[R] installation failure on CentOS 7 #24751
Comments
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Neal Richardson / @nealrichardson: To debug the first issue, could you please set the environment variable To debug the second, could you please tell me what A workaround will be to set |
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Hei: Here is the output: > install.packages("arrow")
Installing package into ‘/home/hc/R/x86_64-redhat-linux-gnu-library/3.6’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/src/contrib/arrow_0.17.0.tar.gz'
Content type 'application/x-gzip' length 242534 bytes (236 KB)
==================================================
downloaded 236 KB
* installing *source* package ‘arrow’ ...
** package ‘arrow’ successfully unpacked and MD5 sums checked
** using staged installation
*** Generating code with data-raw/codegen.R
Fatal error: cannot open file 'data-raw/codegen.R': No such file or directory
trying URL 'https://dl.bintray.com/ursalabs/arrow-r/libarrow/src/arrow-0.17.0.zip'
Error in download.file(from_url, to_file, quiet = quietly) :
cannot open URL 'https://dl.bintray.com/ursalabs/arrow-r/libarrow/src/arrow-0.17.0.zip'
trying URL 'https://www.apache.org/dyn/closer.lua?action=download&filename=arrow/arrow-0.17.0/apache-arrow-0.17.0.tar.gz'
Content type 'application/x-gzip' length 6460548 bytes (6.2 MB)
==================================================
downloaded 6.2 MB
*** Successfully retrieved C++ source
*** Building C++ libraries
rm: cannot remove ‘src/*.o’: No such file or directory
*** Building with MAKEFLAGS= -j2
**** cmake
trying URL 'https://github.com/Kitware/CMake/releases/download/v3.16.2/cmake-3.16.2-Linux-x86_64.tar.gz'
Content type 'application/octet-stream' length 39508533 bytes (37.7 MB)
==================================================
downloaded 37.7 MB
**** arrow with SOURCE_DIR=/tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/cpp BUILD_DIR=/tmp/RtmpFm22he/file197f76cef765 DEST_DIR=libarrow/arrow-0.17.0 CMAKE=/tmp/RtmpFm22he/file197f10953f3a/cmake-3.16.2-Linux-x86_64/bin/cmake
++ pwd
+ : /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow
+ : /tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/cpp
+ : /tmp/RtmpFm22he/file197f76cef765
+ : libarrow/arrow-0.17.0
+ : /tmp/RtmpFm22he/file197f10953f3a/cmake-3.16.2-Linux-x86_64/bin/cmake
++ cd /tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/cpp
++ pwd
+ SOURCE_DIR=/tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/cpp
++ mkdir -p libarrow/arrow-0.17.0
++ cd libarrow/arrow-0.17.0
++ pwd
+ DEST_DIR=/tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/libarrow/arrow-0.17.0
+ '[' '' = '' ']'
+ which ninja
+ '[' '' = false ']'
+ mkdir -p /tmp/RtmpFm22he/file197f76cef765
+ pushd /tmp/RtmpFm22he/file197f76cef765
/tmp/RtmpFm22he/file197f76cef765 /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow
+ /tmp/RtmpFm22he/file197f10953f3a/cmake-3.16.2-Linux-x86_64/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_SOURCE=AUTO -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=ON -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_WITH_LZ4=OFF -DARROW_WITH_SNAPPY=OFF -DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_LIBDIR=lib -DCMAKE_INSTALL_PREFIX=/tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/libarrow/arrow-0.17.0 -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_UNITY_BUILD=ON -DOPENSSL_USE_STATIC_LIBS=ON -G 'Unix Makefiles' /tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/cpp
-- Building using CMake version: 3.16.2
-- The C compiler identification is GNU 8.3.1
-- The CXX compiler identification is GNU 8.3.1
-- Check for working C compiler: /opt/rh/devtoolset-8/root/usr/bin/cc
-- Check for working C compiler: /opt/rh/devtoolset-8/root/usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /opt/rh/devtoolset-8/root/usr/bin/c++
-- Check for working CXX compiler: /opt/rh/devtoolset-8/root/usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Arrow version: 0.17.0 (full: '0.17.0')
-- Arrow SO version: 17 (full: 17.0.0)
-- Found PkgConfig: /usr/bin/pkg-config (found version "0.27.1")
-- clang-tidy not found
-- clang-format not found
-- Could NOT find ClangTools (missing: CLANG_FORMAT_BIN CLANG_TIDY_BIN)
-- infer not found
-- Found Python3: /usr/bin/python3.6 (found version "3.6.8") found components: Interpreter
-- Found cpplint executable at /tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/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
-- Using AUTO approach to find dependencies
-- ARROW_AWSSDK_BUILD_VERSION: 1.7.160
-- ARROW_BOOST_BUILD_VERSION: 1.71.0
-- ARROW_BROTLI_BUILD_VERSION: v1.0.7
-- ARROW_BZIP2_BUILD_VERSION: 1.0.8
-- ARROW_CARES_BUILD_VERSION: 1.15.0
-- ARROW_GBENCHMARK_BUILD_VERSION: v1.5.0
-- ARROW_GFLAGS_BUILD_VERSION: v2.2.0
-- ARROW_GLOG_BUILD_VERSION: v0.3.5
-- ARROW_GRPC_BUILD_VERSION: v1.25.0
-- ARROW_GTEST_BUILD_VERSION: 1.8.1
-- ARROW_JEMALLOC_BUILD_VERSION: 5.2.1
-- ARROW_LZ4_BUILD_VERSION: v1.9.2
-- ARROW_MIMALLOC_BUILD_VERSION: 270e765454f98e8bab9d42609b153425f749fff6
-- ARROW_ORC_BUILD_VERSION: 1.6.2
-- ARROW_PROTOBUF_BUILD_VERSION: v3.7.1
-- ARROW_RAPIDJSON_BUILD_VERSION: 2bbd33b33217ff4a73434ebf10cdac41e2ef5e34
-- ARROW_RE2_BUILD_VERSION: 2019-08-01
-- ARROW_SNAPPY_BUILD_VERSION: 1.1.7
-- ARROW_THRIFT_BUILD_VERSION: 0.12.0
-- ARROW_THRIFT_BUILD_MD5_CHECKSUM: 3deebbb4d1ca77dd9c9e009a1ea02183
-- ARROW_ZLIB_BUILD_VERSION: 1.2.11
-- ARROW_ZSTD_BUILD_VERSION: v1.4.3
-- 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'
-- No package 'thrift' found
-- Could NOT find Thrift: Found unsuitable version "", but required is at least "0.11.0" (found THRIFT_STATIC_LIB-NOTFOUND)
-- Found Boost: /opt/boost/lib/cmake/Boost-1.71.0/BoostConfig.cmake (found suitable version "1.71.0", minimum required is "1.58") found components: regex system filesystem
-- Boost include dir: /opt/boost/include
-- Boost libraries: Boost::system;Boost::filesystem
-- Building without OpenSSL support. Minimum OpenSSL version 1.0.2 required.
