py-numpy build failure, multiple definition of `__i686.get_pc_thunk.bx'

[Charlie Kester]

On Fri 04 Feb 2011 at 02:05:44 PST Kostik Belousov wrote:
>On Thu, Feb 03, 2011 at 09:15:00PM -0800, Charlie Kester wrote:
>...
>> customize UnixCCompiler
>> customize UnixCCompiler using build_ext
>> customize Gnu95FCompiler
>> customize Gnu95FCompiler using build_ext
>> building 'numpy.core._sort' extension
>> compiling C sources
>> C compiler: gcc45 -DNDEBUG -mtune=generic -msse -msse2 -msse3 -mfpmath=sse 
>> -O2 -fno-strict-aliasing -pipe -D__wchar_t=wchar_t 
>> -DTHREAD_STACK_SIZE=0x20000 -mtune=generic -msse -msse2 -msse3 -mfpmath=sse 
>> -O2 -fno-strict-aliasing -pipe -Wl,-rpath=/usr/local/lib/gcc45 -fPIC
>> 
>> compile options: '-Inumpy/core/include 
>> -Ibuild/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/include/numpy 
>> -Inumpy/core/src/private -Inumpy/core/src -Inumpy/core 
>> -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath 
>> -Inumpy/core/include -I/usr/local/include/python2.7 
>> -Ibuild/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/multiarray 
>> -Ibuild/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/umath -c'
>> gcc45: 
>> build/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/_sortmodule.c
>> cc -shared -pthread -mtune=generic -msse -msse2 -msse3 -mfpmath=sse -O2 
>> -fno-strict-aliasing -pipe -Wl,-rpath=/usr/local/lib/gcc45 
>> build/temp.freebsd-8.2-PRERELEASE-i386-2.7/build/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/_sortmodule.o -Lbuild/temp.freebsd-8.2-PRERELEASE-i386-2.7 -lm -o build/lib.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/_sort.so
>> build/temp.freebsd-8.2-PRERELEASE-i386-2.7/build/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/_sortmodule.o(.text.__i686.get_pc_thunk.bx+0x0): In function `__i686.get_pc_thunk.bx':
>> : multiple definition of `__i686.get_pc_thunk.bx'
>> /usr/lib/crtbeginS.o(.gnu.linkonce.t.__i686.get_pc_thunk.bx+0x0): first 
>> defined here
>> build/temp.freebsd-8.2-PRERELEASE-i386-2.7/build/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/_sortmodule.o(.text.__i686.get_pc_thunk.bx+0x0): In function `__i686.get_pc_thunk.bx':
>> : multiple definition of `__i686.get_pc_thunk.bx'
>> /usr/lib/crtbeginS.o(.gnu.linkonce.t.__i686.get_pc_thunk.bx+0x0): first 
>> defined here
>> error: Command "cc -shared -pthread -mtune=generic -msse -msse2 -msse3 
>> -mfpmath=sse -O2 -fno-strict-aliasing -pipe -Wl,-rpath=/usr/local/lib/gcc45 
>> build/temp.freebsd-8.2-PRERELEASE-i386-2.7/build/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/_sortmodule.o -Lbuild/temp.freebsd-8.2-PRERELEASE-i386-2.7 -lm -o build/lib.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/_sort.so" failed with exit status 1
>> *** Error code 1

>Can you show the actual invocation of the compiler driver for linking ?

Isn't that the line right before the first report of the error?

cc -shared -pthread -mtune=generic -msse -msse2 -msse3 -mfpmath=sse -O2 -fno-strict-aliasing -pipe -Wl,-rpath=/usr/local/lib/gcc45 build/temp.freebsd-8.2-PRERELEASE-i386-2.7/build/src.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/src/_sortmodule.o -Lbuild/temp.freebsd-8.2-PRERELEASE-i386-2.7 -lm -o build/lib.freebsd-8.2-PRERELEASE-i386-2.7/numpy/core/_sort.so

FWIW, I tried modifying my make.conf to remove the additional CFLAGS I'd
added, like -fno-strict-aliasing. But the build still failed using only
the CFLAGS provided by the ports system and py-numpy's configtests.

I also checked for environment variables related to the linker and found
none.  (For this build I'm logged into the console, not a terminal
emulator, as root and am not using a custom profile.)

My PATH looks like this:
/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin

I do have gcc45 installed, but only as a result of some other port that
required it.  I forget which one.  Anyway, you can see that it's being
used in the excerpt above.