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Posted to issues@arrow.apache.org by "Taeke (Jira)" <ji...@apache.org> on 2020/02/21 15:57:00 UTC
[jira] [Updated] (ARROW-7908) Can't install R-library arrow without
setting LIBARROW_DOWNLOAD=true
[ https://issues.apache.org/jira/browse/ARROW-7908?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel ]
Taeke updated ARROW-7908:
-------------------------
Description:
Hi,
Installing arrow in R does not work intuitively on our server.
{code:r}
install.packages("arrow")`
{code}
results in an error:
{code:sh}
Installing package into '/home/<user>/R/x86_64-redhat-linux-gnu-library/3.6'
(as 'lib' is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/arrow_0.16.0.2.tar.gz'
Content type 'application/x-gzip' length 216119 bytes (211 KB)
==================================================
downloaded 211 KB
* installing *source* package 'arrow' ...
** package 'arrow' successfully unpacked and MD5 sums checked
** using staged installation
PKG_CFLAGS=-I/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/include -DARROW_R_WITH_ARROW
PKG_LIBS=-L/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/lib -larrow_dataset -lparquet -larrow -lthrift -lsnappy -lz -lzstd -llz4 -lbrotlidec-static -lbrotlienc-static -lbrotlicommon-static -lboost_filesystem -lboost_regex -lboost_system -ljemalloc_pic
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/include -DARROW_R_WITH_ARROW -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array.cpp -o array.o
In file included from array.cpp:18:0:
./arrow_types.h:201:31: fatal error: arrow/dataset/api.h: No such file or directory
{code}
It appears that the C++ code is not built. With arrow 0.16.0.1 things do work out, because it tries to build the C++ code from source. With arrow 0.16.0.2 such is no longer the case. I could finish the installation by setting the environment variable LIBARROW_DOWNLOAD to 'true':
{code:java}
export LIBARROW_DOWNLOAD=true
{code}
That, apparently, triggers the build from source. I would have expected that I would not need to set this variable explicitly.
I found that [between versions|[https://github.com/apache/arrow/commit/660d0e7cbaa1cfb51498299d445636fdd6a58420], the default value of LIBARROW_DOWNLOAD has changed:
{code:sh}
- download_ok <- locally_installing && !env_is("LIBARROW_DOWNLOAD", "false")
+ download_ok <- env_is("LIBARROW_DOWNLOAD", "true")
{code}
In our environment, that variable was _not_ set, resulting (accidentally?) in download_ok being false and therefore the libraries not being installed and finally the resulting error above.
I can't quite figure out the logic behind all this, but it would be nice if we'd be able to install the package without first having to set LIBARROW_DOWNLOAD.
Thank you for looking into this!
was:
Hi,
Installing arrow in R does not work intuitively on our server.
{code:r}
install.packages("arrow")`
{code}
results in an error:
{code:sh}
Installing package into '/home/<user>/R/x86_64-redhat-linux-gnu-library/3.6'
(as 'lib' is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/arrow_0.16.0.2.tar.gz'
Content type 'application/x-gzip' length 216119 bytes (211 KB)
==================================================
downloaded 211 KB
* installing *source* package 'arrow' ...
** package 'arrow' successfully unpacked and MD5 sums checked
** using staged installation
PKG_CFLAGS=-I/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/include -DARROW_R_WITH_ARROW
PKG_LIBS=-L/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/lib -larrow_dataset -lparquet -larrow -lthrift -lsnappy -lz -lzstd -llz4 -lbrotlidec-static -lbrotlienc-static -lbrotlicommon-static -lboost_filesystem -lboost_regex -lboost_system -ljemalloc_pic
** libs
g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/include -DARROW_R_WITH_ARROW -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array.cpp -o array.o
In file included from array.cpp:18:0:
./arrow_types.h:201:31: fatal error: arrow/dataset/api.h: No such file or directory
{code}
It appears that the C++ code is not built. With arrow 0.16.0.1 things do work out, because it tries to build the C++ code from source. With arrow 0.16.0.2 such is no longer the case. I could finish the installation by setting the environment variable LIBARROW_DOWNLOAD to 'true':
{code:java}
export LIBARROW_DOWNLOAD=true
{code}
That, apparently, triggers the build from source. I would have expected that I would not need to set this variable explicitly.
