barracuda156 opened a new issue, #493:
URL: https://github.com/apache/arrow-nanoarrow/issues/493
```
---> Building R-nanoarrow
xinstall: mkdir
/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-nanoarrow/R-nanoarrow/work/build
Executing: cd
"/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-nanoarrow/R-nanoarrow/work/nanoarrow"
&& /opt/local/bin/R CMD INSTALL .
--library=/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-nanoarrow/R-nanoarrow/work/build
--install-tests
* installing *source* package ‘nanoarrow’ ...
** package ‘nanoarrow’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-mp-13 (MacPorts gcc13 13.2.0_4+stdlib_flag) 13.2.0’
using C++ compiler: ‘g++-mp-13 (MacPorts gcc13 13.2.0_4+stdlib_flag) 13.2.0’
Warning in system2("xcrun", "--show-sdk-path", TRUE, TRUE) :
running command ''xcrun' --show-sdk-path 2>&1' had status 64
using SDK: ‘NA’‘NA’‘NA’‘NA’‘NA’‘NA’
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c altrep.c -o altrep.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c array.c -o array.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c array_stream.c -o
array_stream.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c array_view.c -o
array_view.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c as_array.c -o as_array.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c buffer.c -o buffer.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c convert.c -o convert.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c convert_array.c -o
convert_array.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c convert_array_stream.c
-o convert_array_stream.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c flatcc.c -o flatcc.o
In file included from flatcc/flatcc_flatbuffers.h:29,
from flatcc/flatcc_builder.h:68,
from flatcc.c:19:
flatcc.c: In function 'flatcc_builder_finalize_aligned_buffer':
../src/flatcc/flatcc_alloc.h:116:36: warning: implicit declaration of
function 'aligned_alloc' [-Wimplicit-function-declaration]
116 | #define FLATCC_ALIGNED_ALLOC(a, n) aligned_alloc(a, n)
| ^~~~~~~~~~~~~
flatcc/flatcc_builder.h:203:44: note: in expansion of macro
'FLATCC_ALIGNED_ALLOC'
203 | #define FLATCC_BUILDER_ALIGNED_ALLOC(a, n) FLATCC_ALIGNED_ALLOC(a, n)
| ^~~~~~~~~~~~~~~~~~~~
flatcc.c:1995:14: note: in expansion of macro 'FLATCC_BUILDER_ALIGNED_ALLOC'
1995 | buffer = FLATCC_BUILDER_ALIGNED_ALLOC(align, size);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
flatcc.c:21:1: note: include '<stdlib.h>' or provide a declaration of
'aligned_alloc'
20 | #include "flatcc/flatcc_emitter.h"
+++ |+#include <stdlib.h>
21 |
../src/flatcc/flatcc_alloc.h:116:36: warning: incompatible implicit
declaration of built-in function 'aligned_alloc'
[-Wbuiltin-declaration-mismatch]
116 | #define FLATCC_ALIGNED_ALLOC(a, n) aligned_alloc(a, n)
| ^~~~~~~~~~~~~
flatcc/flatcc_builder.h:203:44: note: in expansion of macro
'FLATCC_ALIGNED_ALLOC'
203 | #define FLATCC_BUILDER_ALIGNED_ALLOC(a, n) FLATCC_ALIGNED_ALLOC(a, n)
| ^~~~~~~~~~~~~~~~~~~~
flatcc.c:1995:14: note: in expansion of macro 'FLATCC_BUILDER_ALIGNED_ALLOC'
1995 | buffer = FLATCC_BUILDER_ALIGNED_ALLOC(align, size);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
../src/flatcc/flatcc_alloc.h:116:36: note: include '<stdlib.h>' or provide a
declaration of 'aligned_alloc'
116 | #define FLATCC_ALIGNED_ALLOC(a, n) aligned_alloc(a, n)
| ^~~~~~~~~~~~~
flatcc/flatcc_builder.h:203:44: note: in expansion of macro
'FLATCC_ALIGNED_ALLOC'
203 | #define FLATCC_BUILDER_ALIGNED_ALLOC(a, n) FLATCC_ALIGNED_ALLOC(a, n)
| ^~~~~~~~~~~~~~~~~~~~
flatcc.c:1995:14: note: in expansion of macro 'FLATCC_BUILDER_ALIGNED_ALLOC'
1995 | buffer = FLATCC_BUILDER_ALIGNED_ALLOC(align, size);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
flatcc.c: In function 'flatcc_builder_aligned_alloc':
../src/flatcc/flatcc_alloc.h:116:36: warning: incompatible implicit
declaration of built-in function 'aligned_alloc'
[-Wbuiltin-declaration-mismatch]
116 | #define FLATCC_ALIGNED_ALLOC(a, n) aligned_alloc(a, n)