Building Apache Thrift from source
-- Building (vendored) jemalloc from source
-- Could NOT find RapidJSONAlt (missing: RAPIDJSON_INCLUDE_DIR) (Required is at least version "1.1.0")
-- Building rapidjson from source
-- Found hdfs.h at: /tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/cpp/thirdparty/hadoop/include/hdfs.h
-- CMAKE_C_FLAGS: -O3 -DNDEBUG -Wall -msse4.2
-- CMAKE_CXX_FLAGS: -Wno-noexcept-type -Wno-subobject-linkage -fdiagnostics-color=always -O3 -DNDEBUG -Wall -msse4.2
-- Looking for backtrace
-- Looking for backtrace - found
-- backtrace facility detected in default set of libraries
-- Found Backtrace: /usr/include
-- ---------------------------------------------------------------------
-- Arrow version: 0.17.0
--
-- Build configuration summary:
-- Generator: Unix Makefiles
-- Build type: RELEASE
-- Source directory: /tmp/RtmpFm22he/file197f1ee33abb/apache-arrow-0.17.0/cpp
-- Install prefix: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/libarrow/arrow-0.17.0
--
-- 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_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_USE_SIMD=ON [default=ON]
-- Build with SIMD optimizations
-- ARROW_SIMD_LEVEL=SSE4_2 [default=NONE|SSE4_2|AVX2|AVX512]
-- SIMD compiler 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_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_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_GANDIVA=OFF [default=OFF]
-- Build the Gandiva libraries
-- 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=OFF [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_TENSORFLOW=OFF [default=OFF]
-- Build Arrow with TensorFlow support enabled
--
-- Thirdparty toolchain options:
--
-- ARROW_DEPENDENCY_SOURCE=AUTO [default=AUTO|BUNDLED|SYSTEM|CONDA|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_BOOST_USE_SHARED=OFF [default=ON]
-- Rely on boost shared libraries where relevant
-- ARROW_PROTOBUF_USE_SHARED=ON [default=ON]
-- Rely on Protocol Buffers shared libraries where relevant
-- ARROW_GFLAGS_USE_SHARED=ON [default=ON]
-- Rely on GFlags shared libraries where relevant
-- ARROW_WITH_BACKTRACE=ON [default=ON]
-- Build with backtrace support
-- ARROW_USE_GLOG=OFF [default=OFF]
-- Build libraries with glog support for pluggable logging
-- ARROW_WITH_BROTLI=OFF [default=OFF]
-- Build with Brotli compression
-- ARROW_WITH_BZ2=OFF [default=OFF]
-- Build with BZ2 compression
-- ARROW_WITH_LZ4=OFF [default=OFF]
-- Build with lz4 compression
-- ARROW_WITH_SNAPPY=OFF [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
--
-- 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 /tmp/RtmpFm22he/file197f76cef765/cmake_summary.json
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
OPENSSL_USE_STATIC_LIBS
-- Build files have been written to: /tmp/RtmpFm22he/file197f76cef765
+ /tmp/RtmpFm22he/file197f10953f3a/cmake-3.16.2-Linux-x86_64/bin/cmake --build . --target install
Scanning dependencies of target jemalloc_ep
Scanning dependencies of target thrift_ep
[ 1%] Creating directories for 'jemalloc_ep'
[ 3%] Creating directories for 'thrift_ep'
[ 5%] Performing download step (download, verify and extract) for 'jemalloc_ep'
[ 7%] Performing download step (download, verify and extract) for 'thrift_ep'
-- thrift_ep download command succeeded. See also /tmp/RtmpFm22he/file197f76cef765/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-download-*.log
[ 9%] No patch step for 'thrift_ep'
[ 11%] No update step for 'thrift_ep'
[ 13%] Performing configure step for 'thrift_ep'
-- jemalloc_ep download command succeeded. See also /tmp/RtmpFm22he/file197f76cef765/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-download-*.log
[ 15%] Performing patch step for 'jemalloc_ep'
[ 16%] No update step for 'jemalloc_ep'
[ 18%] Performing configure step for 'jemalloc_ep'
-- thrift_ep configure command succeeded. See also /tmp/RtmpFm22he/file197f76cef765/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-configure-*.log
[ 20%] Performing build step for 'thrift_ep'
-- thrift_ep build command succeeded. See also /tmp/RtmpFm22he/file197f76cef765/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-build-*.log
[ 22%] Performing install step for 'thrift_ep'
CMake Error at /tmp/RtmpFm22he/file197f76cef765/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install-RELEASE.cmake:37 (message):
Command failed: 2
'make' 'install'
See also
/tmp/RtmpFm22he/file197f76cef765/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install-*.log
-- stdout output is:
-- stderr output is:
make[3]: *** No rule to make target `install'. Stop.
CMake Error at /tmp/RtmpFm22he/file197f76cef765/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install-RELEASE.cmake:47 (message):
Stopping after outputting logs.
make[2]: *** [thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install] Error 1
make[1]: *** [CMakeFiles/thrift_ep.dir/all] Error 2
make[1]: *** Waiting for unfinished jobs....
-- jemalloc_ep configure command succeeded. See also /tmp/RtmpFm22he/file197f76cef765/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-configure-*.log
[ 24%] Performing build step for 'jemalloc_ep'
-- jemalloc_ep build command succeeded. See also /tmp/RtmpFm22he/file197f76cef765/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-build-*.log
[ 26%] Performing install step for 'jemalloc_ep'
-- jemalloc_ep install command succeeded. See also /tmp/RtmpFm22he/file197f76cef765/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-install-*.log
[ 28%] Completed 'jemalloc_ep'
[ 28%] Built target jemalloc_ep
gmake: *** [all] Error 2
+ '[' 2 -ne 0 ']'
+ '[' '' '!=' '' ']'
+ xargs '-I{}' cp -u '{}' /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/libarrow/arrow-0.17.0/lib
+ find . -regex '.*/.*/lib/.*\.a$'
+ rm /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/libarrow/arrow-0.17.0/lib/libjemalloc.a
rm: cannot remove ‘/tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/libarrow/arrow-0.17.0/lib/libjemalloc.a’: Not a directory
+ true
+ '[' -f /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/libarrow/arrow-0.17.0/lib/libbrotlicommon-static.a ']'
+ popd
/tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow
./configure: line 132: cd: libarrow/arrow-0.17.0/lib: Not a directory
------------------------- NOTE ---------------------------
After installation, please run arrow::install_arrow()
for help installing required runtime libraries
---------------------------------------------------------
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array.cpp -o array.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_from_vector.cpp -o array_from_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_to_vector.cpp -o array_to_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arraydata.cpp -o arraydata.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arrowExports.cpp -o arrowExports.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c buffer.cpp -o buffer.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c chunkedarray.cpp -o chunkedarray.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compression.cpp -o compression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compute.cpp -o compute.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c csv.cpp -o csv.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c dataset.cpp -o dataset.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c datatype.cpp -o datatype.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c expression.cpp -o expression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c feather.cpp -o feather.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c field.cpp -o field.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c filesystem.cpp -o filesystem.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c io.cpp -o io.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c json.cpp -o json.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c memorypool.cpp -o memorypool.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c message.cpp -o message.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c parquet.cpp -o parquet.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c py-to-r.cpp -o py-to-r.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatch.cpp -o recordbatch.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchreader.cpp -o recordbatchreader.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchwriter.cpp -o recordbatchwriter.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c schema.cpp -o schema.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c symbols.cpp -o symbols.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c table.cpp -o table.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c threadpool.cpp -o threadpool.o
