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Posted to dev@arrow.apache.org by Rares Vernica <rv...@gmail.com> on 2022/04/30 02:05:35 UTC
[R] Install arrow package: arrow.so undefined symbol
Hello,
I'm trying to do install.packages("arrow") in R 3.6.0 on CentOS 7 and it
errors out like this:
$ cat /etc/redhat-release
CentOS Linux release 7.9.2009 (Core)
$ R
R version 3.6.0 (2019-04-26) -- "Planting of a Tree"
> install.packages("arrow")
...
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
libgcc_s.so.1 must be installed for pthread_cancel to work
sh: line 1: 7367 Aborted (core dumped)
'/usr/lib64/R/bin/R' --no-save --slave 2>&1 <
'/tmp/RtmpLFPpbM/fileda264de3f6a'
Error: package or namespace load failed for 'arrow' in dyn.load(file,
DLLpath = DLLpath, ...):
unable to load shared object
'/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
symbol: _ZN6snappy11RawCompressEPKcmPcPm
Error: loading failed
Execution halted
ERROR: loading failed
* removing '/usr/lib64/R/library/arrow'
The downloaded source packages are in
'/tmp/RtmpBr83oT/downloaded_packages'
Updating HTML index of packages in '.Library'
Warning messages:
1: In install.packages("arrow") :
installation of package 'arrow' had non-zero exit status
2: In file.create(f.tg) :
cannot create file '/usr/share/doc/R-3.6.0/html/packages.html', reason
'No such file or directory'
3: In make.packages.html(.Library) : cannot update HTML package index
Is this expected? Is there a workaround?
Thank you!
Rares
Re: [R] Install arrow package: arrow.so undefined symbol
Posted by Neal Richardson <ne...@gmail.com>.
I created a PR to apply this change:
https://github.com/apache/arrow/pull/13151
On Tue, May 3, 2022 at 5:08 PM Sutou Kouhei <ko...@clear-code.com> wrote:
> Hi,
>
> > * On the latter, I see that we're using snappy and lz4 from the system
> > (cmake finds them in the Arrow C++ build) but when the arrow.so is built
> > for the R package, there is -llz4 in the libs but no -lsnappy. The line
> > where the link libs are assembled from the C++ build via pkg-config is
> > here: https://github.com/apache/arrow/blob/master/r/configure#L185,
> maybe
> > the --static is relevant? Kou, do you know?
>
> We can't use --libs-only-l and --libs-only-other at the same
> time. If we use both of them at the same time,
> --libs-only-other is ignored. The following outputs were
> executed on CentOS 7 with the official arrow-devel RPM
> package:
>
> $ pkg-config --libs-only-l --static arrow
> -larrow -larrow_bundled_dependencies -lbrotlidec -lbrotlienc -lz -llz4
> -lzstd -lbrotlicommon
> $ pkg-config --libs-only-other --static arrow
> /usr/lib64/libsnappy.so /usr/lib64/libbz2.so -pthread
> $ pkg-config --libs-only-l --libs-only-other --static arrow
> -larrow -larrow_bundled_dependencies -lbrotlidec -lbrotlienc -lz -llz4
> -lzstd -lbrotlicommon
>
> How about changing the line in r/configure to the following?
>
> PKG_LIBS="$PKG_LIBS `PKG_CONFIG_PATH=${LIB_DIR}/pkgconfig pkg-config
> --libs-only-l --static --silence-errors ${PKG_CONFIG_NAME}`"
> PKG_LIBS="$PKG_LIBS `PKG_CONFIG_PATH=${LIB_DIR}/pkgconfig pkg-config
> --libs-only-other --static --silence-errors ${PKG_CONFIG_NAME}`"
>
>
> Thanks,
> --
> kou
>
> In <CA...@mail.gmail.com>
> "Re: [R] Install arrow package: arrow.so undefined symbol" on Tue, 3 May
> 2022 14:05:09 -0400,
> Neal Richardson <ne...@gmail.com> wrote:
>
> > Hmm, I see a couple of things:
> >
> > * There are two errors at the end, one about pthread_cancel and one about
> > undefined symbols for snappy. I can't tell if the pthread issue is fatal.
> > * On the latter, I see that we're using snappy and lz4 from the system
> > (cmake finds them in the Arrow C++ build) but when the arrow.so is built
> > for the R package, there is -llz4 in the libs but no -lsnappy. The line
> > where the link libs are assembled from the C++ build via pkg-config is
> > here: https://github.com/apache/arrow/blob/master/r/configure#L185,
> maybe
> > the --static is relevant? Kou, do you know?
> > * In terms of working around this, you have a few options, which are
> > described in more detail here:
> > https://arrow.apache.org/docs/r/articles/install.html
> > * Set NOT_CRAN=true and get a fully-functioning C++ binary downloaded
> > * Install a binary from RStudio Package Manager, if that's an option
> > * conda may also be an option
> > * If none of those work and you're building from source, you can set
> > EXTRA_CMAKE_FLAGS="-DSNAPPY_SOURCE=BUNDLED" to skip the system version of
> > snappy and build it in the Arrow build
> > * You may also want to use a newer devtoolset since you're building
> > with gcc 4.8, and some features aren't supported with that compiler.
> >
> > I've trimmed the installation logs to the relevant bits in the quoted
> reply
> > that follows, in case that's useful.
> >
> > Neal
> >
> >
> > On Tue, May 3, 2022 at 1:08 PM Rares Vernica <rv...@gmail.com> wrote:
> >
> >> Hi Dragos,
> >>
> >> It still fails after setting the environment variable. Here is the log.
> >>
> >> Cheers,
> >> Rares
> >>
> >> ...
> >> > install.packages("arrow")
> >> Installing package into '/usr/lib64/R/library'
> >> ...
> >> *** Building libarrow from source
> >> For a faster, more complete installation, set the environment
> variable
> >> NOT_CRAN=true before installing
> >> See install vignette for details:
> >>
> https://cran.r-project.org/web/packages/arrow/vignettes/install.html
> >> *** Building with MAKEFLAGS= -j2
> >> **** arrow with SOURCE_DIR='tools/cpp'
> >> BUILD_DIR='/tmp/RtmpObd2i3/file5310bef585'
> DEST_DIR='libarrow/arrow-7.0.0'
> >> CMAKE='/usr/bin/cmake3' EXTRA_CMAKE_FLAGS='' CC='gcc -m64 -std=gnu99'
> >> CXX='g++ -m64 -std=gnu++11' LDFLAGS='-Wl,-z,relro' ARROW_S3='OFF'
> >> ARROW_MIMALLOC='OFF'
> >> ...
> >> + /usr/bin/cmake3 -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
> >> -DAWSSDK_SOURCE= -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=OFF
> >> -DARROW_MIMALLOC=OFF -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_S3=OFF
> >> -DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_WITH_LZ4=ON
> >> -DARROW_WITH_RE2=ON -DARROW_WITH_SNAPPY=ON -DARROW_WITH_UTF8PROC=ON
> >> -DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF
> >> -DARROW_VERBOSE_THIRDPARTY_BUILD=OFF -DCMAKE_BUILD_TYPE=Release
> >> -DCMAKE_INSTALL_LIBDIR=lib
> >>
> >>
> -DCMAKE_INSTALL_PREFIX=/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0
> >> -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
> >> -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_UNITY_BUILD=OFF -G
> >> 'Unix Makefiles' /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp
> >> -- Building using CMake version: 3.17.5
> >> -- The C compiler identification is GNU 4.8.5
> >> -- The CXX compiler identification is GNU 4.8.5
> >> ...
> >> -- 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
> >> ...
> >> -- Found Snappy: /usr/lib64/libsnappy.so
> >> -- Providing CMake module for Snappy
> >> ...
> >> -- Checking for module 'liblz4'
> >> -- Found liblz4, version 1.8.3
> >> -- Found Lz4: /usr/lib64/liblz4.so
> >> -- Providing CMake module for Lz4
> >> ...
> >> -- Install configuration: "RELEASE"
> >> -- Installing:
> >>
> >>
> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindSnappy.cmake
> >> -- Installing:
> >>
> >>
> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindLz4.cmake
> >> ...
> >>
> >>
> PKG_CFLAGS=-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
> >> -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
> >> -DARROW_R_WITH_JSON
> >>
> >>
> PKG_LIBS=-L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
> >> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
> >> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
> >> ...
> >> g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o
> arrow.so
> >> RTasks.o altrep.o array.o array_to_vector.o arraydata.o arrowExports.o
> >> bridge.o buffer.o chunkedarray.o compression.o compute-exec.o compute.o
> >> config.o csv.o dataset.o datatype.o expression.o feather.o field.o
> >> filesystem.o imports.o io.o json.o memorypool.o message.o parquet.o
> >> r_to_arrow.o recordbatch.o recordbatchreader.o recordbatchwriter.o
> scalar.o
> >> schema.o symbols.o table.o threadpool.o type_infer.o
> >> -L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
> >> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
> >> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
> >> -L/usr/lib64/R/lib -lR
> >> installing to /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs
> >> ** R
> >> ...
