Compiling Python bindings

Seems like a linking error caused by python using wrong size for its data
types or fann data types.

I'd suggest that you try modifying the .i file changing doublefann to
floatfann.

Anyway I compiled py/fann on my 64bit machine on linux... :-P

Regards
Vincenzo

Post by Niklas Saers
Hi,
I'm compiling the Python bindings on a FreeBSD 6.1 server running an
Athlon64x2 processor. First I dl'ed 2.0 but got an error, then I got the
CVS but it still fails. Can anyone help me with what's going on and how I
$ make
Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
running build_ext
building 'pyfann._libfann' extension
creating build/temp.freebsd-6.1-STABLE-amd64-2.4
creating build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann
cc -fno-strict-aliasing -DNDEBUG -O -pipe -march=athlon64
-D__wchar_t=wchar_t -DTHREAD_STACK_SIZE=0x100000 -fPIC -DSWIG_COMPILE
-I../src/include -I/usr/local/include/python2.4 -c pyfann/pyfann_wrap.cxx
-o build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
c++ -shared -pthread
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
../src/doublefann.o -o build/lib.freebsd-6.1-STABLE-amd64-2.4
/pyfann/_libfann.so
/usr/bin/ld: ../src/doublefann.o: relocation R_X86_64_32S can not be used
when making a shared object; recompile with -fPIC
../src/doublefann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1
Stop in /tmp/fann-2.0.0/cvs/fann/python.
Cheers
Nik

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Niklas Saers

2006-09-08 20:46:53 UTC

Hi Vincenzo,
changing doublefann to floatfann in fann/python/pyfann/pyfann.i gives still
the error message of doublefann:

Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
running build_ext
building 'pyfann._libfann' extension
creating build/temp.freebsd-6.1-STABLE-amd64-2.4
creating build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann
cc -fno-strict-aliasing -DNDEBUG -O -pipe -march=athlon64
-D__wchar_t=wchar_t -DTHREAD_STACK_SIZE=0x100000 -fPIC -DSWIG_COMPILE
-I../src/include -I/usr/local/include/python2.4 -c pyfann/pyfann_wrap.cxx -o
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
c++ -shared -pthread
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
../src/doublefann.o -o build/lib.freebsd-6.1-STABLE-amd64-2.4
/pyfann/_libfann.so
/usr/bin/ld: ../src/doublefann.o: relocation R_X86_64_32S can not be used
when making a shared object; recompile with -fPIC
../src/doublefann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1

I tried changing setup.py as well, but that just gave me:

Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
running build_ext
building 'pyfann._libfann' extension
creating build/temp.freebsd-6.1-STABLE-amd64-2.4
creating build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann
cc -fno-strict-aliasing -DNDEBUG -O -pipe -march=athlon64
-D__wchar_t=wchar_t -DTHREAD_STACK_SIZE=0x100000 -fPIC -DSWIG_COMPILE
-I../src/include -I/usr/local/include/python2.4 -c pyfann/pyfann_wrap.cxx -o
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
c++ -shared -pthread
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
../src/floatfann.o -o build/lib.freebsd-6.1-STABLE-amd64-2.4
/pyfann/_libfann.so
/usr/bin/ld: ../src/floatfann.o: relocation R_X86_64_32S can not be used
when making a shared object; recompile with -fPIC
../src/floatfann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1

Cheers

Nik

Post by Vincenzo Di Massa
Seems like a linking error caused by python using wrong size for its data
types or fann data types.
I'd suggest that you try modifying the .i file changing doublefann to
floatfann.
Anyway I compiled py/fann on my 64bit machine on linux... :-P
Regards
Vincenzo

Post by Niklas Saers
$ make
Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

Post by Niklas Saers
running build_ext
building 'pyfann._libfann' extension
creating build/temp.freebsd-6.1-STABLE-amd64-2.4
creating build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann
cc -fno-strict-aliasing -DNDEBUG -O -pipe -march=athlon64
-D__wchar_t=wchar_t -DTHREAD_STACK_SIZE=0x100000 -fPIC -DSWIG_COMPILE
-I../src/include -I/usr/local/include/python2.4 -c

pyfann/pyfann_wrap.cxx

used

Vincenzo Di Massa

2007-03-30 16:01:29 UTC

I just found the solution to this problem :-)
On the X86_64 family libraries should always have the -fPIC flag when
compiling object files. Read
http://www.gentoo.org/proj/en/base/amd64/howtos/index.xml?part=1&chap=3
Add -fPIC in src/Makefile.am to the CFLAGS variable and recompile.

Steffen, can we add a check to detect CPU type and add -fPIC on amd64?
not having -fPIC can lead to very nasty bugs, as the mentioned page suggests.
Regards
Vincenzo

P.S. I don't know how I previously made it to build without that flag...