g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so array.o array_from_vector.o array_to_vector.o arraydata.o arrowExports.o buffer.o chunkedarray.o compression.o compute.o csv.o dataset.o datatype.o expression.o feather.o field.o filesystem.o io.o json.o memorypool.o message.o parquet.o py-to-r.o recordbatch.o recordbatchreader.o recordbatchwriter.o schema.o symbols.o table.o threadpool.o -L/usr/lib64/R/lib -lR
installing to /home/hc/R/x86_64-redhat-linux-gnu-library/3.6/00LOCK-arrow/00new/arrow/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘arrow’
finding HTML links ... done
ArrayData html
ChunkedArray html
Codec html
CsvReadOptions html
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/CsvReadOptions.Rd:61: file link ‘read.csv’ in package ‘utils’ does not exist and so has been treated as a topic
CsvTableReader html
DataType html
Dataset html
DictionaryType html
Expression html
FeatherReader html
Field html
FileFormat html
FileInfo html
FileSelector html
FileSystem html
FixedWidthType html
InputStream html
MemoryPool html
Message html
MessageReader html
OutputStream html
ParquetFileReader html
ParquetFileWriter html
ParquetReaderProperties html
ParquetWriterProperties html
Partitioning html
RecordBatch html
RecordBatchReader html
RecordBatchWriter html
Scanner html
Schema html
Table html
array html
arrow-package html
arrow_available html
buffer html
cast_options html
codec_is_available html
compression html
cpu_count html
data-type html
dataset_factory html
default_memory_pool html
dictionary html
enums html
hive_partition html
install_arrow html
install_pyarrow html
make_readable_file html
map_batches html
mmap_create html
mmap_open html
open_dataset html
read_delim_arrow html
read_feather html
read_ipc_stream html
read_json_arrow html
read_message html
read_parquet html
read_record_batch html
read_schema html
reexports html
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:24: file link ‘print.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:24: file link ‘str.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:26: file link ‘contains’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:26: file link ‘ends_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:26: file link ‘everything’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:26: file link ‘last_col’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:26: file link ‘matches’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:26: file link ‘num_range’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpgF1pnV/R.INSTALL195f36ddad48/arrow/man/reexports.Rd:26: file link ‘starts_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
type html
unify_schemas html
write_feather html
write_ipc_stream html
write_parquet html
write_to_raw html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (arrow)
The downloaded source packages are in
‘/tmp/RtmpGg5HdK/downloaded_packages’And $ lsb_release -rs
7.7.1908 |
|
Hei: I tried out your suggestion by setting LIBARROW_BINARY=centos-7 and then ran install.packages("arrow") to reinstall. Then I tried: > library(arrow)
Attaching package: ‘arrow’
The following object is masked from ‘package:utils’:
timestamp
> df <- read_parquet('/home/hc/my.10.level.20200331.2book.parquet')And then RStudio's session crashed with a popup saying, "R Session Abort. R encountered a fatal error. The session was terminated". There is no extra info in the console even I set ARROW_R_DEV=true. Restarting the session doesn't help – same error popup when loading the parquet file. Restarting rstudio client doesn't help neither. Here is my RStudio's version: > RStudio.Version()
$citation
To cite RStudio in publications use:
RStudio Team (2020). RStudio: Integrated Development for R. RStudio, Inc., Boston, MA URL http://www.rstudio.com/.
A BibTeX entry for LaTeX users is
@Manual{,
title = {RStudio: Integrated Development Environment for R},
author = {{RStudio Team}},
organization = {RStudio, Inc.},
address = {Boston, MA},
year = {2020},
url = {http://www.rstudio.com/},
}
$mode
[1] "desktop"
$version
[1] ‘1.2.5042’
$release_name
[1] "Double Marigold"I tried to load the same parquet file with python 3.6 to construct pandas dataframe, it works fine. Any idea? |
|
Neal Richardson / @nealrichardson:
|
|
Hei: And confirmed: $ which gcc
/usr/bin/gcc
$ /usr/bin/gcc --version
gcc (GCC) 4.8.5 20150623 (Red Hat 4.8.5-39)
Copyright (C) 2015 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
$ which g++
/usr/bin/g++
$ /usr/bin/g++ --version
g++ (GCC) 4.8.5 20150623 (Red Hat 4.8.5-39)
Copyright (C) 2015 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.I exported ARROW_R_DEV=true, EXTRA_CMAKE_ARGS="-DARROW_VERBOSE_THIRDPARTY_BUILD=ON", CC=/usr/bin/gcc and CXX=/usr/bin/g++ then I started rstudio to reinstall: > install.packages("arrow")
Installing package into ‘/home/hc/R/x86_64-redhat-linux-gnu-library/3.6’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/src/contrib/arrow_0.17.0.tar.gz'
Content type 'application/x-gzip' length 242534 bytes (236 KB)
==================================================
downloaded 236 KB
* installing *source* package ‘arrow’ ...
** package ‘arrow’ successfully unpacked and MD5 sums checked
** using staged installation
*** Generating code with data-raw/codegen.R
Fatal error: cannot open file 'data-raw/codegen.R': No such file or directory
trying URL 'https://dl.bintray.com/ursalabs/arrow-r/libarrow/src/arrow-0.17.0.zip'
Error in download.file(from_url, to_file, quiet = quietly) :
cannot open URL 'https://dl.bintray.com/ursalabs/arrow-r/libarrow/src/arrow-0.17.0.zip'
trying URL 'https://www.apache.org/dyn/closer.lua?action=download&filename=arrow/arrow-0.17.0/apache-arrow-0.17.0.tar.gz'
Content type 'application/x-gzip' length 6460548 bytes (6.2 MB)
==================================================
downloaded 6.2 MB
*** Successfully retrieved C++ source
*** Building C++ libraries
rm: cannot remove ‘src/*.o’: No such file or directory
*** Building with MAKEFLAGS= -j2
**** cmake
trying URL 'https://github.com/Kitware/CMake/releases/download/v3.16.2/cmake-3.16.2-Linux-x86_64.tar.gz'
Content type 'application/octet-stream' length 39508533 bytes (37.7 MB)
==================================================
downloaded 37.7 MB
**** arrow with SOURCE_DIR=/tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/cpp BUILD_DIR=/tmp/Rtmp0sOwrZ/file32d619777b1c DEST_DIR=libarrow/arrow-0.17.0 CMAKE=/tmp/Rtmp0sOwrZ/file32d658fc928d/cmake-3.16.2-Linux-x86_64/bin/cmake
++ pwd
+ : /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow
+ : /tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/cpp
+ : /tmp/Rtmp0sOwrZ/file32d619777b1c
+ : libarrow/arrow-0.17.0
+ : /tmp/Rtmp0sOwrZ/file32d658fc928d/cmake-3.16.2-Linux-x86_64/bin/cmake
++ cd /tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/cpp
++ pwd
+ SOURCE_DIR=/tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/cpp
++ mkdir -p libarrow/arrow-0.17.0
++ cd libarrow/arrow-0.17.0
++ pwd
+ DEST_DIR=/tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/libarrow/arrow-0.17.0
+ '[' '' = '' ']'
+ which ninja
+ '[' '' = false ']'
