[Numpy-discussion] Compiling numpy on Red-Hat Import Error with lapack_lite.so

[Jeffrey Spencer]

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> 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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