> >> ** testing if installed package can be loaded from temporary location
> >> libgcc_s.so.1 must be installed for pthread_cancel to work
> >> sh: line 1: 3916 Aborted (core dumped)
> >> '/usr/lib64/R/bin/R' --no-save --slave 2>&1 <
> >> '/tmp/Rtmp8rFBf9/file2f3cba608e'
> >> Error: package or namespace load failed for 'arrow' in dyn.load(file,
> >> DLLpath = DLLpath, ...):
> >> unable to load shared object
> >> '/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
> >> /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
> >> symbol: _ZN6snappy11RawCompressEPKcmPcPm
> >> Error: loading failed
> >> Execution halted
> >> ERROR: loading failed
> >> * removing '/usr/lib64/R/library/arrow'
> >>
>
Re: [R] Install arrow package: arrow.so undefined symbol
Posted by Sutou Kouhei <ko...@clear-code.com>.
Hi,
> * On the latter, I see that we're using snappy and lz4 from the system
> (cmake finds them in the Arrow C++ build) but when the arrow.so is built
> for the R package, there is -llz4 in the libs but no -lsnappy. The line
> where the link libs are assembled from the C++ build via pkg-config is
> here: https://github.com/apache/arrow/blob/master/r/configure#L185, maybe
> the --static is relevant? Kou, do you know?
We can't use --libs-only-l and --libs-only-other at the same
time. If we use both of them at the same time,
--libs-only-other is ignored. The following outputs were
executed on CentOS 7 with the official arrow-devel RPM
package:
$ pkg-config --libs-only-l --static arrow
-larrow -larrow_bundled_dependencies -lbrotlidec -lbrotlienc -lz -llz4 -lzstd -lbrotlicommon
$ pkg-config --libs-only-other --static arrow
/usr/lib64/libsnappy.so /usr/lib64/libbz2.so -pthread
$ pkg-config --libs-only-l --libs-only-other --static arrow
-larrow -larrow_bundled_dependencies -lbrotlidec -lbrotlienc -lz -llz4 -lzstd -lbrotlicommon
How about changing the line in r/configure to the following?
PKG_LIBS="$PKG_LIBS `PKG_CONFIG_PATH=${LIB_DIR}/pkgconfig pkg-config --libs-only-l --static --silence-errors ${PKG_CONFIG_NAME}`"
PKG_LIBS="$PKG_LIBS `PKG_CONFIG_PATH=${LIB_DIR}/pkgconfig pkg-config --libs-only-other --static --silence-errors ${PKG_CONFIG_NAME}`"
Thanks,
--
kou
In <CA...@mail.gmail.com>
"Re: [R] Install arrow package: arrow.so undefined symbol" on Tue, 3 May 2022 14:05:09 -0400,
Neal Richardson <ne...@gmail.com> wrote:
> Hmm, I see a couple of things:
>
> * There are two errors at the end, one about pthread_cancel and one about
> undefined symbols for snappy. I can't tell if the pthread issue is fatal.
> * On the latter, I see that we're using snappy and lz4 from the system
> (cmake finds them in the Arrow C++ build) but when the arrow.so is built
> for the R package, there is -llz4 in the libs but no -lsnappy. The line
> where the link libs are assembled from the C++ build via pkg-config is
> here: https://github.com/apache/arrow/blob/master/r/configure#L185, maybe
> the --static is relevant? Kou, do you know?
> * In terms of working around this, you have a few options, which are
> described in more detail here:
> https://arrow.apache.org/docs/r/articles/install.html
> * Set NOT_CRAN=true and get a fully-functioning C++ binary downloaded
> * Install a binary from RStudio Package Manager, if that's an option
> * conda may also be an option
> * If none of those work and you're building from source, you can set
> EXTRA_CMAKE_FLAGS="-DSNAPPY_SOURCE=BUNDLED" to skip the system version of
> snappy and build it in the Arrow build
> * You may also want to use a newer devtoolset since you're building
> with gcc 4.8, and some features aren't supported with that compiler.
>
> I've trimmed the installation logs to the relevant bits in the quoted reply
> that follows, in case that's useful.
>
> Neal
>
>
> On Tue, May 3, 2022 at 1:08 PM Rares Vernica <rv...@gmail.com> wrote:
>
>> Hi Dragos,
>>
>> It still fails after setting the environment variable. Here is the log.
>>
>> Cheers,
>> Rares
>>
>> ...
>> > install.packages("arrow")
>> Installing package into '/usr/lib64/R/library'
>> ...
>> *** Building libarrow from source
>> For a faster, more complete installation, set the environment variable
>> NOT_CRAN=true before installing
>> See install vignette for details:
>> https://cran.r-project.org/web/packages/arrow/vignettes/install.html
>> *** Building with MAKEFLAGS= -j2
>> **** arrow with SOURCE_DIR='tools/cpp'
>> BUILD_DIR='/tmp/RtmpObd2i3/file5310bef585' DEST_DIR='libarrow/arrow-7.0.0'
>> CMAKE='/usr/bin/cmake3' EXTRA_CMAKE_FLAGS='' CC='gcc -m64 -std=gnu99'
>> CXX='g++ -m64 -std=gnu++11' LDFLAGS='-Wl,-z,relro' ARROW_S3='OFF'
>> ARROW_MIMALLOC='OFF'
>> ...
>> + /usr/bin/cmake3 -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
>> -DAWSSDK_SOURCE= -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=OFF
>> -DARROW_MIMALLOC=OFF -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_S3=OFF
>> -DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_WITH_LZ4=ON
>> -DARROW_WITH_RE2=ON -DARROW_WITH_SNAPPY=ON -DARROW_WITH_UTF8PROC=ON
>> -DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF
>> -DARROW_VERBOSE_THIRDPARTY_BUILD=OFF -DCMAKE_BUILD_TYPE=Release
>> -DCMAKE_INSTALL_LIBDIR=lib
>>
>> -DCMAKE_INSTALL_PREFIX=/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0
>> -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
>> -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_UNITY_BUILD=OFF -G
>> 'Unix Makefiles' /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp
>> -- Building using CMake version: 3.17.5
>> -- The C compiler identification is GNU 4.8.5
>> -- The CXX compiler identification is GNU 4.8.5
>> ...
>> -- 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
>> ...
>> -- Found Snappy: /usr/lib64/libsnappy.so
>> -- Providing CMake module for Snappy
>> ...
>> -- Checking for module 'liblz4'
>> -- Found liblz4, version 1.8.3
>> -- Found Lz4: /usr/lib64/liblz4.so
>> -- Providing CMake module for Lz4
>> ...
>> -- Install configuration: "RELEASE"
>> -- Installing:
>>
>> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindSnappy.cmake
>> -- Installing:
>>
>> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindLz4.cmake
>> ...
>>
>> PKG_CFLAGS=-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
>> -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
>> -DARROW_R_WITH_JSON
>>
>> PKG_LIBS=-L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
>> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
>> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
>> ...
>> g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so
>> RTasks.o altrep.o array.o array_to_vector.o arraydata.o arrowExports.o
>> bridge.o buffer.o chunkedarray.o compression.o compute-exec.o compute.o
>> config.o csv.o dataset.o datatype.o expression.o feather.o field.o
>> filesystem.o imports.o io.o json.o memorypool.o message.o parquet.o
>> r_to_arrow.o recordbatch.o recordbatchreader.o recordbatchwriter.o scalar.o
>> schema.o symbols.o table.o threadpool.o type_infer.o
>> -L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
>> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
>> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
>> -L/usr/lib64/R/lib -lR
>> installing to /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs
>> ** R
>> ...
>> ** testing if installed package can be loaded from temporary location
>> libgcc_s.so.1 must be installed for pthread_cancel to work
>> sh: line 1: 3916 Aborted (core dumped)
>> '/usr/lib64/R/bin/R' --no-save --slave 2>&1 <
>> '/tmp/Rtmp8rFBf9/file2f3cba608e'
>> Error: package or namespace load failed for 'arrow' in dyn.load(file,
>> DLLpath = DLLpath, ...):
>> unable to load shared object
>> '/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
>> /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
>> symbol: _ZN6snappy11RawCompressEPKcmPcPm
>> Error: loading failed
>> Execution halted
>> ERROR: loading failed
>> * removing '/usr/lib64/R/library/arrow'
>>
Re: [R] Install arrow package: arrow.so undefined symbol
Posted by Neal Richardson <ne...@gmail.com>.
Hmm, I see a couple of things:
* There are two errors at the end, one about pthread_cancel and one about
undefined symbols for snappy. I can't tell if the pthread issue is fatal.
* On the latter, I see that we're using snappy and lz4 from the system
(cmake finds them in the Arrow C++ build) but when the arrow.so is built
for the R package, there is -llz4 in the libs but no -lsnappy. The line
where the link libs are assembled from the C++ build via pkg-config is
here: https://github.com/apache/arrow/blob/master/r/configure#L185, maybe
the --static is relevant? Kou, do you know?
