It might also be that in your case the patch we apply:
build/pkgs/numpy/patches/numpy-1.10.2-no-hardcode-blas.patch
does more harm than good.
On Wed, Nov 20, 2019 at 5:58 PM Dima Pasechnik <dimp...@gmail.com> wrote:
>
> On Wed, Nov 20, 2019 at 5:45 PM mmarco <mma...@unizar.es> wrote:
> >
> > The log shows this:
> >
> >
> >
> >
> > FOUND:
> > libraries = ['openblas', 'blas']
> > library_dirs = ['/home/mmarco/sagep3/local/lib', '/usr/lib64']
> > include_dirs = ['/usr/include', '/home/mmarco/sagep3/local/include']
> > language = c
> > --
> >
> > FOUND:
> > define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
> > libraries = ['openblas', 'blas']
> > library_dirs = ['/home/mmarco/sagep3/local/lib', '/usr/lib64']
> > include_dirs = ['/usr/include', '/home/mmarco/sagep3/local/include']
> > language = c
> >
> >
> > FOUND:
> > libraries = ['openblas']
> > library_dirs = ['/home/mmarco/sagep3/local/lib']
> > language = f77
> >
> > FOUND:
> > define_macros = [('NO_ATLAS_INFO', 1), ('HAVE_CBLAS', None)]
> > libraries = ['openblas', 'openblas', 'blas']
> > library_dirs = ['/home/mmarco/sagep3/local/lib', '/usr/lib64']
> > language = c
> > include_dirs = ['/usr/include', '/home/mmarco/sagep3/local/include']
>
> OK, so my diagnosis was correct. An immediate workaround would be to
> get rid of blas.so in /usr/lib64
> just temporarily, to enable Numpy to build, then you can put it back
>
> HTH
> Dima
>
> >
> >
> >
> > El miércoles, 20 de noviembre de 2019, 18:38:41 (UTC+1), Dima Pasechnik
> > escribió:
> >>
> >> On Wed, Nov 20, 2019 at 5:25 PM mmarco <mma...@unizar.es> wrote:
> >> >
> >> > I didn't do anything specific to try to use external blas/lapack. How
> >> > can I check if sage is trying to?
> >>
> >> I just though you might be doing something like this, based on a
> >> bizarre error your log shows:
> >>
> >> [numpy-1.16.1]
> >> /usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld:
> >> cannot find -lblas
> >>
> >> Normally speaking, if you use openblas from Sage, there is no -lblas
> >> anywhere in the linking commands of Numpy, cause
> >> Numpy configuration would try to look for blas, not find it, and do
> >> not try to link against blas.so at all.
> >>
> >> Have a look in logs/pkgs/numpy-1.16.1.log to see where it finds blas.
> >> E.g. in the log on my machine I see there
> >>
> >> Library blas was not found. Ignoring
> >> FOUND:
> >> libraries = ['openblas']
> >> library_dirs = ['/home/dimpase/sage/local/lib']
> >> language = c
> >> define_macros = [('HAVE_CBLAS', None)]
> >> include_dirs = ['/home/dimpase/sage/local/include']
> >>
> >> HTH
> >> Dima
> >>
> >>
> >>
> >> > El miércoles, 20 de noviembre de 2019, 10:01:14 (UTC+1), Dima Pasechnik
> >> > escribió:
> >> >>
> >> >> On Wed, Nov 20, 2019 at 8:26 AM mmarco <mma...@unizar.es> wrote:
> >> >> >
> >> >> > Hi,
> >> >> >
> >> >> > I tried to update to the last beta an got an error when trying to
> >> >> > compile numpy. The error persists on an installation from zero:
> >> >>
> >> >> are you trying to use external blas/lapack?
> >> >> >
> >> >> >
> >> >> >
> >> >> >
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/multiarray/_multiarray_tests.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/mem_overlap.c
> >> >> > [numpy-1.16.1] gcc -pthread -shared -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib -L.
> >> >> > -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib
> >> >> > -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib -shared
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/_multiarray_tests.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/mem_overlap.o
> >> >> > -L/home/mmarco/sagep3/local/lib -Lbuild/temp.linux-x86_64-3.7
> >> >> > -lnpymath -lpython3.7m -o
> >> >> > build/lib.linux-x86_64-3.7/numpy/core/_multiarray_tests.cpython-37m-x86_64-linux-gnu.so
> >> >> > [numpy-1.16.1] building 'numpy.core._multiarray_umath' extension
> >> >> > [numpy-1.16.1] compiling C sources
> >> >> > [numpy-1.16.1] C compiler: gcc -Wno-unused-result -Wsign-compare
> >> >> > -DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -fPIC
> >> >> > [numpy-1.16.1]
> >> >> > [numpy-1.16.1] creating
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray
> >> >> > [numpy-1.16.1] creating
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath
> >> >> > [numpy-1.16.1] creating
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/umath
> >> >> > [numpy-1.16.1] compile options: '-DNPY_INTERNAL_BUILD=1
> >> >> > -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1
> >> >> > -D_LARGEFILE64_SOURCE=1 -DNO_ATLAS_INFO=1 -DHAVE_CBLAS -I/usr/include
> >> >> > -I/home/mmarco/sagep3/local/include
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/src/umath
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/src/npymath
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/src/common
> >> >> > -Inumpy/core/include
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/include/numpy
> >> >> > -Inumpy/core/src/common -Inumpy/core/src -Inumpy/core
> >> >> > -Inumpy/core/src/npymath -Inumpy/core/src/multiarray
> >> >> > -Inumpy/core/src/umath -Inumpy/core/src/npysort
> >> >> > -I/home/mmarco/sagep3/local/include/python3.7m
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/src/common
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/src/npymath
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/src/common
> >> >> > -Ibuild/src.linux-x86_64-3.7/numpy/core/src/npymath -c'
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/alloc.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/array_assign_scalar.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/buffer.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/conversion_utils.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/common.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/datetime_strings.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/descriptor.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/multiarray/einsum.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/arrayobject.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/array_assign_array.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/ctors.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/arrayfunction_override.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/datetime_busday.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/calculation.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/convert.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/hashdescr.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/item_selection.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/convert_datatype.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/datetime_busdaycal.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/compiled_base.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/multiarray/arraytypes.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/dragon4.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/multiarray/lowlevel_strided_loops.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/multiarraymodule.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/dtype_transfer.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/nditer_constr.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/datetime.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/iterators.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/refcount.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/scalarapi.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/nditer_pywrap.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/sequence.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/temp_elide.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/shape.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/multiarray/scalartypes.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/typeinfo.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/usertypes.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/vdot.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/umath/loops.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/umath/umathmodule.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/number.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/umath/reduction.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_templ.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/umath/extobj.