Details
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Bug
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Status: Open
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Major
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Resolution: Unresolved
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8.0.0
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None
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None
Description
I've tried many different combinations to install with R 4.10 on a RHEL8 machine, including multiple versions of GCC. I am unable to install arrow with ARROW_JEMALLOC=ON. The error says I need to add an "--host" option within the configure for this step but its entirely unclear in any existing documentation where that needs to be added and what the option should be.
Sys.setenv("ARROW_JEMALLOC" = "ON") Sys.setenv("ARROW_MIMALLOC" = "ON") Sys.setenv("ARROW_R_DEV" = TRUE) Sys.setenv("ARROW_PARQUET" = "ON") Sys.setenv("ARROW_S3" = "ON") Sys.setenv("LIBARROW_DEBUG_DIR" = '/home/ruser/arrow79') options(repos = c(REPO_NAME = "https://packagemanager.rstudio.com/all/__linux__/centos8/latest")) install.packages('arrow', '/home/ruser/R/x86_64-pc-linux-gnu-library/4.1')
Full dev log here:
trying URL 'https://packagemanager.rstudio.com/all/__linux__/centos8/latest/src/contrib/arrow_8.0.0.tar.gz' Content type 'binary/octet-stream' length 4815444 bytes (4.6 MB) ================================================== downloaded 4.6 MB * installing *source* package ‘arrow’ ... ** package ‘arrow’ successfully unpacked and MD5 sums checked ** using staged installation trying URL 'https://github.com' downloaded 205 KB *** Found local C++ source: 'tools/cpp' *** Building libarrow from source For a faster, more complete installation, set the environment variable NOT_CRAN=true before installing See install vignette for details: https://cran.r-project.org/web/packages/arrow/vignettes/install.html *** Building with MAKEFLAGS= -j2 **** S3 support requires libcurl-devel (rpm) or libcurl4-openssl-dev (deb); building with ARROW_S3=OFF **** arrow with SOURCE_DIR='tools/cpp' BUILD_DIR='/home/ruser/arrow79' DEST_DIR='libarrow/arrow-8.0.0' CMAKE='/bin/cmake' EXTRA_CMAKE_FLAGS='' CC='gcc -m64' CXX='g++ -m64 -std=gnu++11' LDFLAG S='-Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ARROW_S3='OFF' ARROW_MIMALLOC='ON' ++ pwd + : /tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow + : tools/cpp + : /home/ruser/arrow79 + : libarrow/arrow-8.0.0 + : /bin/cmake ++ cd tools/cpp ++ pwd + SOURCE_DIR=/tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/tools/cpp ++ mkdir -p libarrow/arrow-8.0.0 ++ cd libarrow/arrow-8.0.0 ++ pwd + DEST_DIR=/tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/libarrow/arrow-8.0.0 + '[' '' '!=' '' ']' + '[' '' = false ']' + ARROW_DEFAULT_PARAM=OFF + mkdir -p /home/ruser/arrow79 + pushd /home/ruser/arrow79 /home/ruser/arrow79 /tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow + /bin/cmake -DARROW_BOOST_USE_SHARED=OFF -DARROW_BUILD_TESTS=OFF -DARROW_BUILD_SHARED=OFF -DARROW_BUILD_STATIC=ON -DARROW_COMPUTE=ON -DARROW_CSV=ON -DARROW_DATASET=ON -DARROW_DEPENDENCY_SOUR CE=AUTO -DAWSSDK_SOURCE= -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=ON -DARROW_MIMALLOC=ON -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_S3=OFF -DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_W ITH_LZ4=ON -DARROW_WITH_RE2=ON -DARROW_WITH_SNAPPY=ON -DARROW_WITH_UTF8PROC=ON -DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF -DARROW_VERBOSE_THIRDPARTY_BUILD=OFF -DCMAKE_BUILD_TYPE=Release -DCM AKE_INSTALL_LIBDIR=lib -DCMAKE_INSTALL_PREFIX=/tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/libarrow/arrow-8.0.0 -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY= ON -DCMAKE_UNITY_BUILD=OFF -G 'Unix Makefiles' /tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/tools/cpp -- Building using CMake version: 3.20.2 -- The C compiler identification is GNU 8.5.0 -- The CXX compiler identification is GNU 8.5.