+ mkdir -p /tmp/Rtmp0sOwrZ/file32d619777b1c
+ pushd /tmp/Rtmp0sOwrZ/file32d619777b1c
/tmp/Rtmp0sOwrZ/file32d619777b1c /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow
+ /tmp/Rtmp0sOwrZ/file32d658fc928d/cmake-3.16.2-Linux-x86_64/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_SOURCE=AUTO -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=ON -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_WITH_LZ4=OFF -DARROW_WITH_SNAPPY=OFF -DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_LIBDIR=lib -DCMAKE_INSTALL_PREFIX=/tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/libarrow/arrow-0.17.0 -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_UNITY_BUILD=ON -DOPENSSL_USE_STATIC_LIBS=ON -G 'Unix Makefiles' /tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/cpp
-- Building using CMake version: 3.16.2
-- The C compiler identification is GNU 4.8.5
-- The CXX compiler identification is GNU 4.8.5
-- Check for working C compiler: /usr/bin/gcc
-- Check for working C compiler: /usr/bin/gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/g++
-- Check for working CXX compiler: /usr/bin/g++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Arrow version: 0.17.0 (full: '0.17.0')
-- Arrow SO version: 17 (full: 17.0.0)
-- Found PkgConfig: /usr/bin/pkg-config (found version "0.27.1")
-- clang-tidy not found
-- clang-format not found
-- Could NOT find ClangTools (missing: CLANG_FORMAT_BIN CLANG_TIDY_BIN)
-- infer not found
-- Found Python3: /usr/bin/python3.6 (found version "3.6.8") found components: Interpreter
-- Found cpplint executable at /tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/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 - Failed
-- Arrow build warning level: PRODUCTION
Using ld linker
Configured for RELEASE build (set with cmake -DCMAKE_BUILD_TYPE={release,debug,...})
-- Build Type: RELEASE
-- Using AUTO approach to find dependencies
-- ARROW_AWSSDK_BUILD_VERSION: 1.7.160
-- ARROW_BOOST_BUILD_VERSION: 1.71.0
-- ARROW_BROTLI_BUILD_VERSION: v1.0.7
-- ARROW_BZIP2_BUILD_VERSION: 1.0.8
-- ARROW_CARES_BUILD_VERSION: 1.15.0
-- ARROW_GBENCHMARK_BUILD_VERSION: v1.5.0
-- ARROW_GFLAGS_BUILD_VERSION: v2.2.0
-- ARROW_GLOG_BUILD_VERSION: v0.3.5
-- ARROW_GRPC_BUILD_VERSION: v1.25.0
-- ARROW_GTEST_BUILD_VERSION: 1.8.1
-- ARROW_JEMALLOC_BUILD_VERSION: 5.2.1
-- ARROW_LZ4_BUILD_VERSION: v1.9.2
-- ARROW_MIMALLOC_BUILD_VERSION: 270e765454f98e8bab9d42609b153425f749fff6
-- ARROW_ORC_BUILD_VERSION: 1.6.2
-- ARROW_PROTOBUF_BUILD_VERSION: v3.7.1
-- ARROW_RAPIDJSON_BUILD_VERSION: 2bbd33b33217ff4a73434ebf10cdac41e2ef5e34
-- ARROW_RE2_BUILD_VERSION: 2019-08-01
-- ARROW_SNAPPY_BUILD_VERSION: 1.1.7
-- ARROW_THRIFT_BUILD_VERSION: 0.12.0
-- ARROW_THRIFT_BUILD_MD5_CHECKSUM: 3deebbb4d1ca77dd9c9e009a1ea02183
-- ARROW_ZLIB_BUILD_VERSION: 1.2.11
-- ARROW_ZSTD_BUILD_VERSION: v1.4.3
-- 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'
-- No package 'thrift' found
-- Could NOT find Thrift: Found unsuitable version "", but required is at least "0.11.0" (found THRIFT_STATIC_LIB-NOTFOUND)
-- Found Boost: /opt/boost/lib/cmake/Boost-1.71.0/BoostConfig.cmake (found suitable version "1.71.0", minimum required is "1.58") found components: regex system filesystem
-- Boost include dir: /opt/boost/include
-- Boost libraries: Boost::system;Boost::filesystem
-- Building without OpenSSL support. Minimum OpenSSL version 1.0.2 required.
Building Apache Thrift from source
-- Building (vendored) jemalloc from source
-- Could NOT find RapidJSONAlt (missing: RAPIDJSON_INCLUDE_DIR) (Required is at least version "1.1.0")
-- Building rapidjson from source
-- Found hdfs.h at: /tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/cpp/thirdparty/hadoop/include/hdfs.h
-- CMAKE_C_FLAGS: -O3 -DNDEBUG -Wall -Wno-attributes -msse4.2
-- CMAKE_CXX_FLAGS: -Wno-subobject-linkage -O3 -DNDEBUG -Wall -Wno-attributes -msse4.2
-- Looking for backtrace
-- Looking for backtrace - found
-- backtrace facility detected in default set of libraries
-- Found Backtrace: /usr/include
-- ---------------------------------------------------------------------
-- Arrow version: 0.17.0
--
-- Build configuration summary:
-- Generator: Unix Makefiles
-- Build type: RELEASE
-- Source directory: /tmp/Rtmp0sOwrZ/file32d66ea5c11a/apache-arrow-0.17.0/cpp
-- Install prefix: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/libarrow/arrow-0.17.0
--
-- 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_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_USE_SIMD=ON [default=ON]
-- Build with SIMD optimizations
-- ARROW_SIMD_LEVEL=SSE4_2 [default=NONE|SSE4_2|AVX2|AVX512]
-- SIMD compiler 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_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_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_GANDIVA=OFF [default=OFF]
-- Build the Gandiva libraries
-- 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=OFF [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_TENSORFLOW=OFF [default=OFF]
-- Build Arrow with TensorFlow support enabled
--
-- Thirdparty toolchain options:
--
-- ARROW_DEPENDENCY_SOURCE=AUTO [default=AUTO|BUNDLED|SYSTEM|CONDA|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_BOOST_USE_SHARED=OFF [default=ON]
-- Rely on boost shared libraries where relevant
-- ARROW_PROTOBUF_USE_SHARED=ON [default=ON]
-- Rely on Protocol Buffers shared libraries where relevant
-- ARROW_GFLAGS_USE_SHARED=ON [default=ON]
-- Rely on GFlags shared libraries where relevant
-- ARROW_WITH_BACKTRACE=ON [default=ON]
-- Build with backtrace support
-- ARROW_USE_GLOG=OFF [default=OFF]
-- Build libraries with glog support for pluggable logging
-- ARROW_WITH_BROTLI=OFF [default=OFF]
-- Build with Brotli compression
-- ARROW_WITH_BZ2=OFF [default=OFF]
-- Build with BZ2 compression
-- ARROW_WITH_LZ4=OFF [default=OFF]
-- Build with lz4 compression
-- ARROW_WITH_SNAPPY=OFF [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
--
-- 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 /tmp/Rtmp0sOwrZ/file32d619777b1c/cmake_summary.json
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
OPENSSL_USE_STATIC_LIBS
-- Build files have been written to: /tmp/Rtmp0sOwrZ/file32d619777b1c
+ /tmp/Rtmp0sOwrZ/file32d658fc928d/cmake-3.16.2-Linux-x86_64/bin/cmake --build . --target install
Scanning dependencies of target thrift_ep
Scanning dependencies of target jemalloc_ep
[ 1%] Creating directories for 'jemalloc_ep'
[ 3%] Creating directories for 'thrift_ep'
[ 5%] Performing download step (download, verify and extract) for 'jemalloc_ep'
[ 7%] Performing download step (download, verify and extract) for 'thrift_ep'
-- thrift_ep download command succeeded. See also /tmp/Rtmp0sOwrZ/file32d619777b1c/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-download-*.log
[ 9%] No patch step for 'thrift_ep'
[ 11%] No update step for 'thrift_ep'
[ 13%] Performing configure step for 'thrift_ep'
-- jemalloc_ep download command succeeded. See also /tmp/Rtmp0sOwrZ/file32d619777b1c/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-download-*.log
[ 15%] Performing patch step for 'jemalloc_ep'
[ 16%] No update step for 'jemalloc_ep'
[ 18%] Performing configure step for 'jemalloc_ep'
-- thrift_ep configure command succeeded. See also /tmp/Rtmp0sOwrZ/file32d619777b1c/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-configure-*.log
[ 20%] Performing build step for 'thrift_ep'
-- thrift_ep build command succeeded. See also /tmp/Rtmp0sOwrZ/file32d619777b1c/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-build-*.log
[ 22%] Performing install step for 'thrift_ep'
CMake Error at /tmp/Rtmp0sOwrZ/file32d619777b1c/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install-RELEASE.cmake:37 (message):
Command failed: 2
'make' 'install'
See also
/tmp/Rtmp0sOwrZ/file32d619777b1c/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install-*.log
-- stdout output is:
-- stderr output is:
make[3]: *** No rule to make target `install'. Stop.