I found that [between versions|[https://github.com/apache/arrow/commit/660d0e7cbaa1cfb51498299d445636fdd6a58420]], the default value of LIBARROW_DOWNLOAD has changed:
{code:sh}
- download_ok <- locally_installing && !env_is("LIBARROW_DOWNLOAD", "false")
+ download_ok <- env_is("LIBARROW_DOWNLOAD", "true")
{code}
In our environment, that variable was _not_ set, resulting (accidentally?) in download_ok being false and therefore the libraries not being installed and finally the resulting error above.
I can't quite figure out the logic behind all this, but it would be nice if we'd be able to install the package without first having to set LIBARROW_DOWNLOAD.
Thank you for looking into this!
> Can't install R-library arrow without setting LIBARROW_DOWNLOAD=true
> --------------------------------------------------------------------
>
> Key: ARROW-7908
> URL: https://issues.apache.org/jira/browse/ARROW-7908
> Project: Apache Arrow
> Issue Type: Bug
> Components: R
> Affects Versions: 0.16.0
> Environment: Operating System: Red Hat Enterprise Linux Server 7.6 (Maipo)
> CPE OS Name: cpe:/o:redhat:enterprise_linux:7.6:GA:server
> Kernel: Linux 3.10.0-957.35.2.el7.x86_64
> Architecture: x86-64
> Reporter: Taeke
> Priority: Major
> Fix For: 0.16.0
>
>
> Hi,
> Installing arrow in R does not work intuitively on our server.
> {code:r}
> install.packages("arrow")`
> {code}
> results in an error:
> {code:sh}
> Installing package into '/home/<user>/R/x86_64-redhat-linux-gnu-library/3.6'
> (as 'lib' is unspecified)
> trying URL 'https://cloud.r-project.org/src/contrib/arrow_0.16.0.2.tar.gz'
> Content type 'application/x-gzip' length 216119 bytes (211 KB)
> ==================================================
> downloaded 211 KB
> * installing *source* package 'arrow' ...
> ** package 'arrow' successfully unpacked and MD5 sums checked
> ** using staged installation
> PKG_CFLAGS=-I/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/include -DARROW_R_WITH_ARROW
> PKG_LIBS=-L/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/lib -larrow_dataset -lparquet -larrow -lthrift -lsnappy -lz -lzstd -llz4 -lbrotlidec-static -lbrotlienc-static -lbrotlicommon-static -lboost_filesystem -lboost_regex -lboost_system -ljemalloc_pic
> ** libs
> g++ -m64 -std=gnu++11 -I"/usr/include/R" -DNDEBUG -I/tmp/Rtmp3v1BDf/R.INSTALL4a5d5d9f8bc8/arrow/libarrow/arrow-0.16.0.2/include -DARROW_R_WITH_ARROW -I"/usr/lib64/R/library/Rcpp/include" -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c array.cpp -o array.o
> In file included from array.cpp:18:0:
> ./arrow_types.h:201:31: fatal error: arrow/dataset/api.h: No such file or directory
> {code}
> It appears that the C++ code is not built. With arrow 0.16.0.1 things do work out, because it tries to build the C++ code from source. With arrow 0.16.0.2 such is no longer the case. I could finish the installation by setting the environment variable LIBARROW_DOWNLOAD to 'true':
> {code:java}
> export LIBARROW_DOWNLOAD=true
> {code}
> That, apparently, triggers the build from source. I would have expected that I would not need to set this variable explicitly.
> I found that [between versions|[https://github.com/apache/arrow/commit/660d0e7cbaa1cfb51498299d445636fdd6a58420], the default value of LIBARROW_DOWNLOAD has changed:
> {code:sh}
> - download_ok <- locally_installing && !env_is("LIBARROW_DOWNLOAD", "false")
> + download_ok <- env_is("LIBARROW_DOWNLOAD", "true")
> {code}
> In our environment, that variable was _not_ set, resulting (accidentally?) in download_ok being false and therefore the libraries not being installed and finally the resulting error above.
>
> I can't quite figure out the logic behind all this, but it would be nice if we'd be able to install the package without first having to set LIBARROW_DOWNLOAD.
>
> Thank you for looking into this!
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