* In terms of working around this, you have a few options, which are
described in more detail here:
https://arrow.apache.org/docs/r/articles/install.html
* Set NOT_CRAN=true and get a fully-functioning C++ binary downloaded
* Install a binary from RStudio Package Manager, if that's an option
* conda may also be an option
* If none of those work and you're building from source, you can set
EXTRA_CMAKE_FLAGS="-DSNAPPY_SOURCE=BUNDLED" to skip the system version of
snappy and build it in the Arrow build
* You may also want to use a newer devtoolset since you're building
with gcc 4.8, and some features aren't supported with that compiler.
I've trimmed the installation logs to the relevant bits in the quoted reply
that follows, in case that's useful.
Neal
On Tue, May 3, 2022 at 1:08 PM Rares Vernica <rv...@gmail.com> wrote:
> Hi Dragos,
>
> It still fails after setting the environment variable. Here is the log.
>
> Cheers,
> Rares
>
> ...
> > install.packages("arrow")
> Installing package into '/usr/lib64/R/library'
> ...
> *** Building libarrow from source
> For a faster, more complete installation, set the environment variable
> NOT_CRAN=true before installing
> See install vignette for details:
> https://cran.r-project.org/web/packages/arrow/vignettes/install.html
> *** Building with MAKEFLAGS= -j2
> **** arrow with SOURCE_DIR='tools/cpp'
> BUILD_DIR='/tmp/RtmpObd2i3/file5310bef585' DEST_DIR='libarrow/arrow-7.0.0'
> CMAKE='/usr/bin/cmake3' EXTRA_CMAKE_FLAGS='' CC='gcc -m64 -std=gnu99'
> CXX='g++ -m64 -std=gnu++11' LDFLAGS='-Wl,-z,relro' ARROW_S3='OFF'
> ARROW_MIMALLOC='OFF'
> ...
> + /usr/bin/cmake3 -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
> -DAWSSDK_SOURCE= -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=OFF
> -DARROW_MIMALLOC=OFF -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_S3=OFF
> -DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_WITH_LZ4=ON
> -DARROW_WITH_RE2=ON -DARROW_WITH_SNAPPY=ON -DARROW_WITH_UTF8PROC=ON
> -DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF
> -DARROW_VERBOSE_THIRDPARTY_BUILD=OFF -DCMAKE_BUILD_TYPE=Release
> -DCMAKE_INSTALL_LIBDIR=lib
>
> -DCMAKE_INSTALL_PREFIX=/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0
> -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
> -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_UNITY_BUILD=OFF -G
> 'Unix Makefiles' /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp
> -- Building using CMake version: 3.17.5
> -- The C compiler identification is GNU 4.8.5
> -- The CXX compiler identification is GNU 4.8.5
> ...
> -- 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
> ...
> -- Found Snappy: /usr/lib64/libsnappy.so
> -- Providing CMake module for Snappy
> ...
> -- Checking for module 'liblz4'
> -- Found liblz4, version 1.8.3
> -- Found Lz4: /usr/lib64/liblz4.so
> -- Providing CMake module for Lz4
> ...
> -- Install configuration: "RELEASE"
> -- Installing:
>
> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindSnappy.cmake
> -- Installing:
>
> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindLz4.cmake
> ...
>
> PKG_CFLAGS=-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
> -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
> -DARROW_R_WITH_JSON
>
> PKG_LIBS=-L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
> ...
> g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so
> RTasks.o altrep.o array.o array_to_vector.o arraydata.o arrowExports.o
> bridge.o buffer.o chunkedarray.o compression.o compute-exec.o compute.o
> config.o csv.o dataset.o datatype.o expression.o feather.o field.o
> filesystem.o imports.o io.o json.o memorypool.o message.o parquet.o
> r_to_arrow.o recordbatch.o recordbatchreader.o recordbatchwriter.o scalar.o
> schema.o symbols.o table.o threadpool.o type_infer.o
> -L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
> -L/usr/lib64/R/lib -lR
> installing to /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs
> ** R
> ...
> ** testing if installed package can be loaded from temporary location
> libgcc_s.so.1 must be installed for pthread_cancel to work
> sh: line 1: 3916 Aborted (core dumped)
> '/usr/lib64/R/bin/R' --no-save --slave 2>&1 <
> '/tmp/Rtmp8rFBf9/file2f3cba608e'
> Error: package or namespace load failed for 'arrow' in dyn.load(file,
> DLLpath = DLLpath, ...):
> unable to load shared object
> '/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
> /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
> symbol: _ZN6snappy11RawCompressEPKcmPcPm
> Error: loading failed
> Execution halted
> ERROR: loading failed
> * removing '/usr/lib64/R/library/arrow'
>
Re: [R] Install arrow package: arrow.so undefined symbol
Posted by Neal Richardson <ne...@gmail.com>.
Hmm, I see a couple of things:
* There are two errors at the end, one about pthread_cancel and one about
undefined symbols for snappy. I can't tell if the pthread issue is fatal.
* On the latter, I see that we're using snappy and lz4 from the system
(cmake finds them in the Arrow C++ build) but when the arrow.so is built
for the R package, there is -llz4 in the libs but no -lsnappy. The line
where the link libs are assembled from the C++ build via pkg-config is
here: https://github.com/apache/arrow/blob/master/r/configure#L185, maybe
the --static is relevant? Kou, do you know?
* In terms of working around this, you have a few options, which are
described in more detail here:
https://arrow.apache.org/docs/r/articles/install.html
* Set NOT_CRAN=true and get a fully-functioning C++ binary downloaded
* Install a binary from RStudio Package Manager, if that's an option
* conda may also be an option
* If none of those work and you're building from source, you can set
EXTRA_CMAKE_FLAGS="-DSNAPPY_SOURCE=BUNDLED" to skip the system version of
snappy and build it in the Arrow build
* You may also want to use a newer devtoolset since you're building
with gcc 4.8, and some features aren't supported with that compiler.
I've trimmed the installation logs to the relevant bits in the quoted reply
that follows, in case that's useful.
Neal
On Tue, May 3, 2022 at 1:08 PM Rares Vernica <rv...@gmail.com> wrote:
> Hi Dragos,
>
> It still fails after setting the environment variable. Here is the log.
>
> Cheers,
> Rares
>
> ...
> > install.packages("arrow")
> Installing package into '/usr/lib64/R/library'
> ...
> *** Building libarrow from source
> For a faster, more complete installation, set the environment variable
> NOT_CRAN=true before installing
> See install vignette for details:
> https://cran.r-project.org/web/packages/arrow/vignettes/install.html
> *** Building with MAKEFLAGS= -j2
> **** arrow with SOURCE_DIR='tools/cpp'
> BUILD_DIR='/tmp/RtmpObd2i3/file5310bef585' DEST_DIR='libarrow/arrow-7.0.0'
> CMAKE='/usr/bin/cmake3' EXTRA_CMAKE_FLAGS='' CC='gcc -m64 -std=gnu99'
> CXX='g++ -m64 -std=gnu++11' LDFLAGS='-Wl,-z,relro' ARROW_S3='OFF'
> ARROW_MIMALLOC='OFF'
> ...
> + /usr/bin/cmake3 -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
> -DAWSSDK_SOURCE= -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=OFF
> -DARROW_MIMALLOC=OFF -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_S3=OFF
> -DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_WITH_LZ4=ON
> -DARROW_WITH_RE2=ON -DARROW_WITH_SNAPPY=ON -DARROW_WITH_UTF8PROC=ON
> -DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF
> -DARROW_VERBOSE_THIRDPARTY_BUILD=OFF -DCMAKE_BUILD_TYPE=Release
> -DCMAKE_INSTALL_LIBDIR=lib
>
> -DCMAKE_INSTALL_PREFIX=/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0
> -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
> -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_UNITY_BUILD=OFF -G
> 'Unix Makefiles' /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp
> -- Building using CMake version: 3.17.5
> -- The C compiler identification is GNU 4.8.5
> -- The CXX compiler identification is GNU 4.8.5
> ...
> -- 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
> ...
> -- Found Snappy: /usr/lib64/libsnappy.so
> -- Providing CMake module for Snappy
> ...
> -- Checking for module 'liblz4'
> -- Found liblz4, version 1.8.3
> -- Found Lz4: /usr/lib64/liblz4.so
> -- Providing CMake module for Lz4
> ...
> -- Install configuration: "RELEASE"
> -- Installing:
>
> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindSnappy.cmake
> -- Installing:
>
> /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindLz4.cmake
> ...
>
> PKG_CFLAGS=-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
> -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
> -DARROW_R_WITH_JSON
>
> PKG_LIBS=-L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
> ...
> g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so
> RTasks.o altrep.o array.o array_to_vector.o arraydata.o arrowExports.o
> bridge.o buffer.o chunkedarray.o compression.o compute-exec.o compute.o
> config.o csv.o dataset.o datatype.o expression.o feather.o field.o
> filesystem.o imports.o io.o json.o memorypool.o message.o parquet.o
> r_to_arrow.o recordbatch.o recordbatchreader.o recordbatchwriter.o scalar.o
> schema.o symbols.o table.o threadpool.o type_infer.o
> -L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
> -larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
> -llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
> -L/usr/lib64/R/lib -lR
> installing to /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs
> ** R
> ...
