[
https://issues.apache.org/jira/browse/ARROW-8556?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=17090003#comment-17090003
]
Karl Dunkle Werner commented on ARROW-8556:
-------------------------------------------
Sure! The logs are pasted below.
* Setting {{LIBARROW_BINARY=UBUNTU-18.04}} and reinstalling works.
* I did not have zstd installed. I just installed version 1.4.3.
* After installing zstd (and resetting {{LIBARROW_BINARY=true}}), installation
fails again.
{noformat}
> install.packages("arrow")
* installing *source* package ‘arrow’ ...
** package ‘arrow’ successfully unpacked and MD5 sums checked
** using staged installation
*** No C++ binaries found for ubuntu-19.10
*** Successfully retrieved C++ source
*** Building C++ libraries
**** arrow
PKG_CFLAGS=-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW
PKG_LIBS=-L/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/lib
-larrow_dataset -lparquet -larrow -larrow -larrow_dataset -lbrotlidec-static
-lbrotlienc-static -lbrotlizzz-static -ljemalloc_pic -llz4 -lparquet -lsnappy
-lthrift -lthriftz
** libs
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
array.cpp -o array.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
array_from_vector.cpp -o array_from_vector.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
array_to_vector.cpp -o array_to_vector.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
arraydata.cpp -o arraydata.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
arrowExports.cpp -o arrowExports.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
buffer.cpp -o buffer.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
chunkedarray.cpp -o chunkedarray.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
compression.cpp -o compression.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
compute.cpp -o compute.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c csv.cpp
-o csv.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
dataset.cpp -o dataset.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
datatype.cpp -o datatype.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
expression.cpp -o expression.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
feather.cpp -o feather.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
field.cpp -o field.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
filesystem.cpp -o filesystem.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c io.cpp
-o io.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
json.cpp -o json.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
memorypool.cpp -o memorypool.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
message.cpp -o message.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
parquet.cpp -o parquet.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
py-to-r.cpp -o py-to-r.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
recordbatch.cpp -o recordbatch.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
recordbatchreader.cpp -o recordbatchreader.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
recordbatchwriter.cpp -o recordbatchwriter.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
schema.cpp -o schema.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
symbols.cpp -o symbols.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
table.cpp -o table.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG
-I/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/include
-DARROW_R_WITH_ARROW -I"/home/karl/test_arrow/Rcpp/include" -fpic -g -O2
-fdebug-prefix-map=/build/r-base-k1TtL4/r-base-3.6.1=. -fstack-protector-strong
-Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c
threadpool.cpp -o threadpool.o
g++ -std=gnu++11 -Wl,--strip-debug -shared -L/usr/lib/R/lib
-Wl,-Bsymbolic-functions -Wl,-z,relro -o arrow.so array.o array_from_vector.o
array_to_vector.o arraydata.o arrowExports.o buffer.o chunkedarray.o
compression.o compute.o csv.o dataset.o datatype.o expression.o feather.o
field.o filesystem.o io.o json.o memorypool.o message.o parquet.o py-to-r.o
recordbatch.o recordbatchreader.o recordbatchwriter.o schema.o symbols.o
table.o threadpool.o
-L/tmp/RtmpDyA8s0/R.INSTALL3f884be9fa7b/arrow/libarrow/arrow-0.17.0/lib
-larrow_dataset -lparquet -larrow -larrow -larrow_dataset -lbrotlidec-static
-lbrotlienc-static -lbrotlizzz-static -ljemalloc_pic -llz4 -lparquet -lsnappy
-lthrift -lthriftz -L/usr/lib/R/lib -lR
installing to /home/karl/test_arrow/00LOCK-arrow/00new/arrow/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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/karl/test_arrow/00LOCK-arrow/00new/arrow/libs/arrow.so':
/home/karl/test_arrow/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined
symbol: ZSTD_initCStream
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/home/karl/test_arrow/arrow’{noformat}
> [R] zstd symbol not found on Ubuntu 19.10
> -----------------------------------------
>
> Key: ARROW-8556
> URL: https://issues.apache.org/jira/browse/ARROW-8556
> Project: Apache Arrow
> Issue Type: Bug
> Components: R
> Affects Versions: 0.17.0
> Environment: Ubuntu 19.10
> R 3.6.1
> Reporter: Karl Dunkle Werner
> Priority: Major
>
> I would like to install the `arrow` R package on my Ubuntu 19.10 system.
> Prebuilt binaries are unavailable, and I want to enable compression, so I set
> the {{LIBARROW_MINIMAL=false}} environment variable. When I do so, it looks
> like the package is able to compile, but can't be loaded. I'm able to install
> correctly if I don't set the {{LIBARROW_MINIMAL}} variable.
> Here's the error I get:
> {code:java}
> ** 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
> '~/.R/3.6/00LOCK-arrow/00new/arrow/libs/arrow.so':
> ~/.R/3.6/00LOCK-arrow/00new/arrow/libs/arrow.so: undefined symbol:
> ZSTD_initCStream
> Error: loading failed
> Execution halted
> ERROR: loading failed
> * removing ‘~/.R/3.6/arrow’
> {code}
>
--
This message was sent by Atlassian Jira
(v8.3.4#803005)
