honghh2018 commented on issue #40326:
URL: https://github.com/apache/arrow/issues/40326#issuecomment-2162709120
install.package('arrow')
I had the save exact same issue,
** building package indices
** 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: 155091 Aborted (core dumped) R_TESTS=
'/share/apps/R/R-4.3.2/lib64/R/bin/R' --no-save --no-restore --no-echo 2>&1 <
'/tmp/RtmpmF69pM/file1f0c35ca7b736'
Error: package or namespace load failed for ‘arrow’ in dyn.load(file,
DLLpath = DLLpath, ...):
unable to load shared object
'/share/apps/R/R-4.3.2/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so':
/share/apps/R/R-4.3.2/lib64/R/library/00LOCK-arrow/00new/arrow/libs/arrow.so:
undefined symbol: _ZN6snappy11RawCompressEPKcmPcPm
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/share/apps/R/R-4.3.2/lib64/R/library/arrow’
Warning message:
In
install.packages("https://cran.r-project.org/src/contrib/Archive/arrow/arrow_13.0.0.tar.gz";)
:
installation of package
‘/tmp/RtmpqqWaU7/downloaded_packages/arrow_13.0.0.tar.gz’ had non-zero exit
status
the ldd
$ldd /share/apps/biosoft/arrow-latest/lib64/libarrow_dataset.so
linux-vdso.so.1 => (0x00007fff38bc6000)
libparquet.so.1700 => not found
libarrow_acero.so.1700 => not found
libarrow.so.1700 => not found
libstdc++.so.6 => /usr/local/lib64/libstdc++.so.6 (0x00002aab1e8f1000)
libm.so.6 => /usr/lib64/libm.so.6 (0x00002aab1eccb000)
libgcc_s.so.1 => /usr/local/gcc-9.3.0/lib64/libgcc_s.so.1
(0x00002aab1efcd000)
libc.so.6 => /usr/lib64/libc.so.6 (0x00002aab1f1e5000)
/lib64/ld-linux-x86-64.so.2 (0x00002aab1e2e4000)
i build the arrow myself
git clone https://github.com/apache/arrow.git
cd arrow
mkdir cpp/build
cd cpp/build
#cmake .. -DCMAKE_INSTALL_PREFIX=/share/apps/biosoft/arrow
-DARROW_PARQUET=ON -DARROW_PYTHON=ON -DARROW_BOOST_USE_SHARED=ON
-DARROW_BUILD_TESTS=OFF -DARROW_ACERO=ON -DARROW_DATASET=ON -DARROW_JSON=ON
#cmake .. -DCMAKE_CXX_STANDARD=17
-DCMAKE_INSTALL_PREFIX=/share/apps/biosoft/arrow-latest \
# -DARROW_PARQUET=ON -DARROW_PYTHON=ON -DARROW_BOOST_USE_SHARED=ON \
# -DARROW_BUILD_TESTS=OFF -DARROW_ACERO=ON -DARROW_DATASET=ON
-DARROW_JSON=ON
cmake .. -DCMAKE_C_COMPILER=/usr/local/gcc-9.3.0/bin/gcc \
-DCMAKE_CXX_COMPILER=/usr/local/gcc-9.3.0/bin/g++ \
#-DCMAKE_CXX_STANDARD=17 \
-DCMAKE_INSTALL_PREFIX=/share/apps/biosoft/arrow-latest \
-DARROW_PARQUET=ON \
-DARROW_PYTHON=ON \
-DARROW_BOOST_USE_SHARED=ON \
-DARROW_BUILD_TESTS=OFF \
-DARROW_ACERO=ON \
-DARROW_DATASET=ON \
-DARROW_JSON=ON
make -j$(nproc)
make install
how to fix this error? any advice would be appreciated
best hanhuihong
> sessionInfo()
R version 4.3.2 (2023-10-31)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)
Matrix products: default
BLAS: /share/apps/R/R-4.3.2/lib64/R/lib/libRblas.so
LAPACK: /share/apps/R/R-4.3.2/lib64/R/lib/libRlapack.so; LAPACK version
3.11.0
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
time zone: Asia/Shanghai
tzcode source: system (glibc)
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] compiler_4.3.2 tools_4.3.2
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