> ** testing if installed package can be loaded from temporary location
> libgcc_s.so.1 must be installed for pthread_cancel to work
> sh: line 1: 3916 Aborted (core dumped)
> '/usr/lib64/R/bin/R' --no-save --slave 2>&1 <
> '/tmp/Rtmp8rFBf9/file2f3cba608e'
> Error: package or namespace load failed for 'arrow' in dyn.load(file,
> DLLpath = DLLpath, ...):
> unable to load shared object
> '/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
> /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
> symbol: _ZN6snappy11RawCompressEPKcmPcPm
> Error: loading failed
> Execution halted
> ERROR: loading failed
> * removing '/usr/lib64/R/library/arrow'
>
Re: [R] Install arrow package: arrow.so undefined symbol
Posted by Rares Vernica <rv...@gmail.com>.
Hi Dragos,
It still fails after setting the environment variable. Here is the log.
Cheers,
Rares
Setup: centos:7 Docker container, R and related packages installed with yum
/> cat /etc/redhat-release
CentOS Linux release 7.9.2009 (Core)
/> export ARROW_R_DEV=true
/> R
R version 3.6.0 (2019-04-26) -- "Planting of a Tree"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-redhat-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> install.packages("arrow")
Installing package into '/usr/lib64/R/library'
(as 'lib' is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/arrow_7.0.0.tar.gz'
Content type 'application/x-gzip' length 4553836 bytes (4.3 MB)
==================================================
downloaded 4.3 MB
* installing *source* package 'arrow' ...
** package 'arrow' successfully unpacked and MD5 sums checked
** using staged installation
trying URL 'https://github.com'
downloaded 204 KB
*** Found local C++ source: 'tools/cpp'
*** Building libarrow from source
For a faster, more complete installation, set the environment variable
NOT_CRAN=true before installing
See install vignette for details:
https://cran.r-project.org/web/packages/arrow/vignettes/install.html
*** Building with MAKEFLAGS= -j2
**** arrow with SOURCE_DIR='tools/cpp'
BUILD_DIR='/tmp/RtmpObd2i3/file5310bef585' DEST_DIR='libarrow/arrow-7.0.0'
CMAKE='/usr/bin/cmake3' EXTRA_CMAKE_FLAGS='' CC='gcc -m64 -std=gnu99'
CXX='g++ -m64 -std=gnu++11' LDFLAGS='-Wl,-z,relro' ARROW_S3='OFF'
ARROW_MIMALLOC='OFF'
++ pwd
+ : /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow
+ : tools/cpp
+ : /tmp/RtmpObd2i3/file5310bef585
+ : libarrow/arrow-7.0.0
+ : /usr/bin/cmake3
++ cd tools/cpp
++ pwd
+ SOURCE_DIR=/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp
++ mkdir -p libarrow/arrow-7.0.0
++ cd libarrow/arrow-7.0.0
++ pwd
+ DEST_DIR=/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0
+ '[' '' '!=' '' ']'
+ '[' '' = false ']'
+ ARROW_DEFAULT_PARAM=OFF
+ mkdir -p /tmp/RtmpObd2i3/file5310bef585
+ pushd /tmp/RtmpObd2i3/file5310bef585
/tmp/RtmpObd2i3/file5310bef585 /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow
+ /usr/bin/cmake3 -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
-DAWSSDK_SOURCE= -DARROW_FILESYSTEM=ON -DARROW_JEMALLOC=OFF
-DARROW_MIMALLOC=OFF -DARROW_JSON=ON -DARROW_PARQUET=ON -DARROW_S3=OFF
-DARROW_WITH_BROTLI=OFF -DARROW_WITH_BZ2=OFF -DARROW_WITH_LZ4=ON
-DARROW_WITH_RE2=ON -DARROW_WITH_SNAPPY=ON -DARROW_WITH_UTF8PROC=ON
-DARROW_WITH_ZLIB=OFF -DARROW_WITH_ZSTD=OFF
-DARROW_VERBOSE_THIRDPARTY_BUILD=OFF -DCMAKE_BUILD_TYPE=Release
-DCMAKE_INSTALL_LIBDIR=lib
-DCMAKE_INSTALL_PREFIX=/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0
-DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON
-DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_UNITY_BUILD=OFF -G
'Unix Makefiles' /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp
-- Building using CMake version: 3.17.5
-- 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: 7.0.0 (full: '7.0.0')
-- Arrow SO version: 700 (full: 700.0.0)
-- clang-tidy 12 not found
-- clang-format 12 not found
-- Could NOT find ClangTools (missing: CLANG_FORMAT_BIN CLANG_TIDY_BIN)
-- infer not found
fatal: Not a git repository (or any parent up to mount point /tmp)
Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
-- Found Python3: /usr/bin/python3.6 (found version "3.6.8") found
components: Interpreter
-- Found cpplint executable at
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp/build-support/cpplint.py
-- System processor: x86_64
-- Performing Test CXX_SUPPORTS_SSE4_2
-- Performing Test CXX_SUPPORTS_SSE4_2 - Success
-- Performing Test CXX_SUPPORTS_AVX2
-- Performing Test CXX_SUPPORTS_AVX2 - Failed
-- 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_ABSL_BUILD_VERSION: 20210324.2
-- ARROW_ABSL_BUILD_SHA256_CHECKSUM:
59b862f50e710277f8ede96f083a5bb8d7c9595376146838b9580be90374ee1f
-- ARROW_AWSSDK_BUILD_VERSION: 1.8.133
-- ARROW_AWSSDK_BUILD_SHA256_CHECKSUM:
d6c495bc06be5e21dac716571305d77437e7cfd62a2226b8fe48d9ab5785a8d6
-- ARROW_AWS_CHECKSUMS_BUILD_VERSION: v0.1.12
-- ARROW_AWS_CHECKSUMS_BUILD_SHA256_CHECKSUM:
394723034b81cc7cd528401775bc7aca2b12c7471c92350c80a0e2fb9d2909fe
-- ARROW_AWS_C_COMMON_BUILD_VERSION: v0.6.9
-- ARROW_AWS_C_COMMON_BUILD_SHA256_CHECKSUM:
928a3e36f24d1ee46f9eec360ec5cebfe8b9b8994fe39d4fa74ff51aebb12717
-- ARROW_AWS_C_EVENT_STREAM_BUILD_VERSION: v0.1.5
-- ARROW_AWS_C_EVENT_STREAM_BUILD_SHA256_CHECKSUM:
f1b423a487b5d6dca118bfc0d0c6cc596dc476b282258a3228e73a8f730422d4
-- ARROW_BOOST_BUILD_VERSION: 1.75.0
-- ARROW_BOOST_BUILD_SHA256_CHECKSUM:
267e04a7c0bfe85daf796dedc789c3a27a76707e1c968f0a2a87bb96331e2b61
-- ARROW_BROTLI_BUILD_VERSION: v1.0.9
-- ARROW_BROTLI_BUILD_SHA256_CHECKSUM:
f9e8d81d0405ba66d181529af42a3354f838c939095ff99930da6aa9cdf6fe46
-- ARROW_BZIP2_BUILD_VERSION: 1.0.8
-- ARROW_BZIP2_BUILD_SHA256_CHECKSUM:
ab5a03176ee106d3f0fa90e381da478ddae405918153cca248e682cd0c4a2269
-- ARROW_CARES_BUILD_VERSION: 1.17.2
-- ARROW_CARES_BUILD_SHA256_CHECKSUM:
4803c844ce20ce510ef0eb83f8ea41fa24ecaae9d280c468c582d2bb25b3913d
-- ARROW_CRC32C_BUILD_VERSION: 1.1.2
-- ARROW_CRC32C_BUILD_SHA256_CHECKSUM:
ac07840513072b7fcebda6e821068aa04889018f24e10e46181068fb214d7e56
-- ARROW_GBENCHMARK_BUILD_VERSION: v1.6.0
