YinOsu commented on issue #40632:
URL: https://github.com/apache/arrow/issues/40632#issuecomment-2043075757
> I wonder if something is misconfigured with your XCode/CommandLineTools
installation. I can install arrow from source linking against Homebrew's arrow
15.0.1 just fine. That said, installing from R-universe is a great option.
>
> If you want to try again @YinOsu, can you start a fresh R session, set
this environment variable, reinstall from source, and paste the results here in
a `<details></details>` block?
>
> ```r
> > Sys.setenv("ARROW_R_DEV"=TRUE)
> > install.packages("arrow", type="source")
> ```
>
> Mine is below for comparison:
>
> Output for `install.packages("arrow", type="source")`
Did as you instructed. I can't really figure out if it is a XCode issue. I
reinstalled the XCode/CommandLineTools.
`<details>
> Sys.setenv("ARROW_R_DEV"=TRUE)
> install.packages("arrow", type="source")
Installing package into ‘/usr/local/lib/R/4.3/site-library’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/src/contrib/arrow_15.0.1.tar.gz'
Content type 'application/x-gzip' length 4373377 bytes (4.2 MB)
==================================================
downloaded 4.2 MB
* installing *source* package ‘arrow’ ...
** package ‘arrow’ successfully unpacked and MD5 sums checked
** using staged installation
*** pkg-config found.
*** Trying Arrow C++ found by pkg-config:
/usr/local/Cellar/apache-arrow/15.0.2_1
**** C++ library version 15.0.2 is supported by R version 15.0.1
------------------------- NOTE ---------------------------
There was an issue preparing the Arrow C++ libraries.
See https://arrow.apache.org/docs/r/articles/install.html
----------------------------------------------------------
Test compile error: In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:20:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cstdint:149:5:
error: <cstdint> tried including <stdint.h> but didn't find libc++'s
<stdint.h> header. This usually means that your header search paths
are not configured properly. The header search paths should contain
the C++ Standard Library headers before any C Standard Library, and
you are probably using compiler flags that make that not be the case.
# error <cstdint> tried including <stdint.h> but didn't find libc++'s
<stdint.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:22:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/memory:883:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/align.h:13:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cstddef:46:5:
error: <cstddef> tried including <stddef.h> but didn't find libc++'s
<stddef.h> header. This usually means that your header search paths
are not configured properly. The header search paths should contain
the C++ Standard Library headers before any C Standard Library, and
you are probably using compiler flags that make that not be the case.
# error <cstddef> tried including <stddef.h> but didn't find libc++'s
<stddef.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:22:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/memory:884:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/allocate_at_least.h:13:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/allocator_traits.h:14:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/construct_at.h:23:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/new:96:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cstdlib:90:5:
error: <cstdlib> tried including <stdlib.h> but didn't find libc++'s
<stdlib.h> header. This usually means that your header search paths
are not configured properly. The header search paths should contain
the C++ Standard Library headers before any C Standard Library, and
you are probably using compiler flags that make that not be the case.
# error <cstdlib> tried including <stdlib.h> but didn't find libc++'s
<stdlib.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:22:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/memory:898:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/shared_ptr.h:31:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/unique_ptr.h:17:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/hash.h:28:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cstring:66:5:
error: <cstring> tried including <string.h> but didn't find libc++'s
<string.h> header. This usually means that your header search paths
are not configured properly. The header search paths should contain
the C++ Standard Library headers before any C Standard Library, and
you are probably using compiler flags that make that not be the case.
# error <cstring> tried including <string.h> but didn't find libc++'s
<string.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:22:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/memory:898:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/shared_ptr.h:42:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/atomic:523:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__chrono/duration.h:19:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/ratio:83:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/climits:46:5:
error: <climits> tried including <limits.h> but didn't find libc++'s
<limits.h> header. This usually means that your header search paths
are not configured properly. The header search paths should contain
the C++ Standard Library headers before any C Standard Library, and
you are probably using compiler flags that make that not be the case.