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - failed -- Check for working C compiler: /bin/gcc -- Check for working C compiler: /bin/gcc - works -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - failed -- Check for working CXX compiler: /bin/g++ -- Check for working CXX compiler: /bin/g++ - works -- Detecting CXX compile features -- Detecting CXX compile features - done -- Arrow version: 8.0.0 (full: '8.0.0') -- Arrow SO version: 800 (full: 800.0.0) -- clang-tidy 12 not found -- clang-format 12 not found -- Could NOT find ClangTools (missing: CLANG_FORMAT_BIN CLANG_TIDY_BIN) -- infer not found fatal: not a git repository (or any of the parent directories): .git -- Found Python3: /home/ruser/anaconda3/bin/python3.9 (found version "3.9.7") found components: Interpreter -- Found cpplint executable at /tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/tools/cpp/build-support/cpplint.py -- System processor: x86_64 -- Performing Test CXX_SUPPORTS_SSE4_2 -- Performing Test CXX_SUPPORTS_SSE4_2 - Success -- Performing Test CXX_SUPPORTS_AVX2 -- Performing Test CXX_SUPPORTS_AVX2 - Success -- Performing Test CXX_SUPPORTS_AVX512 -- Performing Test CXX_SUPPORTS_AVX512 - Success -- Arrow build warning level: PRODUCTION Using ld linker Configured for RELEASE build (set with cmake -DCMAKE_BUILD_TYPE={release,debug,...}) -- Build Type: RELEASE -- Performing Test CXX_LINKER_SUPPORTS_VERSION_SCRIPT -- Performing Test CXX_LINKER_SUPPORTS_VERSION_SCRIPT - Success -- Using AUTO approach to find dependencies -- ARROW_ABSL_BUILD_VERSION: 20210324.2 -- ARROW_ABSL_BUILD_SHA256_CHECKSUM: 59b862f50e710277f8ede96f083a5bb8d7c9595376146838b9580be90374ee1f -- ARROW_AWSSDK_BUILD_VERSION: 1.8.133 -- ARROW_AWSSDK_BUILD_SHA256_CHECKSUM: d6c495bc06be5e21dac716571305d77437e7cfd62a2226b8fe48d9ab5785a8d6 -- ARROW_AWS_CHECKSUMS_BUILD_VERSION: v0.1.12 -- ARROW_AWS_CHECKSUMS_BUILD_SHA256_CHECKSUM: 394723034b81cc7cd528401775bc7aca2b12c7471c92350c80a0e2fb9d2909fe -- ARROW_AWS_C_COMMON_BUILD_VERSION: v0.6.9 -- ARROW_AWS_C_COMMON_BUILD_SHA256_CHECKSUM: 928a3e36f24d1ee46f9eec360ec5cebfe8b9b8994fe39d4fa74ff51aebb12717 -- ARROW_AWS_C_EVENT_STREAM_BUILD_VERSION: v0.1.5 -- ARROW_AWS_C_EVENT_STREAM_BUILD_SHA256_CHECKSUM: f1b423a487b5d6dca118bfc0d0c6cc596dc476b282258a3228e73a8f730422d4 -- ARROW_BOOST_BUILD_VERSION: 1.75.0 -- ARROW_BOOST_BUILD_SHA256_CHECKSUM: 267e04a7c0bfe85daf796dedc789c3a27a76707e1c968f0a2a87bb96331e2b61 -- ARROW_BROTLI_BUILD_VERSION: v1.0.9 -- ARROW_BROTLI_BUILD_SHA256_CHECKSUM: f9e8d81d0405ba66d181529af42a3354f838c939095ff99930da6aa9cdf6fe46 -- ARROW_BZIP2_BUILD_VERSION: 1.0.8 -- ARROW_BZIP2_BUILD_SHA256_CHECKSUM: ab5a03176ee106d3f0fa90e381da478ddae405918153cca248e682cd0c4a2269 -- ARROW_CARES_BUILD_VERSION: 1.17.2 -- ARROW_CARES_BUILD_SHA256_CHECKSUM: 4803c844ce20ce510ef0eb83f8ea41fa24ecaae9d280c468c582d2bb25b3913d -- ARROW_CRC32C_BUILD_VERSION: 1.1.2 -- ARROW_CRC32C_BUILD_SHA256_CHECKSUM: ac07840513072b7fcebda6e821068aa04889018f24e10e46181068fb214d7e56 -- ARROW_GBENCHMARK_BUILD_VERSION: v1.6.0 -- ARROW_GBENCHMARK_BUILD_SHA256_CHECKSUM: 1f71c72ce08d2c1310011ea6436b31e39ccab8c2db94186d26657d41747c85d6 -- ARROW_GFLAGS_BUILD_VERSION: v2.2.2 -- ARROW_GFLAGS_BUILD_SHA256_CHECKSUM: 34af2f15cf7367513b352bdcd2493ab14ce43692d2dcd9dfc499492966c64dcf -- ARROW_GLOG_BUILD_VERSION: v0.5.0 -- ARROW_GLOG_BUILD_SHA256_CHECKSUM: eede71f28371bf39aa69b45de23b329d37214016e2055269b3b5e7cfd40b59f5 -- ARROW_GOOGLE_CLOUD_CPP_BUILD_VERSION: v1.39.0 -- ARROW_GOOGLE_CLOUD_CPP_BUILD_SHA256_CHECKSUM: 73e4e840018b24bec2beb49e036a3c2d8c471d4dc4a18b9026ccc4d8ab8e78cc -- ARROW_GRPC_BUILD_VERSION: v1.35.0 -- ARROW_GRPC_BUILD_SHA256_CHECKSUM: 27dd2fc5c9809ddcde8eb6fa1fa278a3486566dfc28335fca13eb8df8bd3b958 -- ARROW_GTEST_BUILD_VERSION: 1.11.0 -- ARROW_GTEST_BUILD_SHA256_CHECKSUM: b4870bf121ff7795ba20d20bcdd8627b8e088f2d1dab299a031c1034eddc93d5 -- ARROW_JEMALLOC_BUILD_VERSION: 5.2.1 -- ARROW_JEMALLOC_BUILD_SHA256_CHECKSUM: 34330e5ce276099e2e8950d9335db5a875689a4c6a56751ef3b1d8c537f887f6 -- ARROW_LZ4_BUILD_VERSION: 8f61d8eb7c6979769a484cde8df61ff7c4c77765 -- ARROW_LZ4_BUILD_SHA256_CHECKSUM: 5b072d848f2f93fddb97e1143e22c1bd7fa19fc8431ee69e21758190a88125b4 -- ARROW_MIMALLOC_BUILD_VERSION: v1.7.3 -- ARROW_MIMALLOC_BUILD_SHA256_CHECKSUM: 0f987bda01ca9df87ec90e9d98c63fa893ee61f3cca565e5ca5ed744fdcc5109 -- ARROW_NLOHMANN_JSON_BUILD_VERSION: v3.10.2 -- ARROW_NLOHMANN_JSON_BUILD_SHA256_CHECKSUM: 081ed0f9f89805c2d96335c3acfa993b39a0a5b4b4cef7edb68dd2210a13458c -- ARROW_OPENTELEMETRY_BUILD_VERSION: v1.3.0 -- ARROW_OPENTELEMETRY_BUILD_SHA256_CHECKSUM: 6a4c43b9c9f753841ebc0fe2717325271f02e2a1d5ddd0b52735c35243629ab3 -- ARROW_OPENTELEMETRY_PROTO_BUILD_VERSION: v0.11.0 -- ARROW_OPENTELEMETRY_PROTO_BUILD_SHA256_CHECKSUM: 985367f8905e91018e636cbf0d83ab3f834b665c4f5899a27d10cae9657710e2 -- ARROW_ORC_BUILD_VERSION: 1.7.3 -- ARROW_ORC_BUILD_SHA256_CHECKSUM: 535c4d7588172e85b8fc941cd0575d67f2155a55e4cd65d87d5b194b0bb28a31 -- ARROW_PROTOBUF_BUILD_VERSION: v3.18.1 -- ARROW_PROTOBUF_BUILD_SHA256_CHECKSUM: b8ab9bbdf0c6968cf20060794bc61e231fae82aaf69d6e3577c154181991f576 -- ARROW_RAPIDJSON_BUILD_VERSION: 1a803826f1197b5e30703afe4b9c0e7dd48074f5 -- ARROW_RAPIDJSON_BUILD_SHA256_CHECKSUM: 0b6b780b6c534bfb0b23d29910bfe361e486bcfeaf106db8bc8995792072905a -- ARROW_RE2_BUILD_VERSION: 2021-11-01 -- ARROW_RE2_BUILD_SHA256_CHECKSUM: 8c45f7fba029ab41f2a7e6545058d9eec94eef97ce70df58e92d85cfc08b4669 -- ARROW_SNAPPY_BUILD_VERSION: 1.1.9 -- ARROW_SNAPPY_BUILD_SHA256_CHECKSUM: 75c1fbb3d618dd3a0483bff0e26d0a92b495bbe5059c8b4f1c962b478b6e06e7 -- ARROW_SNAPPY_OLD_BUILD_VERSION: 1.1.8 -- ARROW_SNAPPY_OLD_BUILD_SHA256_CHECKSUM: 16b677f07832a612b0836178db7f374e414f94657c138e6993cbfc5dcc58651f -- ARROW_SUBSTRAIT_BUILD_VERSION: e1b4c04a -- ARROW_SUBSTRAIT_BUILD_SHA256_CHECKSUM: 65f83e5f5d979ede5fc8ac9f8bbaf793e0c72d9c415f1a162ba522f6d0bb5bbe -- ARROW_THRIFT_BUILD_VERSION: 0.13.0 -- ARROW_THRIFT_BUILD_SHA256_CHECKSUM: 7ad348b88033af46ce49148097afe354d513c1fca7c607b59c33ebb6064b5179 -- ARROW_UTF8PROC_BUILD_VERSION: v2.7.0 -- ARROW_UTF8PROC_BUILD_SHA256_CHECKSUM: 4bb121e297293c0fd55f08f83afab6d35d48f0af4ecc07523ad8ec99aa2b12a1 -- ARROW_XSIMD_BUILD_VERSION: 7d1778c3b38d63db7cec7145d939f40bc5d859d1 -- ARROW_XSIMD_BUILD_SHA256_CHECKSUM: d861f4f3034550cdc62ad93fd60e8b0f2413a6ea49081c8698922b7b4f043ec6 -- ARROW_ZLIB_BUILD_VERSION: 1.2.12 -- ARROW_ZLIB_BUILD_SHA256_CHECKSUM: 91844808532e5ce316b3c010929493c0244f3d37593afd6de04f71821d5136d9 -- ARROW_ZSTD_BUILD_VERSION: v1.5.1 -- ARROW_ZSTD_BUILD_SHA256_CHECKSUM: dc05773342b28f11658604381afd22cb0a13e8ba17ff2bd7516df377060c18dd -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Check if compiler accepts -pthread -- Check if compiler accepts -pthread - yes -- Found Threads: TRUE -- Checking for module 'thrift' -- Package 'thrift', required by 'virtual:world', not found -- Could NOT find Thrift: Found unsuitable version "", but required is at least "0.11.0" (found THRIFT_LIB-NOTFOUND) -- Looking for _M_ARM64 -- Looking for _M_ARM64 - not found -- Looking for __SIZEOF_INT128__ -- Looking for __SIZEOF_INT128__ - found -- Could NOT find Boost (missing: Boost_INCLUDE_DIR system filesystem) (Required is at least version "1.58") -- Boost include dir: /home/ruser/arrow79/boost_ep-prefix/src/boost_ep -- Boost libraries: boost_system_static;boost_filesystem_static -- Could NOT find Snappy (missing: Snappy_LIB) -- Building snappy from source -- Building without OpenSSL support. Minimum OpenSSL version 1.0.2 required. Building Apache Thrift from source -- Building (vendored) jemalloc from source -- Building (vendored) mimalloc from source CMake Warning at cmake_modules/FindRapidJSONAlt.cmake:25 (find_package): By not providing "FindRapidJSON.cmake" in CMAKE_MODULE_PATH this project has asked CMake to find a package configuration file provided by "RapidJSON", but CMake did not find one. Could not find a package configuration file provided by "RapidJSON" (requested version 1.1.0) with any of the following names: RapidJSONConfig.cmake rapidjson-config.cmake Add the installation prefix of "RapidJSON" to CMAKE_PREFIX_PATH or set "RapidJSON_DIR" to a directory containing one of the above files. If "RapidJSON" provides a separate development package or SDK, be sure it has been installed. Call Stack (most recent call first): cmake_modules/ThirdpartyToolchain.cmake:237 (find_package) cmake_modules/ThirdpartyToolchain.cmake:2123 (resolve_dependency) CMakeLists.txt:552 (include) -- Could NOT find RapidJSONAlt (missing: RAPIDJSON_INCLUDE_DIR) (Required is at least version "1.1.0") -- Building RapidJSON from source -- Building xsimd from source -- Checking for module 'liblz4' -- Found liblz4, version 1.8.3 -- Found Lz4: /usr/lib64/liblz4.so -- Providing CMake module for Lz4 CMake Warning at cmake_modules/Findre2Alt.cmake:25 (find_package): By not providing "Findre2.cmake" in CMAKE_MODULE_PATH this project has asked CMake to find a package configuration file provided by "re2", but CMake did not find one. Could not find a package configuration file provided by "re2" with any of the following names: re2Config.cmake re2-config.cmake Add the installation prefix of "re2" to CMAKE_PREFIX_PATH or set "re2_DIR" to a directory containing one of the above files. If "re2" provides a separate development package or SDK, be sure it has been installed. Call Stack (most recent call first): cmake_modules/ThirdpartyToolchain.cmake:237 (find_package) cmake_modules/ThirdpartyToolchain.cmake:2397 (resolve_dependency) CMakeLists.txt:552 (include) -- Checking for module 're2' -- Found re2, version 0.0.0 -- Found re2Alt: /usr/lib64/libre2.so -- Providing CMake module for re2Alt -- Could NOT find utf8proc: Found unsuitable version "", but required is at least "2.2.0" (found utf8proc_LIB-NOTFOUND) -- Building utf8proc from source -- Found hdfs.h at: /tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/tools/cpp/thirdparty/hadoop/include/hdfs.h -- All bundled static libraries: Snappy::snappy;thrift::thrift;jemalloc::jemalloc;mimalloc::mimalloc;utf8proc::utf8proc -- CMAKE_C_FLAGS: -O3 -DNDEBUG -Wall -fno-semantic-interposition -msse4.2 -- CMAKE_CXX_FLAGS: -Wno-noexcept-type -fdiagnostics-color=always -O3 -DNDEBUG -Wall -fno-semantic-interposition -msse4.2 -- Looking for backtrace -- Looking for backtrace - found -- backtrace facility detected in default set of libraries -- Found Backtrace: /usr/include -- Creating bundled static library target arrow_bundled_dependencies at /home/ruser/arrow79/release/libarrow_bundled_dependencies.a -- --------------------------------------------------------------------- -- Arrow version: 8.0.0 -- -- Build configuration summary: -- Generator: Unix Makefiles -- Build type: RELEASE -- Source directory: /tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/tools/cpp -- Install prefix: /tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/libarrow/arrow-8.0.0 -- -- Compile and link options: -- -- ARROW_CXXFLAGS="" [default=""] -- Compiler flags to append when compiling Arrow -- ARROW_BUILD_STATIC=ON [default=ON] -- Build static libraries -- ARROW_BUILD_SHARED=OFF [default=ON] -- Build shared libraries -- ARROW_PACKAGE_KIND="" [default=""] -- Arbitrary string that identifies the kind of package -- (for informational purposes) -- ARROW_GIT_ID="" [default=""] -- The Arrow git commit id (if any) -- ARROW_GIT_DESCRIPTION="" [default=""] -- The Arrow git commit description (if any) -- ARROW_NO_DEPRECATED_API=OFF [default=OFF] -- Exclude deprecated APIs from build -- ARROW_USE_CCACHE=ON [default=ON] -- Use ccache when compiling (if available) -- ARROW_USE_LD_GOLD=OFF [default=OFF] -- Use ld.gold for linking on Linux (if available) -- ARROW_USE_PRECOMPILED_HEADERS=OFF [default=OFF] -- Use precompiled headers when compiling -- ARROW_SIMD_LEVEL=SSE4_2 [default=NONE|SSE4_2|AVX2|AVX512|NEON|DEFAULT] -- Compile-time SIMD optimization level -- ARROW_RUNTIME_SIMD_LEVEL=MAX [default=NONE|SSE4_2|AVX2|AVX512|MAX] -- Max runtime SIMD optimization level -- ARROW_ARMV8_ARCH=armv8-a [default=armv8-a|armv8-a+crc+crypto] -- Arm64 arch and extensions -- ARROW_ALTIVEC=ON [default=ON] -- Build with Altivec if compiler has support -- ARROW_RPATH_ORIGIN=OFF [default=OFF] -- Build Arrow libraries with RATH set to $ORIGIN -- ARROW_INSTALL_NAME_RPATH=ON [default=ON] -- Build Arrow libraries with install_name set to @rpath -- ARROW_GGDB_DEBUG=ON [default=ON] -- Pass -ggdb flag to debug builds -- -- Test and benchmark options: -- -- ARROW_BUILD_EXAMPLES=OFF [default=OFF] -- Build the Arrow examples -- ARROW_BUILD_TESTS=OFF [default=OFF] -- Build the Arrow googletest unit tests -- ARROW_ENABLE_TIMING_TESTS=ON [default=ON] -- Enable timing-sensitive tests -- ARROW_BUILD_INTEGRATION=OFF [default=OFF] -- Build the Arrow integration test executables -- ARROW_BUILD_BENCHMARKS=OFF [default=OFF] -- Build the Arrow micro benchmarks -- ARROW_BUILD_BENCHMARKS_REFERENCE=OFF [default=OFF] -- Build the Arrow micro reference benchmarks -- ARROW_BUILD_OPENMP_BENCHMARKS=OFF [default=OFF] -- Build the Arrow benchmarks that rely on OpenMP -- ARROW_BUILD_DETAILED_BENCHMARKS=OFF [default=OFF] -- Build benchmarks that do a longer exploration of performance -- ARROW_TEST_LINKAGE=static [default=shared|static] -- Linkage of Arrow libraries with unit tests executables. -- ARROW_FUZZING=OFF [default=OFF] -- Build Arrow Fuzzing executables -- ARROW_LARGE_MEMORY_TESTS=OFF [default=OFF] -- Enable unit tests which use large memory -- -- Lint options: -- -- ARROW_ONLY_LINT=OFF [default=OFF] -- Only define the lint and check-format targets -- ARROW_VERBOSE_LINT=OFF [default=OFF] -- If off, 'quiet' flags will be passed to linting tools -- ARROW_GENERATE_COVERAGE=OFF [default=OFF] -- Build with C++ code coverage enabled -- -- Checks options: -- -- ARROW_TEST_MEMCHECK=OFF [default=OFF] -- Run the test suite using valgrind --tool=memcheck -- ARROW_USE_ASAN=OFF [default=OFF] -- Enable Address Sanitizer checks -- ARROW_USE_TSAN=OFF [default=OFF] -- Enable Thread Sanitizer checks -- ARROW_USE_UBSAN=OFF [default=OFF] -- Enable Undefined Behavior sanitizer checks -- -- Project component options: -- -- ARROW_BUILD_UTILITIES=OFF [default=OFF] -- Build Arrow commandline utilities -- ARROW_COMPUTE=ON [default=OFF] -- Build the Arrow Compute Modules -- ARROW_CSV=ON [default=OFF] -- Build the Arrow CSV Parser Module -- ARROW_CUDA=OFF [default=OFF] -- Build the Arrow CUDA extensions (requires CUDA toolkit) -- ARROW_DATASET=ON [default=OFF] -- Build the Arrow Dataset Modules -- ARROW_SUBSTRAIT=OFF [default=OFF] -- Build the Arrow Substrait Consumer Module -- ARROW_FILESYSTEM=ON [default=OFF] -- Build the Arrow Filesystem Layer -- ARROW_FLIGHT=OFF [default=OFF] -- Build the Arrow Flight RPC System (requires GRPC, Protocol Buffers) -- ARROW_FLIGHT_SQL=OFF [default=OFF] -- Build the Arrow Flight SQL extension -- ARROW_GANDIVA=OFF [default=OFF] -- Build the Gandiva libraries -- ARROW_GCS=OFF [default=OFF] -- Build Arrow with GCS support (requires the GCloud SDK for C++) -- ARROW_HDFS=OFF [default=OFF] -- Build the Arrow HDFS bridge -- ARROW_HIVESERVER2=OFF [default=OFF] -- Build the HiveServer2 client and Arrow adapter -- ARROW_IPC=ON [default=ON] -- Build the Arrow IPC extensions -- ARROW_JEMALLOC=ON [default=ON] -- Build the Arrow jemalloc-based allocator -- ARROW_JNI=OFF [default=OFF] -- Build the Arrow JNI lib -- ARROW_JSON=ON [default=OFF] -- Build Arrow with JSON support (requires RapidJSON) -- ARROW_MIMALLOC=ON [default=OFF] -- Build the Arrow mimalloc-based allocator -- ARROW_PARQUET=ON [default=OFF] -- Build the Parquet libraries -- ARROW_ORC=OFF [default=OFF] -- Build the Arrow ORC adapter -- ARROW_PLASMA=OFF [default=OFF] -- Build the plasma object store along with Arrow -- ARROW_PLASMA_JAVA_CLIENT=OFF [default=OFF] -- Build the plasma object store java client -- ARROW_PYTHON=OFF [default=OFF] -- Build the Arrow CPython extensions -- ARROW_S3=OFF [default=OFF] -- Build Arrow with S3 support (requires the AWS SDK for C++) -- ARROW_SKYHOOK=OFF [default=OFF] -- Build the Skyhook libraries -- ARROW_TENSORFLOW=OFF [default=OFF] -- Build Arrow with TensorFlow support enabled -- ARROW_TESTING=OFF [default=OFF] -- Build the Arrow testing libraries -- -- Thirdparty toolchain options: -- -- ARROW_DEPENDENCY_SOURCE=AUTO [default=AUTO|BUNDLED|SYSTEM|CONDA|VCPKG|BREW] -- Method to use for acquiring arrow's build dependencies -- ARROW_VERBOSE_THIRDPARTY_BUILD=OFF [default=OFF] -- Show output from ExternalProjects rather than just logging to files -- ARROW_DEPENDENCY_USE_SHARED=ON [default=ON] -- Link to shared libraries -- ARROW_BOOST_USE_SHARED=OFF [default=ON] -- Rely on boost shared libraries where relevant -- ARROW_BROTLI_USE_SHARED=ON [default=ON] -- Rely on Brotli shared libraries where relevant -- ARROW_BZ2_USE_SHARED=ON [default=ON] -- Rely on Bz2 shared libraries where relevant -- ARROW_GFLAGS_USE_SHARED=ON [default=ON] -- Rely on GFlags shared libraries where relevant -- ARROW_GRPC_USE_SHARED=ON [default=ON] -- Rely on gRPC shared libraries where relevant -- ARROW_LZ4_USE_SHARED=ON [default=ON] -- Rely on lz4 shared libraries where relevant -- ARROW_OPENSSL_USE_SHARED=ON [default=ON] -- Rely on OpenSSL shared