CMake Error at /tmp/Rtmp0sOwrZ/file32d619777b1c/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install-RELEASE.cmake:47 (message):
Stopping after outputting logs.
make[2]: *** [thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install] Error 1
make[1]: *** [CMakeFiles/thrift_ep.dir/all] Error 2
make[1]: *** Waiting for unfinished jobs....
-- jemalloc_ep configure command succeeded. See also /tmp/Rtmp0sOwrZ/file32d619777b1c/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-configure-*.log
[ 24%] Performing build step for 'jemalloc_ep'
-- jemalloc_ep build command succeeded. See also /tmp/Rtmp0sOwrZ/file32d619777b1c/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-build-*.log
[ 26%] Performing install step for 'jemalloc_ep'
-- jemalloc_ep install command succeeded. See also /tmp/Rtmp0sOwrZ/file32d619777b1c/jemalloc_ep-prefix/src/jemalloc_ep-stamp/jemalloc_ep-install-*.log
[ 28%] Completed 'jemalloc_ep'
[ 28%] Built target jemalloc_ep
gmake: *** [all] Error 2
+ '[' 2 -ne 0 ']'
+ '[' '' '!=' '' ']'
+ xargs '-I{}' cp -u '{}' /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/libarrow/arrow-0.17.0/lib
+ find . -regex '.*/.*/lib/.*\.a$'
+ rm /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/libarrow/arrow-0.17.0/lib/libjemalloc.a
rm: cannot remove ‘/tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/libarrow/arrow-0.17.0/lib/libjemalloc.a’: Not a directory
+ true
+ '[' -f /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/libarrow/arrow-0.17.0/lib/libbrotlicommon-static.a ']'
+ popd
/tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow
./configure: line 132: cd: libarrow/arrow-0.17.0/lib: Not a directory
------------------------- NOTE ---------------------------
After installation, please run arrow::install_arrow()
for help installing required runtime libraries
---------------------------------------------------------
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array.cpp -o array.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_from_vector.cpp -o array_from_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_to_vector.cpp -o array_to_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arraydata.cpp -o arraydata.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arrowExports.cpp -o arrowExports.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c buffer.cpp -o buffer.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c chunkedarray.cpp -o chunkedarray.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compression.cpp -o compression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compute.cpp -o compute.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c csv.cpp -o csv.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c dataset.cpp -o dataset.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c datatype.cpp -o datatype.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c expression.cpp -o expression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c feather.cpp -o feather.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c field.cpp -o field.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c filesystem.cpp -o filesystem.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c io.cpp -o io.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c json.cpp -o json.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c memorypool.cpp -o memorypool.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c message.cpp -o message.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c parquet.cpp -o parquet.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c py-to-r.cpp -o py-to-r.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatch.cpp -o recordbatch.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchreader.cpp -o recordbatchreader.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchwriter.cpp -o recordbatchwriter.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c schema.cpp -o schema.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c symbols.cpp -o symbols.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c table.cpp -o table.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c threadpool.cpp -o threadpool.o
g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so array.o array_from_vector.o array_to_vector.o arraydata.o arrowExports.o buffer.o chunkedarray.o compression.o compute.o csv.o dataset.o datatype.o expression.o feather.o field.o filesystem.o io.o json.o memorypool.o message.o parquet.o py-to-r.o recordbatch.o recordbatchreader.o recordbatchwriter.o schema.o symbols.o table.o threadpool.o -L/usr/lib64/R/lib -lR
installing to /home/hc/R/x86_64-redhat-linux-gnu-library/3.6/00LOCK-arrow/00new/arrow/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘arrow’
finding HTML links ... done
ArrayData html
ChunkedArray html
Codec html
CsvReadOptions html
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/CsvReadOptions.Rd:61: file link ‘read.csv’ in package ‘utils’ does not exist and so has been treated as a topic
CsvTableReader html
DataType html
Dataset html
DictionaryType html
Expression html
FeatherReader html
Field html
FileFormat html
FileInfo html
FileSelector html
FileSystem html
FixedWidthType html
InputStream html
MemoryPool html
Message html
MessageReader html
OutputStream html
ParquetFileReader html
ParquetFileWriter html
ParquetReaderProperties html
ParquetWriterProperties html
Partitioning html
RecordBatch html
RecordBatchReader html
RecordBatchWriter html
Scanner html
Schema html
Table html
array html
arrow-package html
arrow_available html
buffer html
cast_options html
codec_is_available html
compression html
cpu_count html
data-type html
dataset_factory html
default_memory_pool html
dictionary html
enums html
hive_partition html
install_arrow html
install_pyarrow html
make_readable_file html
map_batches html
mmap_create html
mmap_open html
open_dataset html
read_delim_arrow html
read_feather html
read_ipc_stream html
read_json_arrow html
read_message html
read_parquet html
read_record_batch html
read_schema html
reexports html
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:24: file link ‘print.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:24: file link ‘str.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:26: file link ‘contains’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:26: file link ‘ends_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:26: file link ‘everything’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:26: file link ‘last_col’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:26: file link ‘matches’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:26: file link ‘num_range’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpoLrXFx/R.INSTALL32b644405fe6/arrow/man/reexports.Rd:26: file link ‘starts_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
type html
unify_schemas html
write_feather html
write_ipc_stream html
write_parquet html
write_to_raw html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (arrow)
The downloaded source packages are in
‘/tmp/Rtmp6frnHk/downloaded_packages’If I didn't miss out, it seems like there isn't extra info in the log. |
|
Hei: > install.packages("arrow")
Installing package into ‘/home/hc/R/x86_64-redhat-linux-gnu-library/3.6’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/src/contrib/arrow_0.17.0.tar.gz'
Content type 'application/x-gzip' length 242534 bytes (236 KB)
==================================================
downloaded 236 KB
* installing *source* package ‘arrow’ ...