-- ARROW_GBENCHMARK_BUILD_SHA256_CHECKSUM:
1f71c72ce08d2c1310011ea6436b31e39ccab8c2db94186d26657d41747c85d6
-- ARROW_GFLAGS_BUILD_VERSION: v2.2.2
-- ARROW_GFLAGS_BUILD_SHA256_CHECKSUM:
34af2f15cf7367513b352bdcd2493ab14ce43692d2dcd9dfc499492966c64dcf
-- ARROW_GLOG_BUILD_VERSION: v0.5.0
-- ARROW_GLOG_BUILD_SHA256_CHECKSUM:
eede71f28371bf39aa69b45de23b329d37214016e2055269b3b5e7cfd40b59f5
-- ARROW_GOOGLE_CLOUD_CPP_BUILD_VERSION: v1.35.0
-- ARROW_GOOGLE_CLOUD_CPP_BUILD_SHA256_CHECKSUM:
e4e9eac1e7999eff195db270bc2a719004660b3730ebb5d2f444f2d2057e49b2
-- ARROW_GRPC_BUILD_VERSION: v1.35.0
-- ARROW_GRPC_BUILD_SHA256_CHECKSUM:
27dd2fc5c9809ddcde8eb6fa1fa278a3486566dfc28335fca13eb8df8bd3b958
-- ARROW_GTEST_BUILD_VERSION: 1.11.0
-- ARROW_GTEST_BUILD_SHA256_CHECKSUM:
b4870bf121ff7795ba20d20bcdd8627b8e088f2d1dab299a031c1034eddc93d5
-- ARROW_JEMALLOC_BUILD_VERSION: 5.2.1
-- ARROW_JEMALLOC_BUILD_SHA256_CHECKSUM:
34330e5ce276099e2e8950d9335db5a875689a4c6a56751ef3b1d8c537f887f6
-- ARROW_LZ4_BUILD_VERSION: 8f61d8eb7c6979769a484cde8df61ff7c4c77765
-- ARROW_LZ4_BUILD_SHA256_CHECKSUM:
5b072d848f2f93fddb97e1143e22c1bd7fa19fc8431ee69e21758190a88125b4
-- ARROW_MIMALLOC_BUILD_VERSION: v1.7.3
-- ARROW_MIMALLOC_BUILD_SHA256_CHECKSUM:
0f987bda01ca9df87ec90e9d98c63fa893ee61f3cca565e5ca5ed744fdcc5109
-- ARROW_NLOHMANN_JSON_BUILD_VERSION: v3.10.2
-- ARROW_NLOHMANN_JSON_BUILD_SHA256_CHECKSUM:
081ed0f9f89805c2d96335c3acfa993b39a0a5b4b4cef7edb68dd2210a13458c
-- ARROW_OPENTELEMETRY_BUILD_VERSION: v1.1.0
-- ARROW_OPENTELEMETRY_BUILD_SHA256_CHECKSUM:
f8fd3adddd47be382dc79c19d7e7efcf86a0dfbb5a237db6e0618dbb7eb8e058
-- ARROW_OPENTELEMETRY_PROTO_BUILD_VERSION: v0.11.0
-- ARROW_OPENTELEMETRY_PROTO_BUILD_SHA256_CHECKSUM:
985367f8905e91018e636cbf0d83ab3f834b665c4f5899a27d10cae9657710e2
-- ARROW_ORC_BUILD_VERSION: 1.7.2
-- ARROW_ORC_BUILD_SHA256_CHECKSUM:
ef39bae755116fecb07fb4334656f984ba8ce7cdb1c64de078d3ed186b286007
-- ARROW_PROTOBUF_BUILD_VERSION: v3.18.1
-- ARROW_PROTOBUF_BUILD_SHA256_CHECKSUM:
b8ab9bbdf0c6968cf20060794bc61e231fae82aaf69d6e3577c154181991f576
-- ARROW_RAPIDJSON_BUILD_VERSION: 1a803826f1197b5e30703afe4b9c0e7dd48074f5
-- ARROW_RAPIDJSON_BUILD_SHA256_CHECKSUM:
0b6b780b6c534bfb0b23d29910bfe361e486bcfeaf106db8bc8995792072905a
-- ARROW_RE2_BUILD_VERSION: 2021-11-01
-- ARROW_RE2_BUILD_SHA256_CHECKSUM:
8c45f7fba029ab41f2a7e6545058d9eec94eef97ce70df58e92d85cfc08b4669
-- ARROW_SNAPPY_BUILD_VERSION: 1.1.9
-- ARROW_SNAPPY_BUILD_SHA256_CHECKSUM:
75c1fbb3d618dd3a0483bff0e26d0a92b495bbe5059c8b4f1c962b478b6e06e7
-- ARROW_SNAPPY_OLD_BUILD_VERSION: 1.1.8
-- ARROW_SNAPPY_OLD_BUILD_SHA256_CHECKSUM:
16b677f07832a612b0836178db7f374e414f94657c138e6993cbfc5dcc58651f
-- ARROW_THRIFT_BUILD_VERSION: 0.13.0
-- ARROW_THRIFT_BUILD_SHA256_CHECKSUM:
7ad348b88033af46ce49148097afe354d513c1fca7c607b59c33ebb6064b5179
-- ARROW_UTF8PROC_BUILD_VERSION: v2.7.0
-- ARROW_UTF8PROC_BUILD_SHA256_CHECKSUM:
4bb121e297293c0fd55f08f83afab6d35d48f0af4ecc07523ad8ec99aa2b12a1
-- ARROW_XSIMD_BUILD_VERSION: aeec9c872c8b475dedd7781336710f2dd2666cb2
-- ARROW_XSIMD_BUILD_SHA256_CHECKSUM:
0a841e6c8acf216150e4fc19fca8e29fbab9614b56ac7b96e56019264ca27b26
-- ARROW_ZLIB_BUILD_VERSION: 1.2.11
-- ARROW_ZLIB_BUILD_SHA256_CHECKSUM:
c3e5e9fdd5004dcb542feda5ee4f0ff0744628baf8ed2dd5d66f8ca1197cb1a1
-- ARROW_ZSTD_BUILD_VERSION: v1.5.1
-- ARROW_ZSTD_BUILD_SHA256_CHECKSUM:
dc05773342b28f11658604381afd22cb0a13e8ba17ff2bd7516df377060c18dd
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Check if compiler accepts -pthread
-- Check if compiler accepts -pthread - yes
-- Found Threads: TRUE
-- Checking for module 'thrift'
-- No package 'thrift' found
-- Could NOT find Thrift: Found unsuitable version "", but required is at
least "0.11.0" (found THRIFT_LIB-NOTFOUND)
-- Looking for _M_ARM64
-- Looking for _M_ARM64 - not found
-- Looking for __SIZEOF_INT128__
-- Looking for __SIZEOF_INT128__ - found
-- Could NOT find Boost (missing: Boost_INCLUDE_DIR system filesystem)
(Required is at least version "1.58")
-- Boost include dir:
/tmp/RtmpObd2i3/file5310bef585/boost_ep-prefix/src/boost_ep
-- Boost libraries: boost_system_static;boost_filesystem_static
-- Found Snappy: /usr/lib64/libsnappy.so
-- Providing CMake module for Snappy
-- Building without OpenSSL support. Minimum OpenSSL version 1.0.2 required.
Building Apache Thrift from source
CMake Warning at cmake_modules/FindRapidJSONAlt.cmake:25 (find_package):
By not providing "FindRapidJSON.cmake" in CMAKE_MODULE_PATH this project
has asked CMake to find a package configuration file provided by
"RapidJSON", but CMake did not find one.
Could not find a package configuration file provided by "RapidJSON"
(requested version 1.1.0) with any of the following names:
RapidJSONConfig.cmake
rapidjson-config.cmake
Add the installation prefix of "RapidJSON" to CMAKE_PREFIX_PATH or set
"RapidJSON_DIR" to a directory containing one of the above files. If
"RapidJSON" provides a separate development package or SDK, be sure it has
been installed.
Call Stack (most recent call first):
cmake_modules/ThirdpartyToolchain.cmake:231 (find_package)
cmake_modules/ThirdpartyToolchain.cmake:2003 (resolve_dependency)
CMakeLists.txt:546 (include)
-- Could NOT find RapidJSONAlt (missing: RAPIDJSON_INCLUDE_DIR) (Required
is at least version "1.1.0")
-- Building RapidJSON from source
-- Building xsimd from source
-- Checking for module 'liblz4'
-- Found liblz4, version 1.8.3
-- Found Lz4: /usr/lib64/liblz4.so
-- Providing CMake module for Lz4
CMake Warning at cmake_modules/Findre2Alt.cmake:25 (find_package):
By not providing "Findre2.cmake" in CMAKE_MODULE_PATH this project has
asked CMake to find a package configuration file provided by "re2", but
CMake did not find one.
Could not find a package configuration file provided by "re2" with any of
the following names:
re2Config.cmake
re2-config.cmake
Add the installation prefix of "re2" to CMAKE_PREFIX_PATH or set "re2_DIR"
to a directory containing one of the above files. If "re2" provides a
separate development package or SDK, be sure it has been installed.
