[Numpy-discussion] Compiling numpy on Red-Hat Import Error with lapack_lite.so
Jeffrey Spencer
jeffspencerd at gmail.com
Fri Jul 8 04:35:59 EDT 2011
I'll answer my own question. It was a mix of using two different fortran
compilers so specified the option: python setup.py config_fc
--fcompiler=gfortran build.
All seems to be going well now.
On 07/08/2011 05:35 PM, Jeffrey Spencer wrote:
> That actually makes sense because I am not sure the gnu that it was
> compiled with but I think it is different. I have since compiled gcc
> myself, then python, and atlas libraries. Then I tried to install
> numpy. It go tthrough the install no worries and found the correct
> libraries. It stuffed when I tried to import it with this error:
>
> >>> import numpy
> Traceback (most recent call last):
> File "<stdin>", line 1, in <module>
> File "/home/jspender/lib/python2.6/site-packages/numpy/__init__.py",
> line 137, in <module>
> import add_newdocs
> File
> "/home/jspender/lib/python2.6/site-packages/numpy/add_newdocs.py",
> line 9, in <module>
> from numpy.lib import add_newdoc
> File
> "/home/jspender/lib/python2.6/site-packages/numpy/lib/__init__.py",
> line 13, in <module>
> from polynomial import *
> File
> "/home/jspender/lib/python2.6/site-packages/numpy/lib/polynomial.py",
> line 17, in <module>
> from numpy.linalg import eigvals, lstsq
> File
> "/home/jspender/lib/python2.6/site-packages/numpy/linalg/__init__.py",
> line 48, in <module>
> from linalg import *
> File
> "/home/jspender/lib/python2.6/site-packages/numpy/linalg/linalg.py",
> line 23, in <module>
> from numpy.linalg import lapack_lite
> ImportError:
> /home/jspender/lib/python2.6/site-packages/numpy/linalg/lapack_lite.so: undefined
> symbol: _gfortran_concat_string
> >>>
>
> Any ideas???
>
> Cheers,
> Jeff
>
> On Fri, Jul 8, 2011 at 12:37 AM, Bruce Southey <bsouthey at gmail.com
> <mailto:bsouthey at gmail.com>> wrote:
>
> On 07/07/2011 05:23 AM, Jeffrey Spencer wrote:
> > The error is below:
> >
> > creating build/temp.linux-x86_64-2.6/numpy/core/blasdot
> > compile options: '-DATLAS_INFO="\"None\"" -Inumpy/core/blasdot
> > -Inumpy/core/include
> > -Ibuild/src.linux-x86_64-2.6/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/home/jspender/include/python2.6
> > -Ibuild/src.linux-x86_64-2.6/numpy/core/src/multiarray
> > -Ibuild/src.linux-x86_64-2.6/numpy/core/src/umath -c'
> > gcc: numpy/core/blasdot/_dotblas.c
> > numpy/core/blasdot/_dotblas.c: In function ‘dotblas_matrixproduct’:
> > numpy/core/blasdot/_dotblas.c:239: warning: comparison of distinct
> > pointer types lacks a cast
> > numpy/core/blasdot/_dotblas.c:257: warning: passing argument 3 of
> > ‘*(PyArray_API + 2240u)’ from incompatible pointer type
> > numpy/core/blasdot/_dotblas.c:292: warning: passing argument 3 of
> > ‘*(PyArray_API + 2240u)’ from incompatible pointer type
> > gcc -pthread -shared
> > build/temp.linux-x86_64-2.6/numpy/core/blasdot/_dotblas.o
> > -L/usr/local/lib -Lbuild/temp.linux-x86_64-2.6 -lf77blas -lcblas
> -latlas
> > -o build/lib.linux-x86_64-2.6/numpy/core/_dotblas.so
> > /usr/bin/ld: skipping incompatible /usr/local/lib/libf77blas.a when
> > searching for -lf77blas
> > /usr/bin/ld: skipping incompatible /usr/local/lib/libf77blas.a when
> > searching for -lf77blas
> > /usr/bin/ld: cannot find -lf77blas
> > collect2: ld returned 1 exit status
> > /usr/bin/ld: skipping incompatible /usr/local/lib/libf77blas.a when
> > searching for -lf77blas
> > /usr/bin/ld: skipping incompatible /usr/local/lib/libf77blas.a when
> > searching for -lf77blas
> > /usr/bin/ld: cannot find -lf77blas
> > collect2: ld returned 1 exit status
> > error: Command "gcc -pthread -shared
> > build/temp.linux-x86_64-2.6/numpy/core/blasdot/_dotblas.o
> > -L/usr/local/lib -Lbuild/temp.linux-x86_64-2.6 -lf77blas -lcblas
> -latlas
> > -o build/lib.linux-x86_64-2.6/numpy/core/_dotblas.so" failed
> with exit
> > status 1
> >
> > Any help would be appreciated.
> >
> Python is looking for a 64-bit library as the one in
> /usr/local/lib/ is
> either 32-bit or built with a different compiler version. If you have
> the correct library in another location then you need to point
> numpy to
> it or just build everything with the same compiler.
>
> Bruce
>
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