** package ‘arrow’ successfully unpacked and MD5 sums checked
** using staged installation
*** Generating code with data-raw/codegen.R
Fatal error: cannot open file 'data-raw/codegen.R': No such file or directory
trying URL 'https://dl.bintray.com/ursalabs/arrow-r/libarrow/bin/centos-7/arrow-0.17.0.zip'
Content type 'application/x-www-form-urlencoded' length 13110945 bytes (12.5 MB)
==================================================
downloaded 12.5 MB
*** Successfully retrieved C++ binaries for centos-7
PKG_CFLAGS=-I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW
PKG_LIBS=-L/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/lib -larrow_dataset -lparquet -larrow -larrow -larrow_dataset -lboost_filesystem -lboost_regex -lboost_system -lbrotlidec-static -lbrotlienc-static -lbrotlizzz-static -lbz2 -ljemalloc_pic -llz4 -lparquet -lsnappy -lthrift -lz -lzstd
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array.cpp -o array.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_from_vector.cpp -o array_from_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_to_vector.cpp -o array_to_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arraydata.cpp -o arraydata.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arrowExports.cpp -o arrowExports.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c buffer.cpp -o buffer.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c chunkedarray.cpp -o chunkedarray.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compression.cpp -o compression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compute.cpp -o compute.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c csv.cpp -o csv.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c dataset.cpp -o dataset.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c datatype.cpp -o datatype.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c expression.cpp -o expression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c feather.cpp -o feather.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c field.cpp -o field.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c filesystem.cpp -o filesystem.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c io.cpp -o io.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c json.cpp -o json.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c memorypool.cpp -o memorypool.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c message.cpp -o message.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c parquet.cpp -o parquet.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c py-to-r.cpp -o py-to-r.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatch.cpp -o recordbatch.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchreader.cpp -o recordbatchreader.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchwriter.cpp -o recordbatchwriter.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c schema.cpp -o schema.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c symbols.cpp -o symbols.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c table.cpp -o table.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/include -DARROW_R_WITH_ARROW -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c threadpool.cpp -o threadpool.o
g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so array.o array_from_vector.o array_to_vector.o arraydata.o arrowExports.o buffer.o chunkedarray.o compression.o compute.o csv.o dataset.o datatype.o expression.o feather.o field.o filesystem.o io.o json.o memorypool.o message.o parquet.o py-to-r.o recordbatch.o recordbatchreader.o recordbatchwriter.o schema.o symbols.o table.o threadpool.o -L/tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/libarrow/arrow-0.17.0/lib -larrow_dataset -lparquet -larrow -larrow -larrow_dataset -lboost_filesystem -lboost_regex -lboost_system -lbrotlidec-static -lbrotlienc-static -lbrotlizzz-static -lbz2 -ljemalloc_pic -llz4 -lparquet -lsnappy -lthrift -lz -lzstd -L/usr/lib64/R/lib -lR
installing to /home/hc/R/x86_64-redhat-linux-gnu-library/3.6/00LOCK-arrow/00new/arrow/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘arrow’
finding HTML links ... done
ArrayData html
ChunkedArray html
Codec html
CsvReadOptions html
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/CsvReadOptions.Rd:61: file link ‘read.csv’ in package ‘utils’ does not exist and so has been treated as a topic
CsvTableReader html
DataType html
Dataset html
DictionaryType html
Expression html
FeatherReader html
Field html
FileFormat html
FileInfo html
FileSelector html
FileSystem html
FixedWidthType html
InputStream html
MemoryPool html
Message html
MessageReader html
OutputStream html
ParquetFileReader html
ParquetFileWriter html
ParquetReaderProperties html
ParquetWriterProperties html
Partitioning html
RecordBatch html
RecordBatchReader html
RecordBatchWriter html
Scanner html
Schema html
Table html
array html
arrow-package html
arrow_available html
buffer html
cast_options html
codec_is_available html
compression html
cpu_count html
data-type html
dataset_factory html
default_memory_pool html
dictionary html
enums html
hive_partition html
install_arrow html
install_pyarrow html
make_readable_file html
map_batches html
mmap_create html
mmap_open html
open_dataset html
read_delim_arrow html
read_feather html
read_ipc_stream html
read_json_arrow html
read_message html
read_parquet html
read_record_batch html
read_schema html
reexports html
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:24: file link ‘print.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:24: file link ‘str.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:26: file link ‘contains’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:26: file link ‘ends_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:26: file link ‘everything’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:26: file link ‘last_col’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:26: file link ‘matches’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:26: file link ‘num_range’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpjqWTo9/R.INSTALL4d9a270f4548/arrow/man/reexports.Rd:26: file link ‘starts_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
type html
unify_schemas html
write_feather html
write_ipc_stream html
write_parquet html
write_to_raw html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (arrow)
The downloaded source packages are in
‘/tmp/RtmpLohv1c/downloaded_packages’ |
|
Hei:
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Neal Richardson / @nealrichardson: FTR, my conclusions at this point are:
|
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Hei: -- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Arrow version: 0.17.0 (full: '0.17.0')
-- Arrow SO version: 17 (full: 17.0.0)
-- Found PkgConfig: /usr/bin/pkg-config (found version "0.27.1")
-- clang-tidy not found
-- clang-format not found
-- Could NOT find ClangTools (missing: CLANG_FORMAT_BIN CLANG_TIDY_BIN)
-- infer not found
-- Found Python3: /usr/bin/python3.6 (found version "3.6.8") found components: Interpreter
-- Found cpplint executable at /tmp/RtmpC3aZBW/file945174a391/apache-arrow-0.17.0/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 - Failed
-- Arrow build warning level: PRODUCTION
Using ld linker
Configured for RELEASE build (set with cmake -DCMAKE_BUILD_TYPE={release,debug,...})
-- Build Type: RELEASE
-- Using AUTO approach to find dependencies
-- ARROW_AWSSDK_BUILD_VERSION: 1.7.160
-- ARROW_BOOST_BUILD_VERSION: 1.71.0
-- ARROW_BROTLI_BUILD_VERSION: v1.0.7
-- ARROW_BZIP2_BUILD_VERSION: 1.0.8
-- ARROW_CARES_BUILD_VERSION: 1.15.0
-- ARROW_GBENCHMARK_BUILD_VERSION: v1.5.0
-- ARROW_GFLAGS_BUILD_VERSION: v2.2.0
-- ARROW_GLOG_BUILD_VERSION: v0.3.5
-- ARROW_GRPC_BUILD_VERSION: v1.25.0
-- ARROW_GTEST_BUILD_VERSION: 1.8.1
-- ARROW_JEMALLOC_BUILD_VERSION: 5.2.1
-- ARROW_LZ4_BUILD_VERSION: v1.9.2
-- ARROW_MIMALLOC_BUILD_VERSION: 270e765454f98e8bab9d42609b153425f749fff6
-- ARROW_ORC_BUILD_VERSION: 1.6.2
-- ARROW_PROTOBUF_BUILD_VERSION: v3.7.1
-- ARROW_RAPIDJSON_BUILD_VERSION: 2bbd33b33217ff4a73434ebf10cdac41e2ef5e34
-- ARROW_RE2_BUILD_VERSION: 2019-08-01
-- ARROW_SNAPPY_BUILD_VERSION: 1.1.7
-- ARROW_THRIFT_BUILD_VERSION: 0.12.0
-- ARROW_THRIFT_BUILD_MD5_CHECKSUM: 3deebbb4d1ca77dd9c9e009a1ea02183
-- ARROW_ZLIB_BUILD_VERSION: 1.2.11