libraries where relevant -- ARROW_PROTOBUF_USE_SHARED=ON [default=ON] -- Rely on Protocol Buffers shared libraries where relevant -- ARROW_THRIFT_USE_SHARED=ON [default=ON] -- Rely on thrift shared libraries where relevant -- ARROW_UTF8PROC_USE_SHARED=ON [default=ON] -- Rely on utf8proc shared libraries where relevant -- ARROW_SNAPPY_USE_SHARED=ON [default=ON] -- Rely on snappy shared libraries where relevant -- ARROW_UTF8PROC_USE_SHARED=ON [default=ON] -- Rely on utf8proc shared libraries where relevant -- ARROW_ZSTD_USE_SHARED=ON [default=ON] -- Rely on zstd shared libraries where relevant -- ARROW_USE_GLOG=OFF [default=OFF] -- Build libraries with glog support for pluggable logging -- ARROW_WITH_BACKTRACE=ON [default=ON] -- Build with backtrace support -- ARROW_WITH_OPENTELEMETRY=OFF [default=OFF] -- Build libraries with OpenTelemetry support for distributed tracing -- ARROW_WITH_BROTLI=OFF [default=OFF] -- Build with Brotli compression -- ARROW_WITH_BZ2=OFF [default=OFF] -- Build with BZ2 compression -- ARROW_WITH_LZ4=ON [default=OFF] -- Build with lz4 compression -- ARROW_WITH_SNAPPY=ON [default=OFF] -- Build with Snappy compression -- ARROW_WITH_ZLIB=OFF [default=OFF] -- Build with zlib compression -- ARROW_WITH_ZSTD=OFF [default=OFF] -- Build with zstd compression -- ARROW_WITH_UCX=OFF [default=OFF] -- Build with UCX transport for Arrow Flight -- (only used if ARROW_FLIGHT is ON) -- ARROW_WITH_UTF8PROC=ON [default=ON] -- Build with support for Unicode properties using the utf8proc library -- (only used if ARROW_COMPUTE is ON or ARROW_GANDIVA is ON) -- ARROW_WITH_RE2=ON [default=ON] -- Build with support for regular expressions using the re2 library -- (only used if ARROW_COMPUTE or ARROW_GANDIVA is ON) -- -- Parquet options: -- -- PARQUET_MINIMAL_DEPENDENCY=OFF [default=OFF] -- Depend only on Thirdparty headers to build libparquet. -- Always OFF if building binaries -- PARQUET_BUILD_EXECUTABLES=OFF [default=OFF] -- Build the Parquet executable CLI tools. Requires static libraries to be built. -- PARQUET_BUILD_EXAMPLES=OFF [default=OFF] -- Build the Parquet examples. Requires static libraries to be built. -- PARQUET_REQUIRE_ENCRYPTION=OFF [default=OFF] -- Build support for encryption. Fail if OpenSSL is not found -- -- Gandiva options: -- -- ARROW_GANDIVA_JAVA=OFF [default=OFF] -- Build the Gandiva JNI wrappers -- ARROW_GANDIVA_STATIC_LIBSTDCPP=OFF [default=OFF] -- Include -static-libstdc++ -static-libgcc when linking with -- Gandiva static libraries -- ARROW_GANDIVA_PC_CXX_FLAGS="" [default=""] -- Compiler flags to append when pre-compiling Gandiva operations -- -- Advanced developer options: -- -- ARROW_EXTRA_ERROR_CONTEXT=OFF [default=OFF] -- Compile with extra error context (line numbers, code) -- ARROW_OPTIONAL_INSTALL=OFF [default=OFF] -- If enabled install ONLY targets that have already been built. Please be -- advised that if this is enabled 'install' will fail silently on components -- that have not been built -- Outputting build configuration summary to /home/ruser/arrow79/cmake_summary.json -- Configuring done -- Generating done -- Build files have been written to: /home/ruser/arrow79 + /bin/cmake --build . --target install [ 1%] Creating directories for 'utf8proc_ep' [ 1%] Creating directories for 'boost_ep' [ 1%] Performing download step (download, verify and extract) for 'boost_ep' [ 1%] Performing download step (download, verify and extract) for 'utf8proc_ep' -- utf8proc_ep download command succeeded. See also /home/ruser/arrow79/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-download-*.log [ 1%] No update step for 'utf8proc_ep' [ 1%] No patch step for 'utf8proc_ep' [ 2%] Performing configure step for 'utf8proc_ep' -- utf8proc_ep configure command succeeded. See also /home/ruser/arrow79/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-configure-*.log [ 2%] Performing build step for 'utf8proc_ep' -- utf8proc_ep build command succeeded. See also /home/ruser/arrow79/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-build-*.log [ 2%] Performing install step for 'utf8proc_ep' -- utf8proc_ep install command succeeded. See also /home/ruser/arrow79/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-install-*.log [ 2%] Completed 'utf8proc_ep' [ 2%] Built target utf8proc_ep [ 2%] Creating directories for 'jemalloc_ep' [ 2%] Performing download step (download, verify and extract) for 'jemalloc_ep' -- jemalloc_ep download command succeeded. See also /home/ruser/arrow79/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-download-*.log [ 2%] No update step for 'jemalloc_ep' [ 3%] Performing patch step for 'jemalloc_ep' [ 4%] Performing configure step for 'jemalloc_ep' CMake Error at /home/ruser/arrow79/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-configure-RELEASE.cmake:37 (message): Command failed: 1 './configure' 'AR=/bin/ar' 'CC=/bin/gcc' '--prefix=/home/ruser/arrow79/jemalloc_ep-prefix/src/jemalloc_ep/dist/' '--libdir=/home/ruser/arrow79/jemalloc_ep-prefix/src/jemalloc_ep/dist//lib' '--with-jemalloc-prefix=je_arrow_' '--with-private-namespace=je_arrow_private_' '--without-export' '--disable-shared' '--disable-cxx' '--disable-libdl' '--disable-initial-exec-tls' See also /home/ruser/arrow79/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-configure-*.log -- stdout output is: checking for xsltproc... /home/ruser/anaconda3/bin/xsltproc checking for gcc... /bin/gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... -- stderr output is: configure: error: in `/home/ruser/arrow79/jemalloc_ep-prefix/src/jemalloc_ep': configure: error: cannot run C compiled programs. If you meant to cross compile, use `--host'. See `config.log' for more details CMake Error at /home/ruser/arrow79/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-configure-RELEASE.cmake:47 (message): Stopping after outputting logs. make[2]: *** [CMakeFiles/jemalloc_ep.dir/build.make:92: jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-configure] Error 1 make[1]: *** [CMakeFiles/Makefile2:903: CMakeFiles/jemalloc_ep.dir/all] Error 2 make[1]: *** Waiting for unfinished jobs.... -- boost_ep download command succeeded. See also /home/ruser/arrow79/boost_ep-prefix/src/boost_ep-stamp/boost_ep-download-*.log [ 5%] No update step for 'boost_ep' [ 5%] No patch step for 'boost_ep' [ 5%] No configure step for 'boost_ep' [ 5%] No build step for 'boost_ep' [ 6%] No install step for 'boost_ep' [ 7%] Completed 'boost_ep' [ 7%] Built target boost_ep gmake: *** [Makefile:146: all] Error 2 **** Error building Arrow C++. PKG_CFLAGS=-I/tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/libarrow/arrow-8.0.0/include -DARROW_R_WITH_ARROW PKG_LIBS= -larrow ** libs g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/Rtmp3EjzMc/R.INSTALL3272e67a14bb5/arrow/libarrow/arrow-8.0.0/include -DARROW_R_WITH_ARROW -I'/home/ruser/R/x86_64-pc-linux-gnu-librar y/4.1/cpp11/include' -I/usr/local/include -fpic -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord- gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protec tion -c RTasks.cpp -o RTasks.o