| ^~~~~~~~~~~~~
flatcc/flatcc_builder.h:203:44: note: in expansion of macro
'FLATCC_ALIGNED_ALLOC'
203 | #define FLATCC_BUILDER_ALIGNED_ALLOC(a, n) FLATCC_ALIGNED_ALLOC(a, n)
| ^~~~~~~~~~~~~~~~~~~~
flatcc.c:2014:12: note: in expansion of macro 'FLATCC_BUILDER_ALIGNED_ALLOC'
2014 | return FLATCC_BUILDER_ALIGNED_ALLOC(alignment, size);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
../src/flatcc/flatcc_alloc.h:116:36: note: include '<stdlib.h>' or provide a
declaration of 'aligned_alloc'
116 | #define FLATCC_ALIGNED_ALLOC(a, n) aligned_alloc(a, n)
| ^~~~~~~~~~~~~
flatcc/flatcc_builder.h:203:44: note: in expansion of macro
'FLATCC_ALIGNED_ALLOC'
203 | #define FLATCC_BUILDER_ALIGNED_ALLOC(a, n) FLATCC_ALIGNED_ALLOC(a, n)
| ^~~~~~~~~~~~~~~~~~~~
flatcc.c:2014:12: note: in expansion of macro 'FLATCC_BUILDER_ALIGNED_ALLOC'
2014 | return FLATCC_BUILDER_ALIGNED_ALLOC(alignment, size);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c infer_ptype.c -o
infer_ptype.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c init.c -o init.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c ipc.c -o ipc.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c materialize.c -o
materialize.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c nanoarrow.c -o
nanoarrow.o
/opt/local/bin/g++-mp-13 -std=gnu++17
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c nanoarrow_cpp.cc -o
nanoarrow_cpp.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c nanoarrow_ipc.c -o
nanoarrow_ipc.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c pointers.c -o pointers.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c schema.c -o schema.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c util.c -o util.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c vctr.c -o vctr.o
/opt/local/bin/gcc-mp-13
-I"/opt/local/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I../inst/include -I../src -isystem/opt/local/include/LegacySupport
-I/opt/local/include -fPIC -pipe -Os -arch ppc -c version.c -o version.o
/opt/local/bin/g++-mp-13 -std=gnu++17 -dynamiclib
-Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module
-multiply_defined suppress
-L/opt/local/Library/Frameworks/R.framework/Resources/lib
-Wl,-headerpad_max_install_names -L/opt/local/lib -lMacportsLegacySupport
-Wl,-rpath,/opt/local/lib/libgcc -arch ppc -o nanoarrow.so altrep.o array.o
array_stream.o array_view.o as_array.o buffer.o convert.o convert_array.o
convert_array_stream.o flatcc.o infer_ptype.o init.o ipc.o materialize.o
nanoarrow.o nanoarrow_cpp.o nanoarrow_ipc.o pointers.o schema.o util.o vctr.o
version.o -F/opt/local/Library/Frameworks/R.framework/.. -framework R
-Wl,-framework -Wl,CoreFoundation
installing to
/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-nanoarrow/R-nanoarrow/work/build/00LOCK-nanoarrow/00new/nanoarrow/libs
** R
** inst
** tests
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
Error: package or namespace load failed for ‘nanoarrow’ in dyn.load(file,
DLLpath = DLLpath, ...):
unable to load shared object
'/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-nanoarrow/R-nanoarrow/work/build/00LOCK-nanoarrow/00new/nanoarrow/libs/nanoarrow.so':
dlopen(/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-nanoarrow/R-nanoarrow/work/build/00LOCK-nanoarrow/00new/nanoarrow/libs/nanoarrow.so,
6): Symbol not found: _aligned_alloc
Referenced from:
/opt/local/var/macports/build/_opt_PPCSnowLeopardPorts_R_R-nanoarrow/R-nanoarrow/work/build/00LOCK-nanoarrow/00new/nanoarrow/libs/nanoarrow.so
Expected in: dynamic lookup
Error: loading failed
Execution halted
ERROR: loading failed
```
What gcc suggests won't work here, though a missing header is still wrong,
of course, since `aligned_alloc` is _not_ provided by the compiler but relies
on the OS, and it is not supported in many macOS versions (and likely other
systems).
We need a fallback implementation with a better cross-platform support here.
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