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Posted to jira@arrow.apache.org by "Kouhei Sutou (Jira)" <ji...@apache.org> on 2022/12/17 21:31:00 UTC
[jira] [Resolved] (ARROW-17692) [R] Arrow Package Installation: undefined symbol error
[ https://issues.apache.org/jira/browse/ARROW-17692?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel ]
Kouhei Sutou resolved ARROW-17692.
----------------------------------
Resolution: Fixed
Issue resolved by pull request 14235
https://github.com/apache/arrow/pull/14235
> [R] Arrow Package Installation: undefined symbol error
> -------------------------------------------------------
>
> Key: ARROW-17692
> URL: https://issues.apache.org/jira/browse/ARROW-17692
> Project: Apache Arrow
> Issue Type: Bug
> Components: R
> Reporter: Wayne Tu
> Assignee: Nicola Crane
> Priority: Major
> Labels: pull-request-available
> Fix For: 11.0.0
>
> Time Spent: 10h 50m
> Remaining Estimate: 0h
>
> Hi,
> I encountered "undefined symbol: _ZTIN3Aws4Auth22AWSCredentialsProviderE
> {noformat}
> Error: loading failed
> Execution halted
> ERROR: loading failed" errors when trying to install arrow under R 4.1.3 with devtoolset-8 (gcc version 8.3.1).
> > Sys.getenv("LD_LIBRARY_PATH")
> [1] "/usr/local/lib64:/usr/local/lib64/cmake:/lib64:/opt/rh/devtoolset-8/root/usr/lib64:/opt/rh/devtoolset-8/root/usr/lib/gcc/x86_64-redhat-linux/8:/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8:/opt/R/4.1.3/lib/R/lib:/usr/local/lib:/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-1.el7_9.x86_64/jre/lib/amd64/server"
> > Sys.getenv("PATH")
> [1] "/apps/Python/3.9.12/bin:/usr/local/cmake-3.21.4-linux-x86_64/bin:/opt/rh/devtoolset-8/root/usr/bin:/apps/bin:/usr/local/bin:/bin:/usr/bin"
> > Sys.setenv("NOT_CRAN"=TRUE)
> > Sys.setenv("LIBARROW_BINARY" = FALSE)
> > Sys.setenv("ARROW_R_DEV" = TRUE)
> > Sys.setenv("ARROW_USE_PKG_CONFIG" = FALSE)
> > Sys.setenv(ARROW_S3 = "ON")
> > Sys.setenv(CMAKE = "/apps/cmake-3.21.4-linux-x86_64/bin/cmake")
> > sessionInfo()
> R version 4.1.3 (2022-03-10)
> Platform: x86_64-pc-linux-gnu (64-bit)
> Running under: Red Hat Enterprise Linux Server 7.9 (Maipo)
> Matrix products: default
> BLAS/LAPACK: /usr/lib64/libopenblasp-r0.3.3.so
> 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
> attached base packages:
> [1] stats graphics grDevices utils datasets methods base
> loaded via a namespace (and not attached):
> [1] compiler_4.1.3
> > arrow::arrow_available()
> Error in loadNamespace(x) : there is no package called ‘arrow’
> > system("gcc -v")
> Using built-in specs.
> COLLECT_GCC=gcc
> COLLECT_LTO_WRAPPER=/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/lto-wrapper
> Target: x86_64-redhat-linux
> Configured with: ../configure --enable-bootstrap --enable-languages=c,c++,fortran,lto --prefix=/opt/rh/devtoolset-8/root/usr --mandir=/opt/rh/devtoolset-8/root/usr/share/man --infodir=/opt/rh/devtoolset-8/root/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-shared --enable-threads=posix --enable-checking=release --enable-multilib --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-linker-build-id --with-gcc-major-version-only --with-linker-hash-style=gnu --with-default-libstdcxx-abi=gcc4-compatible --enable-plugin --enable-initfini-array --with-isl=/builddir/build/BUILD/gcc-8.3.1-20190311/obj-x86_64-redhat-linux/isl-install --disable-libmpx --enable-gnu-indirect-function --with-tune=generic --with-arch_32=x86-64 --build=x86_64-redhat-linux
> Thread model: posix
> gcc version 8.3.1 20190311 (Red Hat 8.3.1-3) (GCC)
>
> > install.packages(mpkg, repos=NULL, type="source")
> ......
> ......
> ** building package indices
> ** installing vignettes
> ** testing if installed package can be loaded from temporary location
> Error: package or namespace load failed for ‘arrow’ in dyn.load(file, DLLpath = DLLpath, ...):
> unable to load shared object '/home/user1/R/x86_64-pc-linux-gnu/4.1.3/00LOCK-arrow/00new/arrow/libs/arrow.so':
> /home/user1/R/x86_64-pc-linux-gnu/4.1.3/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined symbol: _ZTIN3Aws4Auth22AWSCredentialsProviderE
> Error: loading failed
> Execution halted
> ERROR: loading failed
> * removing ‘/home/user1/R/x86_64-pc-linux-gnu/4.1.3/arrow’
> Warning message:
> In install.packages(mpkg, repos = NULL, type = "source") :
> installation of package ‘/apps/tmp/RtmpEqJN3J/downloaded_packages/arrow_8.0.0.tar.gz’ had non-zero exit status
> {noformat}
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