Call Stack (most recent call first):
cmake_modules/ThirdpartyToolchain.cmake:231 (find_package)
cmake_modules/ThirdpartyToolchain.cmake:2277 (resolve_dependency)
CMakeLists.txt:546 (include)
-- Checking for module 're2'
-- No package 're2' found
-- Could NOT find re2Alt (missing: RE2_LIB RE2_INCLUDE_DIR)
-- Building RE2 from source
-- Could NOT find utf8proc: Found unsuitable version "", but required is at
least "2.2.0" (found utf8proc_LIB-NOTFOUND)
-- Building utf8proc from source
-- Found hdfs.h at:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp/thirdparty/hadoop/include/hdfs.h
-- All bundled static libraries: thrift::thrift;re2::re2;utf8proc::utf8proc
-- CMAKE_C_FLAGS: -O3 -DNDEBUG -Wall -Wno-attributes -msse4.2
-- CMAKE_CXX_FLAGS: -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
-- Creating bundled static library target arrow_bundled_dependencies at
/tmp/RtmpObd2i3/file5310bef585/release/libarrow_bundled_dependencies.a
-- ---------------------------------------------------------------------
-- Arrow version: 7.0.0
--
-- Build configuration summary:
-- Generator: Unix Makefiles
-- Build type: RELEASE
-- Source directory: /tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/tools/cpp
-- Install prefix:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0
--
-- Compile and link options:
--
-- ARROW_CXXFLAGS="" [default=""]
-- Compiler flags to append when compiling Arrow
-- ARROW_BUILD_STATIC=ON [default=ON]
-- Build static libraries
-- ARROW_BUILD_SHARED=OFF [default=ON]
-- Build shared libraries
-- ARROW_PACKAGE_KIND="" [default=""]
-- Arbitrary string that identifies the kind of package
-- (for informational purposes)
-- ARROW_GIT_ID="" [default=""]
-- The Arrow git commit id (if any)
-- ARROW_GIT_DESCRIPTION="" [default=""]
-- The Arrow git commit description (if any)
-- ARROW_NO_DEPRECATED_API=OFF [default=OFF]
-- Exclude deprecated APIs from build
-- ARROW_USE_CCACHE=ON [default=ON]
-- Use ccache when compiling (if available)
-- ARROW_USE_LD_GOLD=OFF [default=OFF]
-- Use ld.gold for linking on Linux (if available)
-- ARROW_USE_PRECOMPILED_HEADERS=OFF [default=OFF]
-- Use precompiled headers when compiling
-- ARROW_SIMD_LEVEL=SSE4_2 [default=NONE|SSE4_2|AVX2|AVX512|NEON|DEFAULT]
-- Compile-time SIMD optimization level
-- ARROW_RUNTIME_SIMD_LEVEL=MAX [default=NONE|SSE4_2|AVX2|AVX512|MAX]
-- Max runtime SIMD optimization level
-- ARROW_ARMV8_ARCH=armv8-a [default=armv8-a|armv8-a+crc+crypto]
-- Arm64 arch and extensions
-- ARROW_ALTIVEC=ON [default=ON]
-- Build with Altivec if compiler has support
-- ARROW_RPATH_ORIGIN=OFF [default=OFF]
-- Build Arrow libraries with RATH set to $ORIGIN
-- ARROW_INSTALL_NAME_RPATH=ON [default=ON]
-- Build Arrow libraries with install_name set to @rpath
-- ARROW_GGDB_DEBUG=ON [default=ON]
-- Pass -ggdb flag to debug builds
--
-- Test and benchmark options:
--
-- ARROW_BUILD_EXAMPLES=OFF [default=OFF]
-- Build the Arrow examples
-- ARROW_BUILD_TESTS=OFF [default=OFF]
-- Build the Arrow googletest unit tests
-- ARROW_ENABLE_TIMING_TESTS=ON [default=ON]
-- Enable timing-sensitive tests
-- ARROW_BUILD_INTEGRATION=OFF [default=OFF]
-- Build the Arrow integration test executables
-- ARROW_BUILD_BENCHMARKS=OFF [default=OFF]
-- Build the Arrow micro benchmarks
-- ARROW_BUILD_BENCHMARKS_REFERENCE=OFF [default=OFF]
-- Build the Arrow micro reference benchmarks
-- ARROW_BUILD_OPENMP_BENCHMARKS=OFF [default=OFF]
-- Build the Arrow benchmarks that rely on OpenMP
-- ARROW_BUILD_DETAILED_BENCHMARKS=OFF [default=OFF]
-- Build benchmarks that do a longer exploration of performance
-- ARROW_TEST_LINKAGE=static [default=shared|static]
-- Linkage of Arrow libraries with unit tests executables.
-- ARROW_FUZZING=OFF [default=OFF]
-- Build Arrow Fuzzing executables
-- ARROW_LARGE_MEMORY_TESTS=OFF [default=OFF]
-- Enable unit tests which use large memory
--
-- Lint options:
--
-- ARROW_ONLY_LINT=OFF [default=OFF]
-- Only define the lint and check-format targets
-- ARROW_VERBOSE_LINT=OFF [default=OFF]
-- If off, 'quiet' flags will be passed to linting tools
-- ARROW_GENERATE_COVERAGE=OFF [default=OFF]
-- Build with C++ code coverage enabled
--
-- Checks options:
--
-- ARROW_TEST_MEMCHECK=OFF [default=OFF]
-- Run the test suite using valgrind --tool=memcheck
-- ARROW_USE_ASAN=OFF [default=OFF]
-- Enable Address Sanitizer checks
-- ARROW_USE_TSAN=OFF [default=OFF]
-- Enable Thread Sanitizer checks
-- ARROW_USE_UBSAN=OFF [default=OFF]
-- Enable Undefined Behavior sanitizer checks
--
-- Project component options:
--
-- ARROW_BUILD_UTILITIES=OFF [default=OFF]
-- Build Arrow commandline utilities
-- ARROW_COMPUTE=ON [default=OFF]
-- Build the Arrow Compute Modules
-- ARROW_CSV=ON [default=OFF]
-- Build the Arrow CSV Parser Module
-- ARROW_CUDA=OFF [default=OFF]
-- Build the Arrow CUDA extensions (requires CUDA toolkit)
-- ARROW_DATASET=ON [default=OFF]
-- Build the Arrow Dataset Modules
-- ARROW_ENGINE=OFF [default=OFF]
-- Build the Arrow Execution Engine
-- ARROW_FILESYSTEM=ON [default=OFF]
-- Build the Arrow Filesystem Layer
-- ARROW_FLIGHT=OFF [default=OFF]
-- Build the Arrow Flight RPC System (requires GRPC, Protocol Buffers)
-- ARROW_FLIGHT_SQL=OFF [default=OFF]
-- Build the Arrow Flight SQL extension
-- ARROW_GANDIVA=OFF [default=OFF]
-- Build the Gandiva libraries
-- ARROW_GCS=OFF [default=OFF]
-- Build Arrow with GCS support (requires the GCloud SDK for C++)
-- ARROW_HDFS=OFF [default=OFF]
-- Build the Arrow HDFS bridge
-- ARROW_HIVESERVER2=OFF [default=OFF]
-- Build the HiveServer2 client and Arrow adapter
-- ARROW_IPC=ON [default=ON]
-- Build the Arrow IPC extensions
-- ARROW_JEMALLOC=OFF [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_SKYHOOK=OFF [default=OFF]
-- Build the Skyhook libraries
-- ARROW_TENSORFLOW=OFF [default=OFF]
-- Build Arrow with TensorFlow support enabled
-- ARROW_TESTING=OFF [default=OFF]
-- Build the Arrow testing libraries
--
-- Thirdparty toolchain options:
--
-- ARROW_DEPENDENCY_SOURCE=AUTO
[default=AUTO|BUNDLED|SYSTEM|CONDA|VCPKG|BREW]
-- Method to use for acquiring arrow's build dependencies
-- ARROW_VERBOSE_THIRDPARTY_BUILD=OFF [default=OFF]
-- Show output from ExternalProjects rather than just logging to files
-- ARROW_DEPENDENCY_USE_SHARED=ON [default=ON]
-- Link to shared libraries
-- ARROW_BOOST_USE_SHARED=OFF [default=ON]
-- Rely on boost shared libraries where relevant
-- ARROW_BROTLI_USE_SHARED=ON [default=ON]
-- Rely on Brotli shared libraries where relevant
-- ARROW_BZ2_USE_SHARED=ON [default=ON]
-- Rely on Bz2 shared libraries where relevant
-- ARROW_GFLAGS_USE_SHARED=ON [default=ON]
-- Rely on GFlags shared libraries where relevant
-- ARROW_GRPC_USE_SHARED=ON [default=ON]
-- Rely on gRPC shared libraries where relevant
-- ARROW_LZ4_USE_SHARED=ON [default=ON]
-- Rely on lz4 shared libraries where relevant
-- ARROW_OPENSSL_USE_SHARED=ON [default=ON]
-- Rely on OpenSSL shared libraries where relevant
-- ARROW_PROTOBUF_USE_SHARED=ON [default=ON]
-- Rely on Protocol Buffers shared libraries where relevant
-- ARROW_THRIFT_USE_SHARED=ON [default=ON]
-- Rely on thrift shared libraries where relevant
-- ARROW_UTF8PROC_USE_SHARED=ON [default=ON]
-- Rely on utf8proc shared libraries where relevant
-- ARROW_SNAPPY_USE_SHARED=ON [default=ON]
-- Rely on snappy shared libraries where relevant
-- ARROW_UTF8PROC_USE_SHARED=ON [default=ON]
-- Rely on utf8proc shared libraries where relevant
-- ARROW_ZSTD_USE_SHARED=ON [default=ON]
-- Rely on zstd shared libraries where relevant
-- ARROW_USE_GLOG=OFF [default=OFF]
-- Build libraries with glog support for pluggable logging
-- ARROW_WITH_BACKTRACE=ON [default=ON]
-- Build with backtrace support
-- ARROW_WITH_OPENTELEMETRY=OFF [default=OFF]
-- Build libraries with OpenTelemetry support for distributed tracing
-- ARROW_WITH_BROTLI=OFF [default=OFF]
-- Build with Brotli compression
-- ARROW_WITH_BZ2=OFF [default=OFF]
-- Build with BZ2 compression
-- ARROW_WITH_LZ4=ON [default=OFF]
-- Build with lz4 compression
-- ARROW_WITH_SNAPPY=ON [default=OFF]
-- Build with Snappy compression
-- ARROW_WITH_ZLIB=OFF [default=OFF]
-- Build with zlib compression
-- ARROW_WITH_ZSTD=OFF [default=OFF]
-- Build with zstd compression
-- ARROW_WITH_UTF8PROC=ON [default=ON]
-- Build with support for Unicode properties using the utf8proc
library
-- (only used if ARROW_COMPUTE is ON or ARROW_GANDIVA is ON)
-- ARROW_WITH_RE2=ON [default=ON]
-- Build with support for regular expressions using the re2 library
-- (only used if ARROW_COMPUTE or ARROW_GANDIVA is ON)
--
-- Parquet options:
--
-- PARQUET_MINIMAL_DEPENDENCY=OFF [default=OFF]
-- Depend only on Thirdparty headers to build libparquet.