-- ARROW_ZSTD_BUILD_VERSION: v1.4.3
-- 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'
-- No package 'thrift' found
-- Could NOT find Thrift: Found unsuitable version "", but required is at least "0.11.0" (found THRIFT_STATIC_LIB-NOTFOUND)
-- Found Boost 1.71.0 at /opt/boost/lib/cmake/Boost-1.71.0
-- Requested configuration: QUIET COMPONENTS regex;system;filesystem
-- BoostConfig: find_package(boost_headers 1.71.0 EXACT CONFIG QUIET HINTS /opt/boost/lib/cmake)
-- Found boost_headers 1.71.0 at /opt/boost/lib/cmake/boost_headers-1.71.0
-- BoostConfig: find_package(boost_regex 1.71.0 EXACT CONFIG QUIET HINTS /opt/boost/lib/cmake)
-- Found boost_regex 1.71.0 at /opt/boost/lib/cmake/boost_regex-1.71.0
-- Boost toolset is gcc48 (GNU 4.8.5)
-- Scanning /opt/boost/lib/cmake/boost_regex-1.71.0/libboost_regex-variant*.cmake
-- Including /opt/boost/lib/cmake/boost_regex-1.71.0/libboost_regex-variant-shared.cmake
-- [ ] libboost_regex.so.1.71.0
-- Including /opt/boost/lib/cmake/boost_regex-1.71.0/libboost_regex-variant-static.cmake
-- [x] libboost_regex.a
-- Adding boost_regex dependencies: headers
-- BoostConfig: find_package(boost_system 1.71.0 EXACT CONFIG QUIET HINTS /opt/boost/lib/cmake)
-- Found boost_system 1.71.0 at /opt/boost/lib/cmake/boost_system-1.71.0
-- Boost toolset is gcc48 (GNU 4.8.5)
-- Scanning /opt/boost/lib/cmake/boost_system-1.71.0/libboost_system-variant*.cmake
-- Including /opt/boost/lib/cmake/boost_system-1.71.0/libboost_system-variant-shared.cmake
-- [ ] libboost_system.so.1.71.0
-- Including /opt/boost/lib/cmake/boost_system-1.71.0/libboost_system-variant-static.cmake
-- [x] libboost_system.a
-- Adding boost_system dependencies: headers
-- BoostConfig: find_package(boost_filesystem 1.71.0 EXACT CONFIG QUIET HINTS /opt/boost/lib/cmake)
-- Found boost_filesystem 1.71.0 at /opt/boost/lib/cmake/boost_filesystem-1.71.0
-- Boost toolset is gcc48 (GNU 4.8.5)
-- Scanning /opt/boost/lib/cmake/boost_filesystem-1.71.0/libboost_filesystem-variant*.cmake
-- Including /opt/boost/lib/cmake/boost_filesystem-1.71.0/libboost_filesystem-variant-shared.cmake
-- [ ] libboost_filesystem.so.1.71.0
-- Including /opt/boost/lib/cmake/boost_filesystem-1.71.0/libboost_filesystem-variant-static.cmake
-- [x] libboost_filesystem.a
-- Adding boost_filesystem dependencies: headers
-- Found Boost: /opt/boost/lib/cmake/Boost-1.71.0/BoostConfig.cmake (found suitable version "1.71.0", minimum required is "1.58") found components: regex system filesystem
-- Boost include dir: /opt/boost/include
-- Boost libraries: Boost::system;Boost::filesystem
-- Building without OpenSSL support. Minimum OpenSSL version 1.0.2 required.
Building Apache Thrift from source
-- Building (vendored) jemalloc from source
-- Could NOT find RapidJSONAlt (missing: RAPIDJSON_INCLUDE_DIR) (Required is at least version "1.1.0")
-- Building rapidjson from source
-- Found hdfs.h at: /tmp/RtmpC3aZBW/file945174a391/apache-arrow-0.17.0/cpp/thirdparty/hadoop/include/hdfs.h
-- CMAKE_C_FLAGS: -O3 -DNDEBUG -Wall -Wno-attributes -msse4.2
-- CMAKE_CXX_FLAGS: -Wno-subobject-linkage -O3 -DNDEBUG -Wall -Wno-attributes -msse4.2
-- Looking for backtrace
-- Looking for backtrace - found
-- backtrace facility detected in default set of libraries
-- Found Backtrace: /usr/include
-- ---------------------------------------------------------------------
-- Arrow version: 0.17.0
--
-- Build configuration summary:
-- Generator: Unix Makefiles
-- Build type: RELEASE
-- Source directory: /tmp/RtmpC3aZBW/file945174a391/apache-arrow-0.17.0/cpp
-- Install prefix: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/libarrow/arrow-0.17.0
--
-- 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_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_USE_SIMD=ON [default=ON]
-- Build with SIMD optimizations
-- ARROW_SIMD_LEVEL=SSE4_2 [default=NONE|SSE4_2|AVX2|AVX512]
-- SIMD compiler 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_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_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_GANDIVA=OFF [default=OFF]
-- Build the Gandiva libraries
-- 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=OFF [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_TENSORFLOW=OFF [default=OFF]
-- Build Arrow with TensorFlow support enabled
--
-- Thirdparty toolchain options:
--
-- ARROW_DEPENDENCY_SOURCE=AUTO [default=AUTO|BUNDLED|SYSTEM|CONDA|BREW]
-- Method to use for acquiring arrow's build dependencies
-- ARROW_VERBOSE_THIRDPARTY_BUILD=ON [default=OFF]
-- Show output from ExternalProjects rather than just logging to files
-- ARROW_BOOST_USE_SHARED=OFF [default=ON]
-- Rely on boost shared libraries where relevant
-- ARROW_PROTOBUF_USE_SHARED=ON [default=ON]
-- Rely on Protocol Buffers shared libraries where relevant
-- ARROW_GFLAGS_USE_SHARED=ON [default=ON]
-- Rely on GFlags shared libraries where relevant
-- ARROW_WITH_BACKTRACE=ON [default=ON]
-- Build with backtrace support
-- ARROW_USE_GLOG=OFF [default=OFF]
-- Build libraries with glog support for pluggable logging
-- ARROW_WITH_BROTLI=OFF [default=OFF]
-- Build with Brotli compression
-- ARROW_WITH_BZ2=OFF [default=OFF]
-- Build with BZ2 compression
-- ARROW_WITH_LZ4=OFF [default=OFF]
-- Build with lz4 compression
-- ARROW_WITH_SNAPPY=OFF [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
--
-- 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 /tmp/RtmpC3aZBW/file945597d5b41/cmake_summary.json
-- Configuring done
-- Generating done
CMake Warning:
Manually-specified variables were not used by the project:
OPENSSL_USE_STATIC_LIBS
-- Build files have been written to: /tmp/RtmpC3aZBW/file945597d5b41
+ /tmp/RtmpC3aZBW/file9451870f322/cmake-3.16.2-Linux-x86_64/bin/cmake --build . --target install
Scanning dependencies of target thrift_ep
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-- Using src='https://github.com/jemalloc/jemalloc/releases/download/5.2.1/jemalloc-5.2.1.tar.bz2'
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-- Build configuration Summary
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-- ----------------------------------------------------------
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configure: creating ./config.status
config.status: creating Makefile
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===============================================================================
jemalloc version : 5.2.1-0-gea6b3e973b477b8061e0076bb257dbd7f3faa756
library revision : 2
CONFIG : AR=/usr/bin/ar CC=/usr/bin/cc --prefix=/tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/ --with-jemalloc-prefix=je_arrow_ --with-private-namespace=je_arrow_private_ --without-export --disable-cxx --disable-libdl --disable-initial-exec-tls
CC : /usr/bin/cc
CONFIGURE_CFLAGS : -std=gnu11 -Wall -Wextra -Wsign-compare -Wundef -Wno-format-zero-length -pipe -g3 -fvisibility=hidden -O3 -funroll-loops
SPECIFIED_CFLAGS :
EXTRA_CFLAGS :
CPPFLAGS : -D_GNU_SOURCE -D_REENTRANT
CXX :
CONFIGURE_CXXFLAGS :
SPECIFIED_CXXFLAGS :
EXTRA_CXXFLAGS :
LDFLAGS :
EXTRA_LDFLAGS :
DSO_LDFLAGS : -shared -Wl,-soname,$(@F)
LIBS : -lm -pthread
RPATH_EXTRA :
XSLTPROC : /usr/bin/xsltproc
XSLROOT : /usr/share/sgml/docbook/xsl-stylesheets
PREFIX : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist
BINDIR : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/bin
DATADIR : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/share
INCLUDEDIR : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/include
LIBDIR : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/lib
MANDIR : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/share/man
srcroot :
abs_srcroot : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/
objroot :
abs_objroot : /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/
JEMALLOC_PREFIX : je_arrow_
JEMALLOC_PRIVATE_NAMESPACE
: je_arrow_private_je_
install_suffix :
malloc_conf :
documentation : 1
shared libs : 1
static libs : 1
autogen : 0
debug : 0
stats : 1
experimetal_smallocx : 0
prof : 0
prof-libunwind : 0
prof-libgcc : 0
prof-gcc : 0
fill : 1
utrace : 0
xmalloc : 0
log : 0
lazy_lock : 0
cache-oblivious : 1
cxx : 0
===============================================================================
[ 24%] Performing build step for 'jemalloc_ep'
make[3]: warning: jobserver unavailable: using -j1. Add `+' to parent make rule.