Post by Niklas Saers
Hi Vincenzo,
changing doublefann to floatfann in fann/python/pyfann/pyfann.i gives still
Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
running build_ext
building 'pyfann._libfann' extension
creating build/temp.freebsd-6.1-STABLE-amd64-2.4
creating build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann
cc -fno-strict-aliasing -DNDEBUG -O -pipe -march=athlon64
-D__wchar_t=wchar_t -DTHREAD_STACK_SIZE=0x100000 -fPIC -DSWIG_COMPILE
-I../src/include -I/usr/local/include/python2.4 -c pyfann/pyfann_wrap.cxx
-o build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
c++ -shared -pthread
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
../src/doublefann.o -o build/lib.freebsd-6.1-STABLE-amd64-2.4
/pyfann/_libfann.so
/usr/bin/ld: ../src/doublefann.o: relocation R_X86_64_32S can not be used
when making a shared object; recompile with -fPIC
../src/doublefann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1
Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
running build_ext
building 'pyfann._libfann' extension
creating build/temp.freebsd-6.1-STABLE-amd64-2.4
creating build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann
cc -fno-strict-aliasing -DNDEBUG -O -pipe -march=athlon64
-D__wchar_t=wchar_t -DTHREAD_STACK_SIZE=0x100000 -fPIC -DSWIG_COMPILE
-I../src/include -I/usr/local/include/python2.4 -c pyfann/pyfann_wrap.cxx
-o build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
c++ -shared -pthread
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
../src/floatfann.o -o build/lib.freebsd-6.1-STABLE-amd64-2.4
/pyfann/_libfann.so
/usr/bin/ld: ../src/floatfann.o: relocation R_X86_64_32S can not be used
when making a shared object; recompile with -fPIC
../src/floatfann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1
Cheers
Nik

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

pyfann/pyfann_wrap.cxx

used

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Steffen Nissen

2007-03-31 18:53:59 UTC

That should be possible, will you look into it, or should I?

Post by Vincenzo Di Massa
I just found the solution to this problem :-)
On the X86_64 family libraries should always have the -fPIC flag when
compiling object files. Read
http://www.gentoo.org/proj/en/base/amd64/howtos/index.xml?part=1&chap=3
Add -fPIC in src/Makefile.am to the CFLAGS variable and recompile.
Steffen, can we add a check to detect CPU type and add -fPIC on amd64?
not having -fPIC can lead to very nasty bugs, as the mentioned page suggests.
Regards
Vincenzo
P.S. I don't know how I previously made it to build without that flag...

Post by Niklas Saers
Hi Vincenzo,
changing doublefann to floatfann in fann/python/pyfann/pyfann.i gives

still

Post by Niklas Saers
Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

pyfann/pyfann_wrap.cxx

used

Post by Niklas Saers
when making a shared object; recompile with -fPIC
../src/doublefann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1
Running SWIG before: swig -c++ -python pyfann/pyfann.i
running build
running build_py
creating build
creating build/lib.freebsd-6.1-STABLE-amd64-2.4
creating build/lib.freebsd-6.1-STABLE-amd64-2.4/pyfann
copying pyfann/__init__.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

pyfann/pyfann_wrap.cxx

Post by Niklas Saers
-o build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
c++ -shared -pthread
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
../src/floatfann.o -o build/lib.freebsd-6.1-STABLE-amd64-2.4
/pyfann/_libfann.so
/usr/bin/ld: ../src/floatfann.o: relocation R_X86_64_32S can not be used
when making a shared object; recompile with -fPIC
../src/floatfann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1
Cheers
Nik

Post by Vincenzo Di Massa
Seems like a linking error caused by python using wrong size for its

data

Post by Vincenzo Di Massa
types or fann data types.
I'd suggest that you try modifying the .i file changing doublefann to
floatfann.
Anyway I compiled py/fann on my 64bit machine on linux... :-P
Regards
Vincenzo

and

Post by Niklas Saers
how

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

-DSWIG_COMPILE

Post by Niklas Saers
-I../src/include -I/usr/local/include/python2.4 -c

pyfann/pyfann_wrap.cxx

used

-------------------------------------------------------------------------

Post by Vincenzo Di Massa
Using Tomcat but need to do more? Need to support web services,

security?

Post by Vincenzo Di Massa
Get stuff done quickly with pre-integrated technology to make your job easier
Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo

http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642

Post by Vincenzo Di Massa
_______________________________________________
Fann-general mailing list
https://lists.sourceforge.net/lists/listinfo/fann-general

--
Steffen Nissen - http://MySpace.com/SteffenNissen
Project Administrator - Fast Artificial Neural Network Library (fann)
http://fann.sf.net

Vincenzo Di Massa

2007-03-31 23:02:04 UTC

Post by Steffen Nissen
That should be possible, will you look into it, or should I?

I already did :-) It's in CVS.
Vincenzo

Post by Steffen Nissen

Post by Niklas Saers
Hi Vincenzo,
changing doublefann to floatfann in fann/python/pyfann/pyfann.i gives

still

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

pyfann/pyfann_wrap.cxx

used

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

pyfann/pyfann_wrap.cxx

Post by Niklas Saers
-o build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
c++ -shared -pthread
build/temp.freebsd-6.1-STABLE-amd64-2.4/pyfann/pyfann_wrap.o
../src/floatfann.o -o build/lib.freebsd-6.1-STABLE-amd64-2.4
/pyfann/_libfann.so
/usr/bin/ld: ../src/floatfann.o: relocation R_X86_64_32S can not be
used when making a shared object; recompile with -fPIC
../src/floatfann.o: could not read symbols: Bad value
error: command 'c++' failed with exit status 1
*** Error code 1
Cheers
Nik

Post by Vincenzo Di Massa
Seems like a linking error caused by python using wrong size for its

data

and

Post by Niklas Saers
how

/pyfann

Post by Niklas Saers
copying pyfann/libfann.py -> build/lib.freebsd-6.1-STABLE-amd64-2.4

/pyfann

-DSWIG_COMPILE

Post by Niklas Saers
-I../src/include -I/usr/local/include/python2.4 -c

pyfann/pyfann_wrap.cxx

used

-------------------------------------------------------------------------

Post by Vincenzo Di Massa
Using Tomcat but need to do more? Need to support web services,

security?

Post by Vincenzo Di Massa
Get stuff done quickly with pre-integrated technology to make your job easier
Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo

http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642