-- Always OFF if building binaries
-- PARQUET_BUILD_EXECUTABLES=OFF [default=OFF]
-- Build the Parquet executable CLI tools. Requires static libraries
to be built.
-- PARQUET_BUILD_EXAMPLES=OFF [default=OFF]
-- Build the Parquet examples. Requires static libraries to be built.
-- PARQUET_REQUIRE_ENCRYPTION=OFF [default=OFF]
-- Build support for encryption. Fail if OpenSSL is not found
--
-- Gandiva options:
--
-- ARROW_GANDIVA_JAVA=OFF [default=OFF]
-- Build the Gandiva JNI wrappers
-- ARROW_GANDIVA_STATIC_LIBSTDCPP=OFF [default=OFF]
-- Include -static-libstdc++ -static-libgcc when linking with
-- Gandiva static libraries
-- ARROW_GANDIVA_PC_CXX_FLAGS="" [default=""]
-- Compiler flags to append when pre-compiling Gandiva operations
--
-- Advanced developer options:
--
-- ARROW_EXTRA_ERROR_CONTEXT=OFF [default=OFF]
-- Compile with extra error context (line numbers, code)
-- ARROW_OPTIONAL_INSTALL=OFF [default=OFF]
-- If enabled install ONLY targets that have already been built.
Please be
-- advised that if this is enabled 'install' will fail silently on
components
-- that have not been built
-- Outputting build configuration summary to
/tmp/RtmpObd2i3/file5310bef585/cmake_summary.json
-- Configuring done
-- Generating done
-- Build files have been written to: /tmp/RtmpObd2i3/file5310bef585
+ /usr/bin/cmake3 --build . --target install
Scanning dependencies of target rapidjson_ep
Scanning dependencies of target boost_ep
[ 0%] Creating directories for 'rapidjson_ep'
[ 1%] Creating directories for 'boost_ep'
[ 2%] Performing download step (download, verify and extract) for
'rapidjson_ep'
[ 2%] Performing download step (download, verify and extract) for
'boost_ep'
-- rapidjson_ep download command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/rapidjson_ep-stamp/rapidjson_ep-download-*.log
[ 2%] No patch step for 'rapidjson_ep'
[ 2%] No update step for 'rapidjson_ep'
[ 3%] Performing configure step for 'rapidjson_ep'
-- rapidjson_ep configure command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/rapidjson_ep-stamp/rapidjson_ep-configure-*.log
[ 3%] Performing build step for 'rapidjson_ep'
-- rapidjson_ep build command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/rapidjson_ep-stamp/rapidjson_ep-build-*.log
[ 3%] Performing install step for 'rapidjson_ep'
-- rapidjson_ep install command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/rapidjson_ep-stamp/rapidjson_ep-install-*.log
[ 4%] Completed 'rapidjson_ep'
[ 4%] Built target rapidjson_ep
Scanning dependencies of target xsimd_ep
[ 4%] Creating directories for 'xsimd_ep'
[ 4%] Performing download step (download, verify and extract) for
'xsimd_ep'
-- xsimd_ep download command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/xsimd_ep-stamp/xsimd_ep-download-*.log
[ 4%] No patch step for 'xsimd_ep'
[ 5%] No update step for 'xsimd_ep'
[ 5%] Performing configure step for 'xsimd_ep'
-- xsimd_ep configure command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/xsimd_ep-stamp/xsimd_ep-configure-*.log
[ 6%] Performing build step for 'xsimd_ep'
-- xsimd_ep build command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/xsimd_ep-stamp/xsimd_ep-build-*.log
[ 7%] Performing install step for 'xsimd_ep'
-- xsimd_ep install command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/src/xsimd_ep-stamp/xsimd_ep-install-*.log
[ 7%] Completed 'xsimd_ep'
[ 7%] Built target xsimd_ep
Scanning dependencies of target re2_ep
[ 7%] Creating directories for 're2_ep'
[ 7%] Performing download step (download, verify and extract) for 're2_ep'
-- re2_ep download command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/re2_ep-prefix/src/re2_ep-stamp/re2_ep-download-*.log
[ 7%] No patch step for 're2_ep'
[ 8%] No update step for 're2_ep'
[ 8%] Performing configure step for 're2_ep'
-- re2_ep configure command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/re2_ep-prefix/src/re2_ep-stamp/re2_ep-configure-*.log
[ 9%] Performing build step for 're2_ep'
-- boost_ep download command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/boost_ep-prefix/src/boost_ep-stamp/boost_ep-download-*.log
[ 10%] No patch step for 'boost_ep'
[ 10%] No update step for 'boost_ep'
[ 10%] No configure step for 'boost_ep'
[ 10%] No build step for 'boost_ep'
[ 10%] No install step for 'boost_ep'
[ 10%] Completed 'boost_ep'
[ 10%] Built target boost_ep
Scanning dependencies of target utf8proc_ep
[ 10%] Creating directories for 'utf8proc_ep'
[ 11%] Performing download step (download, verify and extract) for
'utf8proc_ep'
-- utf8proc_ep download command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-download-*.log
[ 11%] No patch step for 'utf8proc_ep'
[ 11%] No update step for 'utf8proc_ep'
[ 12%] Performing configure step for 'utf8proc_ep'
-- utf8proc_ep configure command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-configure-*.log
[ 12%] Performing build step for 'utf8proc_ep'
-- utf8proc_ep build command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-build-*.log
[ 12%] Performing install step for 'utf8proc_ep'
-- utf8proc_ep install command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/utf8proc_ep-prefix/src/utf8proc_ep-stamp/utf8proc_ep-install-*.log
[ 13%] Completed 'utf8proc_ep'
[ 13%] Built target utf8proc_ep
Scanning dependencies of target thrift_ep
[ 14%] Creating directories for 'thrift_ep'
[ 14%] Performing download step (download, verify and extract) for
'thrift_ep'
-- thrift_ep download command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-download-*.log
[ 15%] No patch step for 'thrift_ep'
[ 15%] No update step for 'thrift_ep'
[ 15%] Performing configure step for 'thrift_ep'
-- thrift_ep configure command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-configure-*.log
[ 15%] Performing build step for 'thrift_ep'
-- re2_ep build command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/re2_ep-prefix/src/re2_ep-stamp/re2_ep-build-*.log
[ 16%] Performing install step for 're2_ep'
-- re2_ep install command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/re2_ep-prefix/src/re2_ep-stamp/re2_ep-install-*.log
[ 16%] Completed 're2_ep'
[ 16%] Built target re2_ep
-- thrift_ep build command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-build-*.log
[ 16%] Performing install step for 'thrift_ep'
-- thrift_ep install command succeeded. See also
/tmp/RtmpObd2i3/file5310bef585/thrift_ep-prefix/src/thrift_ep-stamp/thrift_ep-install-*.log
[ 16%] Completed 'thrift_ep'
[ 16%] Built target thrift_ep
Scanning dependencies of target toolchain
Scanning dependencies of target arrow_bundled_dependencies
[ 16%] Built target toolchain
[ 16%] Bundling
/tmp/RtmpObd2i3/file5310bef585/release/libarrow_bundled_dependencies.a
Scanning dependencies of target arrow_dependencies
[ 16%] Built target arrow_dependencies
[ 16%] Built target arrow_bundled_dependencies
Scanning dependencies of target arrow_dataset_objlib
Scanning dependencies of target arrow_objlib
[ 16%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/dataset.cc.o
[ 16%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/array_base.cc.o
[ 16%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/dataset_writer.cc.o
[ 17%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/discovery.cc.o
[ 17%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/array_binary.cc.o
[ 18%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/array_decimal.cc.o
[ 18%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/array_dict.cc.o
[ 18%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/file_base.cc.o
[ 18%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/file_ipc.cc.o
[ 18%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/array_nested.cc.o
[ 19%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/array_primitive.cc.o
[ 19%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/builder_adaptive.cc.o
[ 20%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/partition.cc.o
[ 20%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/builder_base.cc.o
[ 21%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/builder_binary.cc.o
[ 21%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/builder_decimal.cc.o
[ 21%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/plan.cc.o
[ 21%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/builder_dict.cc.o
[ 21%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/projector.cc.o
[ 22%] Building CXX object
src/arrow/dataset/CMakeFiles/arrow_dataset_objlib.dir/scanner.cc.o
[ 23%] Building CXX object
src/arrow/CMakeFiles/arrow_objlib.dir/array/builder_nested.cc.o
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In function 'arrow::Result<arrow::compute::Declaration>
arrow::compute::Convert(const
org::apache::arrow::computeir::flatbuf::Relation&)':
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/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/gcsfs.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/hdfs.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/localfs.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/mockfs.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/path_util.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/s3_test_util.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/s3fs.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/test_util.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/filesystem/type_fwd.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/pkgconfig/arrow-filesystem.pc
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/api.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/dictionary.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/feather.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/json_simple.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/message.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/options.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/reader.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/test_common.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/type_fwd.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/util.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/ipc/writer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/api.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/chunked_builder.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/chunker.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/converter.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/object_parser.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/object_writer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/options.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/parser.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/rapidjson_defs.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/reader.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/test_common.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/arrow/json/type_fwd.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/pkgconfig/arrow-json.pc
