arrow-issues mailing list archives

Site index · List index
Message view « Date » · « Thread »
Top « Date » · « Thread »
From "Karl Dunkle Werner (Jira)" <j...@apache.org>
Subject [jira] [Created] (ARROW-12853) [R] Install fails on R 4.1.0
Date Sat, 22 May 2021 20:52:00 GMT
Karl Dunkle Werner created ARROW-12853:
------------------------------------------

             Summary: [R] Install fails on R 4.1.0
                 Key: ARROW-12853
                 URL: https://issues.apache.org/jira/browse/ARROW-12853
             Project: Apache Arrow
          Issue Type: Bug
          Components: R
    Affects Versions: 4.0.0
         Environment: R 4.1.0
            Reporter: Karl Dunkle Werner


Hi,

I noticed my installation failed after updating R to the newly released 4.1.0. Arrow compiles
without error, but installation fails with a segfault when R tests whether the package can
be loaded.
Here are the relevant environment variables I've set:
LIBARROW_MINIMAL: {{false}}
LIBARROW_BINARY: {{ubuntu-20.04}} (also fails with {{false}})
ARROW_R_DEV: {{true}}
Let me know if there are other configurations you'd like me to test.

Related: ARROW-12824

The install log:
{noformat}
install.packages("arrow")
Installing package into ‘/home/karl/.R/4.1’
(as ‘lib’ is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/arrow_4.0.0.1.tar.gz'
Content type 'application/x-gzip' length 426715 bytes (416 KB)
==================================================
downloaded 416 KB

* installing *source* package ‘arrow’ ...
** package ‘arrow’ successfully unpacked and MD5 sums checked
** using staged installation
*** Using ubuntu-18.04 binary for ubuntu-20.04
trying URL 'https://arrow-r-nightly.s3.amazonaws.com/libarrow/bin/ubuntu-18.04/arrow-4.0.0.1.zip'
Content type 'binary/octet-stream' length 16007220 bytes (15.3 MB)
==================================================
downloaded 15.3 MB

*** Successfully retrieved C++ binaries for ubuntu-18.04
**** Binary package requires libcurl and openssl
**** If installation fails, retry after installing those system requirements
PKG_CFLAGS=-I/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include 
-DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3
PKG_LIBS=-L/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/lib -larrow_dataset
-lparquet -larrow -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet -lssl -lcrypto
-lcurl
** libs
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2
-g  -c imports.cpp -o imports.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2
-g  -c r_to_arrow.cpp -o r_to_arrow.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2
-g  -c runtimeinfo.cpp -o runtimeinfo.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2
-g  -c scalar.cpp -o scalar.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-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/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2
-g  -c threadpool.cpp -o threadpool.o
g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -I/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/include
 -DARROW_R_WITH_ARROW -DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_S3 -I'/home/karl/.R/4.1/cpp11/include'
   -fpic  -g -O2 -ffile-prefix-map=/build/r-base-aXXzqd/r-base-4.1.0=. -flto=auto -ffat-lto-objects
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2
-g  -c type_infer.cpp -o type_infer.o
g++ -std=gnu++11 -Wl,--strip-debug -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto
-Wl,-z,relro -o arrow.so array.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
imports.o io.o json.o memorypool.o message.o parquet.o py-to-r.o r_to_arrow.o recordbatch.o
recordbatchreader.o recordbatchwriter.o runtimeinfo.o scalar.o schema.o symbols.o table.o
threadpool.o type_infer.o -L/tmp/RtmpGwVvlP/R.INSTALL106e64cdb5ef7/arrow/libarrow/arrow-4.0.0.1/lib
-larrow_dataset -lparquet -larrow -larrow -larrow_bundled_dependencies -larrow_dataset -lparquet
-lssl -lcrypto -lcurl -L/usr/lib/R/lib -lR
installing to /home/karl/.R/4.1/00LOCK-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

 *** caught segfault ***
address (nil), cause 'memory not mapped'

Traceback:
 1: dyn.load(file, DLLpath = DLLpath, ...)
 2: library.dynam(lib, package, package.lib)
 3: loadNamespace(package, lib.loc)
 4: doTryCatch(return(expr), name, parentenv, handler)
 5: tryCatchOne(expr, names, parentenv, handlers[[1L]])
 6: tryCatchList(expr, classes, parentenv, handlers)
 7: tryCatch({    attr(package, "LibPath") <- which.lib.loc    ns <- loadNamespace(package,
lib.loc)    env <- attachNamespace(ns, pos = pos, deps, exclude, include.only)}, error
= function(e) {    P <- if (!is.null(cc <- conditionCall(e)))         paste(" in", deparse(cc)[1L])
   else ""    msg <- gettextf("package or namespace load failed for %s%s:\n %s",      
  sQuote(package), P, conditionMessage(e))    if (logical.return)         message(paste("Error:",
msg), domain = NA)    else stop(msg, call. = FALSE, domain = NA)})
 8: library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE)
 9: withCallingHandlers(expr, packageStartupMessage = function(c) tryInvokeRestart("muffleMessage"))
10: suppressPackageStartupMessages(library(pkg_name, lib.loc = lib,     character.only = TRUE,
logical.return = TRUE))
11: doTryCatch(return(expr), name, parentenv, handler)
12: tryCatchOne(expr, names, parentenv, handlers[[1L]])
13: tryCatchList(expr, classes, parentenv, handlers)
14: tryCatch(expr, error = function(e) {    call <- conditionCall(e)    if (!is.null(call))
{        if (identical(call[[1L]], quote(doTryCatch)))             call <- sys.call(-4L)
       dcall <- deparse(call)[1L]        prefix <- paste("Error in", dcall, ": ")  
     LONG <- 75L        sm <- strsplit(conditionMessage(e), "\n")[[1L]]        w <-
14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w")        if (is.na(w))          
  w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L],                 type = "b")     
  if (w > LONG)             prefix <- paste0(prefix, "\n  ")    }    else prefix <-
"Error : "    msg <- paste0(prefix, conditionMessage(e), "\n")    .Internal(seterrmessage(msg[1L]))
   if (!silent && isTRUE(getOption("show.error.messages"))) {        cat(msg, file
= outFile)        .Internal(printDeferredWarnings())    }    invisible(structure(msg, class
= "try-error", condition = e))})
15: try(suppressPackageStartupMessages(library(pkg_name, lib.loc = lib,     character.only
= TRUE, logical.return = TRUE)))
16: tools:::.test_load_package("arrow", "/home/karl/.R/4.1/00LOCK-arrow/00new")
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault (core dumped)
ERROR: loading failed
* removing ‘/home/karl/.R/4.1/arrow’
{noformat}




--
This message was sent by Atlassian Jira
(v8.3.4#803005)

Mime
View raw message