# error <climits> tried including <limits.h> but didn't find libc++'s
<limits.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:22:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/memory:898:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/shared_ptr.h:42:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/atomic:2668:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:320:5:
error: <cmath> tried including <math.h> but didn't find libc++'s <math.h>
header. This usually means that your header search paths are not
configured properly. The header search paths should contain the C++
Standard Library headers before any C Standard Library, and you are
probably using compiler flags that make that not be the case.
# error <cmath> tried including <math.h> but didn't find libc++'s <math.h>
header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:23:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/string:561:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__string/char_traits.h:24:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cstdio:104:5:
error: <cstdio> tried including <stdio.h> but didn't find libc++'s <stdio.h>
header. This usually means that your header search paths are not
configured properly. The header search paths should contain the C++
Standard Library headers before any C Standard Library, and you are
probably using compiler flags that make that not be the case.
# error <cstdio> tried including <stdio.h> but didn't find libc++'s
<stdio.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:23:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/string:561:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__string/char_traits.h:29:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cwchar:108:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cwctype:54:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cctype:43:5:
error: <cctype> tried including <ctype.h> but didn't find libc++'s <ctype.h>
header. This usually means that your header search paths are not
configured properly. The header search paths should contain the C++
Standard Library headers before any C Standard Library.
# error <cctype> tried including <ctype.h> but didn't find libc++'s
<ctype.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:23:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/string:561:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__string/char_traits.h:29:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cwchar:108:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cwctype:59:5:
error: <cwctype> tried including <wctype.h> but didn't find libc++'s
<wctype.h> header. This usually means that your header search paths
are not configured properly. The header search paths should contain
the C++ Standard Library headers before any C Standard Library, and
you are probably using compiler flags that make that not be the case.
# error <cwctype> tried including <wctype.h> but didn't find libc++'s
<wctype.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:23:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/string:561:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__string/char_traits.h:29:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cwchar:113:5:
error: <cwchar> tried including <wchar.h> but didn't find libc++'s <wchar.h>
header. This usually means that your header search paths are not
configured properly. The header search paths should contain the C++
Standard Library headers before any C Standard Library, and you are
probably using compiler flags that make that not be the case.
# error <cwchar> tried including <wchar.h> but didn't find libc++'s
<wchar.h> header. \
^
In file included from <stdin>:1:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/api.h:22:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array.h:41:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/array_base.h:26:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/array/data.h:27:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/buffer.h:29:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/device.h:26:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/result.h:27:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/status.h:25:
In file included from
/usr/local/Cellar/apache-arrow/15.0.2_1/include/arrow/util/string_builder.h:21:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/ostream:171:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/ios:221:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__locale:18:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/mutex:192:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__mutex_base:20:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/system_error:149:
In file included from
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__errc:104:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/cerrno:31:5:
error: <cerrno> tried including <errno.h> but didn't find libc++'s <errno.h>
header. This usually means that your header search paths are not
configured properly. The header search paths should contain the C++
Standard Library headers before any C Standard Library, and you are
probably using compiler flags that make that not be the case.
# error <cerrno> tried including <errno.h> but didn't find libc++'s
<errno.h> header. \
^
11 errors generated.
Failing compile command: clang++ -E -I/include
-I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include
-I/usr/local/Cellar/apache-arrow/15.0.2_1/include -DARROW_R_WITH_PARQUET
-DARROW_R_WITH_DATASET -DARROW_R_WITH_ACERO -DARROW_R_WITH_JSON
-DARROW_R_WITH_S3 -g -O2 -std=gnu++17 -xc++ -
PKG_CFLAGS=-I/usr/local/Cellar/apache-arrow/15.0.2_1/include
-DARROW_R_WITH_PARQUET -DARROW_R_WITH_DATASET -DARROW_R_WITH_ACERO
-DARROW_R_WITH_JSON -DARROW_R_WITH_S3
PKG_LIBS=-larrow_dataset -lparquet -larrow_acero -larrow
ERROR: configuration failed for package ‘arrow’
* removing ‘/usr/local/lib/R/4.3/site-library/arrow’
* restoring previous ‘/usr/local/lib/R/4.3/site-library/arrow’
Warning in install.packages :
installation of package ‘arrow’ had non-zero exit status
</details>`
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