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/libparquet.a
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/FindParquet.cmake
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/ParquetTargets.cmake
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/ParquetTargets-release.cmake
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/ParquetConfig.cmake
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/cmake/arrow/ParquetConfigVersion.cmake
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib/pkgconfig/parquet.pc
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/bloom_filter.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/column_page.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/column_reader.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/column_scanner.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/column_writer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encoding.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/exception.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/file_reader.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/file_writer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/hasher.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/level_comparison.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/level_comparison_inc.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/level_conversion.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/level_conversion_inc.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/metadata.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/murmur3.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/pch.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/platform.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/printer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/properties.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/schema.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/statistics.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/stream_reader.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/stream_writer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/test_util.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/type_fwd.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/types.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/windows_compatibility.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/windows_fixup.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/parquet_version.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/api/io.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/api/reader.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/api/schema.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/api/writer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/arrow/reader.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/arrow/schema.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/arrow/test_util.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/arrow/writer.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/crypto_factory.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/encryption.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/file_key_material_store.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/file_key_unwrapper.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/file_key_wrapper.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/key_encryption_key.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/key_material.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/key_metadata.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/key_toolkit.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/kms_client.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/kms_client_factory.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/local_wrap_kms_client.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/test_encryption_util.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/test_in_memory_kms.h
-- Installing:
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include/parquet/encryption/two_level_cache_with_expiration.h
+ popd
/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow
PKG_CFLAGS=-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON
PKG_LIBS=-L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
-larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
-llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 RTasks.cpp -o RTasks.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 altrep.cpp -o altrep.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 bridge.cpp -o bridge.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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-exec.cpp -o
compute-exec.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 config.cpp -o config.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 imports.cpp -o imports.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 r_to_arrow.cpp -o
r_to_arrow.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 scalar.cpp -o scalar.o
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 -I"/usr/include/R" -DNDEBUG
-I/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/include
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET
-DARROW_R_WITH_JSON -I"/usr/lib64/R/library/cpp11/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 type_infer.cpp -o
type_infer.o
g++ -m64 -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o arrow.so
RTasks.o altrep.o array.o array_to_vector.o arraydata.o arrowExports.o
bridge.o buffer.o chunkedarray.o compression.o compute-exec.o compute.o
config.o csv.o dataset.o datatype.o expression.o feather.o field.o
filesystem.o imports.o io.o json.o memorypool.o message.o parquet.o
r_to_arrow.o recordbatch.o recordbatchreader.o recordbatchwriter.o scalar.o
schema.o symbols.o table.o threadpool.o type_infer.o
-L/tmp/Rtmp8rFBf9/R.INSTALL2f7e48ba40/arrow/libarrow/arrow-7.0.0/lib
-larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies
-llz4 -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
-L/usr/lib64/R/lib -lR
installing to /usr/lib64/R/library/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
CsvTableReader html
DataType html
Dataset html
DictionaryType html
Expression html
FeatherReader html
Field html
FileFormat html
FileInfo html
FileSelector html
FileSystem html
FileWriteOptions html
FixedWidthType html
FragmentScanOptions html
InputStream html
MemoryPool html
Message html
MessageReader html
OutputStream html
ParquetArrowReaderProperties html
ParquetFileReader html
ParquetFileWriter html
ParquetWriterProperties html
Partitioning html
RecordBatch html
RecordBatchReader html
RecordBatchWriter html
Scalar html
Scanner html
Schema html
Table html
array html
arrow-package html
arrow_available html
arrow_info html
buffer html
call_function html
cast_options html
codec_is_available html
compression html
contains_regex html
copy_files html
cpu_count html
create_package_with_all_dependencies html
data-type html
dataset_factory html
default_memory_pool html
dictionary html
enums html
flight_connect html
flight_get html
flight_put html
get_stringr_pattern_options html
hive_partition html
install_arrow html
install_pyarrow html
io_thread_count html
list_compute_functions html
list_flights html
load_flight_server html
make_readable_file html
map_batches html
match_arrow 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_schema html
recycle_scalars html
reexports html
register_binding html
repeat_value_as_array html
s3_bucket html
to_arrow html
to_duckdb html
type html
unify_schemas html
value_counts html
write_csv_arrow html
write_dataset 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
libgcc_s.so.1 must be installed for pthread_cancel to work
sh: line 1: 3916 Aborted (core dumped)
'/usr/lib64/R/bin/R' --no-save --slave 2>&1 <
'/tmp/Rtmp8rFBf9/file2f3cba608e'
Error: package or namespace load failed for 'arrow' in dyn.load(file,
DLLpath = DLLpath, ...):
unable to load shared object
'/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
symbol: _ZN6snappy11RawCompressEPKcmPcPm
Error: loading failed
Execution halted
ERROR: loading failed
* removing '/usr/lib64/R/library/arrow'
The downloaded source packages are in
'/tmp/RtmpvhoOfy/downloaded_packages'
Updating HTML index of packages in '.Library'
Warning messages:
1: In install.packages("arrow") :
installation of package 'arrow' had non-zero exit status
2: In file.create(f.tg) :
cannot create file '/usr/share/doc/R-3.6.0/html/packages.html', reason
'No such file or directory'
3: In make.packages.html(.Library) : cannot update HTML package index
>
Re: [R] Install arrow package: arrow.so undefined symbol
Posted by Dragoș Moldovan-Grünfeld <dr...@gmail.com>.
Hi Rares,
Thanks for getting in touch. Would you be able to set the environment variable ARROW_R_DEV=true, retry the installation, and then, if it still fails, share the log with us?
Kind regards,
Dragos
> On 30 Apr 2022, at 03:05, Rares Vernica <rv...@gmail.com> wrote:
>
> Hello,
>
> I'm trying to do install.packages("arrow") in R 3.6.0 on CentOS 7 and it
> errors out like this:
>
> $ cat /etc/redhat-release
> CentOS Linux release 7.9.2009 (Core)
>
> $ R
> R version 3.6.0 (2019-04-26) -- "Planting of a Tree"
>> install.packages("arrow")
> ...
> ** building package indices
> ** installing vignettes
> ** testing if installed package can be loaded from temporary location
> libgcc_s.so.1 must be installed for pthread_cancel to work
> sh: line 1: 7367 Aborted (core dumped)
> '/usr/lib64/R/bin/R' --no-save --slave 2>&1 <
> '/tmp/RtmpLFPpbM/fileda264de3f6a'
> Error: package or namespace load failed for 'arrow' in dyn.load(file,
> DLLpath = DLLpath, ...):
> unable to load shared object
> '/usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
> /usr/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
> symbol: _ZN6snappy11RawCompressEPKcmPcPm
> Error: loading failed
> Execution halted
> ERROR: loading failed
> * removing '/usr/lib64/R/library/arrow'
> The downloaded source packages are in
> '/tmp/RtmpBr83oT/downloaded_packages'
> Updating HTML index of packages in '.Library'
> Warning messages:
> 1: In install.packages("arrow") :
> installation of package 'arrow' had non-zero exit status
> 2: In file.create(f.tg) :
> cannot create file '/usr/share/doc/R-3.6.0/html/packages.html', reason
> 'No such file or directory'
> 3: In make.packages.html(.Library) : cannot update HTML package index
>
>
> Is this expected? Is there a workaround?
>
> Thank you!
> Rares