cp include/jemalloc/internal/private_namespace.gen.h include/jemalloc/internal/private_namespace.gen.h
[ 26%] Performing install step for 'jemalloc_ep'
make[3]: warning: jobserver unavailable: using -j1. Add `+' to parent make rule.
/usr/bin/install -c -m 755 bin/jemalloc-config /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/bin
/usr/bin/install -c -m 755 bin/jemalloc.sh /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/bin
/usr/bin/install -c -m 755 bin/jeprof /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/bin
/usr/bin/install -c -m 644 include/jemalloc/jemalloc.h /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/include/jemalloc
/usr/bin/install -c -m 755 lib/libjemalloc.a /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/lib
/usr/bin/install -c -m 755 lib/libjemalloc_pic.a /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/lib
/usr/bin/install -c -m 644 jemalloc.pc /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/lib/pkgconfig
Note: Writing jemalloc.3
/usr/bin/install -c -m 644 doc/jemalloc.html /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/share/doc/jemalloc
/usr/bin/install -c -m 644 doc/jemalloc.3 /tmp/RtmpC3aZBW/file945597d5b41/jemalloc_ep-prefix/src/jemalloc_ep/dist/share/man/man3
[ 28%] Completed 'jemalloc_ep'
[ 28%] Built target jemalloc_ep
gmake: *** [all] Error 2
+ '[' 2 -ne 0 ']'
+ '[' '' '!=' '' ']'
+ xargs '-I{}' cp -u '{}' /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/libarrow/arrow-0.17.0/lib
+ find . -regex '.*/.*/lib/.*\.a$'
+ rm /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/libarrow/arrow-0.17.0/lib/libjemalloc.a
rm: cannot remove ‘/tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/libarrow/arrow-0.17.0/lib/libjemalloc.a’: Not a directory
+ true
+ '[' -f /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/libarrow/arrow-0.17.0/lib/libbrotlicommon-static.a ']'
+ popd
/tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow
./configure: line 132: cd: libarrow/arrow-0.17.0/lib: Not a directory
------------------------- NOTE ---------------------------
After installation, please run arrow::install_arrow()
for help installing required runtime libraries
---------------------------------------------------------
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array.cpp -o array.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_from_vector.cpp -o array_from_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array_to_vector.cpp -o array_to_vector.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arraydata.cpp -o arraydata.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c arrowExports.cpp -o arrowExports.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c buffer.cpp -o buffer.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c chunkedarray.cpp -o chunkedarray.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compression.cpp -o compression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c compute.cpp -o compute.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c csv.cpp -o csv.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c dataset.cpp -o dataset.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c datatype.cpp -o datatype.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c expression.cpp -o expression.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c feather.cpp -o feather.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c field.cpp -o field.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c filesystem.cpp -o filesystem.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c io.cpp -o io.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c json.cpp -o json.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c memorypool.cpp -o memorypool.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c message.cpp -o message.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c parquet.cpp -o parquet.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c py-to-r.cpp -o py-to-r.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatch.cpp -o recordbatch.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchreader.cpp -o recordbatchreader.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c recordbatchwriter.cpp -o recordbatchwriter.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c schema.cpp -o schema.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c symbols.cpp -o symbols.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c table.cpp -o table.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I"/home/hc/R/x86_64-redhat-linux-gnu-library/3.6/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c threadpool.cpp -o threadpool.o
g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so array.o array_from_vector.o array_to_vector.o arraydata.o arrowExports.o buffer.o chunkedarray.o compression.o compute.o csv.o dataset.o datatype.o expression.o feather.o field.o filesystem.o io.o json.o memorypool.o message.o parquet.o py-to-r.o recordbatch.o recordbatchreader.o recordbatchwriter.o schema.o symbols.o table.o threadpool.o -L/usr/lib64/R/lib -lR
installing to /home/hc/R/x86_64-redhat-linux-gnu-library/3.6/00LOCK-arrow/00new/arrow/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘arrow’
finding HTML links ... done
ArrayData html
ChunkedArray html
Codec html
CsvReadOptions html
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/CsvReadOptions.Rd:61: file link ‘read.csv’ in package ‘utils’ does not exist and so has been treated as a topic
CsvTableReader html
DataType html
Dataset html
DictionaryType html
Expression html
FeatherReader html
Field html
FileFormat html
FileInfo html
FileSelector html
FileSystem html
FixedWidthType html
InputStream html
MemoryPool html
Message html
MessageReader html
OutputStream html
ParquetFileReader html
ParquetFileWriter html
ParquetReaderProperties html
ParquetWriterProperties html
Partitioning html
RecordBatch html
RecordBatchReader html
RecordBatchWriter html
Scanner html
Schema html
Table html
array html
arrow-package html
arrow_available html
buffer html
cast_options html
codec_is_available html
compression html
cpu_count html
data-type html
dataset_factory html
default_memory_pool html
dictionary html
enums html
hive_partition html
install_arrow html
install_pyarrow html
make_readable_file html
map_batches html
mmap_create html
mmap_open html
open_dataset html
read_delim_arrow html
read_feather html
read_ipc_stream html
read_json_arrow html
read_message html
read_parquet html
read_record_batch html
read_schema html
reexports html
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:24: file link ‘print.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:24: file link ‘str.integer64’ in package ‘bit64’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:26: file link ‘contains’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:26: file link ‘ends_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:26: file link ‘everything’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:26: file link ‘last_col’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:26: file link ‘matches’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:26: file link ‘num_range’ in package ‘tidyselect’ does not exist and so has been treated as a topic
Rd warning: /tmp/RtmpdmeMBr/R.INSTALL920125aa2fd/arrow/man/reexports.Rd:26: file link ‘starts_with’ in package ‘tidyselect’ does not exist and so has been treated as a topic
type html
unify_schemas html
write_feather html
write_ipc_stream html
write_parquet html
write_to_raw html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (arrow)
The downloaded source packages are in
‘/tmp/RtmpOUFApt/downloaded_packages’ |
|
Neal Richardson / @nealrichardson: |
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Hi,
I am trying to install arrow via RStudio, but it seems like it is not working that after I installed the package, it kept asking me to run arrow::install_arrow() even after I did:
Environment: CentOS 7
Reporter: Hei
Assignee: Neal Richardson / @nealrichardson
PRs and other links:
Note: This issue was originally created as ARROW-8586. Please see the migration documentation for further details.
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