.sh "${DUMP_REF_FASTA} --version" ${VERSION} )
# regular run (includes non-local references starting at around 365000 bytes)
add_test ( NAME dump-ref-fasta-2.0 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND runtestcase.sh ${DUMP_REF_FASTA} 2.0 --args "SRR496123 | head -n 370000" )
+ set_tests_properties( dump-ref-fasta-2.0 PROPERTIES LABELS online )
# full ref
add_test ( NAME dump-ref-fasta-3.0 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND runtestcase.sh ${DUMP_REF_FASTA} 3.0 --args "SRR496123 NW_003336815.1" )
+ set_tests_properties( dump-ref-fasta-3.0 PROPERTIES LABELS online )
# slice
add_test ( NAME dump-ref-fasta-3.1 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND runtestcase.sh ${DUMP_REF_FASTA} 3.1 --args "SRR496123 NW_003336815.1:0-100" )
+ set_tests_properties( dump-ref-fasta-3.1 PROPERTIES LABELS online )
# open slice
add_test ( NAME dump-ref-fasta-3.2 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND runtestcase.sh ${DUMP_REF_FASTA} 3.2 --args "SRR496123 NW_003336815.1:100" )
+ set_tests_properties( dump-ref-fasta-3.2 PROPERTIES LABELS online )
# multiple slices on the same ref
add_test ( NAME dump-ref-fasta-3.3 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND runtestcase.sh ${DUMP_REF_FASTA} 3.3 --args "SRR496123 NW_003336837.1:100-200 NW_003336815.1:0-100" )
+ set_tests_properties( dump-ref-fasta-3.3 PROPERTIES LABELS online )
# local references only (non-local references start at around 365000 bytes)
add_test ( NAME dump-ref-fasta-4.0 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND runtestcase.sh ${DUMP_REF_FASTA} 4.0 --args "--localref SRR496123 | head -n 370000" )
+ set_tests_properties( dump-ref-fasta-4.0 PROPERTIES LABELS online )
# local references only, slice (NW_001884453.3 is non-local and will not be included)
add_test ( NAME dump-ref-fasta-4.1 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} COMMAND runtestcase.sh ${DUMP_REF_FASTA} 4.1 --args "-l SRR496123 NW_003336837.1:100-200 NW_001884453.3:0-100" )
+ set_tests_properties( dump-ref-fasta-4.1 PROPERTIES LABELS online )
endif ()
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