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/umath/cpuid.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/umath/ufunc_type_resolution.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/umath/scalarmath.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/nditer_api.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/umath/override.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/strfuncs.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/flagsobject.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/npymath/npy_math.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/npymath/ieee754.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/npymath/npy_math_complex.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/getset.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/array_assign.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/mem_overlap.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/npymath/halffloat.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/ucsnarrow.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/cblasfuncs.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/ufunc_override.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/numpyos.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/python_xerbla.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/common/npy_longdouble.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/mapping.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/multiarray/methods.c
> >> >> > [numpy-1.16.1] gcc:
> >> >> > build/src.linux-x86_64-3.7/numpy/core/src/umath/matmul.c
> >> >> > [numpy-1.16.1] gcc: numpy/core/src/umath/ufunc_object.c
> >> >> > [numpy-1.16.1] numpy/core/src/umath/ufunc_object.c: In function
> >> >> > '_parse_signature':
> >> >> > [numpy-1.16.1] numpy/core/src/umath/ufunc_object.c:657:19: warning:
> >> >> > comparison of integer expressions of different signedness: 'int' and
> >> >> > 'size_t' {aka 'long unsigned int'} [-Wsign-compare]
> >> >> > [numpy-1.16.1] 657 | for (i = 0; i < len; i++) {
> >> >> > [numpy-1.16.1] | ^
> >> >> > [numpy-1.16.1] gcc -pthread -shared -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib -L.
> >> >> > -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib
> >> >> > -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib -shared
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/alloc.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/arrayobject.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/arraytypes.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/array_assign_scalar.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/array_assign_array.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/arrayfunction_override.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/buffer.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/calculation.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/compiled_base.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/common.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/convert.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/convert_datatype.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/conversion_utils.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/ctors.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime_strings.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime_busday.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime_busdaycal.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/descriptor.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/dragon4.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/dtype_transfer.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/einsum.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/flagsobject.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/getset.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/hashdescr.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/item_selection.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/iterators.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/lowlevel_strided_loops.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/mapping.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/methods.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/multiarraymodule.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_templ.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_api.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_constr.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_pywrap.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/number.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/refcount.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/sequence.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/shape.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/scalarapi.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/scalartypes.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/strfuncs.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/temp_elide.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/typeinfo.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/usertypes.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/vdot.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/umathmodule.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/reduction.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/umath/loops.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/umath/matmul.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/ufunc_object.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/extobj.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/cpuid.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/umath/scalarmath.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/ufunc_type_resolution.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/override.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/npymath/npy_math.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/npymath/ieee754.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/npymath/npy_math_complex.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/npymath/halffloat.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/array_assign.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/mem_overlap.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/npy_longdouble.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/ucsnarrow.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/ufunc_override.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/numpyos.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/cblasfuncs.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/python_xerbla.o
> >> >> > -L/home/mmarco/sagep3/local/lib -L/usr/lib64
> >> >> > -L/home/mmarco/sagep3/local/lib -Lbuild/temp.linux-x86_64-3.7
> >> >> > -lnpymath -lnpysort -lopenblas -lblas -lm -lpython3.7m -o
> >> >> > build/lib.linux-x86_64-3.7/numpy/core/_multiarray_umath.cpython-37m-x86_64-linux-gnu.so
> >> >> > [numpy-1.16.1]
> >> >> > /usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld:
> >> >> > cannot find -lblas
> >> >> > [numpy-1.16.1] collect2: error: ld returned 1 exit status
> >> >> > [numpy-1.16.1] Running from numpy source directory.
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/system_info.py:636:
> >> >> > UserWarning:
> >> >> > [numpy-1.16.1] Atlas (http://math-atlas.sourceforge.net/)
> >> >> > libraries not found.
> >> >> > [numpy-1.16.1] Directories to search for the libraries can be
> >> >> > specified in the
> >> >> > [numpy-1.16.1] numpy/distutils/site.cfg file (section [atlas]) or
> >> >> > by setting
> >> >> > [numpy-1.16.1] the ATLAS environment variable.
> >> >> > [numpy-1.16.1] self.calc_info()
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/system_info.py:636:
> >> >> > UserWarning:
> >> >> > [numpy-1.16.1] Atlas (http://math-atlas.sourceforge.net/)
> >> >> > libraries not found.
> >> >> > [numpy-1.16.1] Directories to search for the libraries can be
> >> >> > specified in the
> >> >> > [numpy-1.16.1] numpy/distutils/site.cfg file (section [atlas]) or
> >> >> > by setting
> >> >> > [numpy-1.16.1] the ATLAS environment variable.
> >> >> > [numpy-1.16.1] self.calc_info()
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/lib/python3.7/distutils/dist.py:274:
> >> >> > UserWarning: Unknown distribution option: 'define_macros'
> >> >> > [numpy-1.16.1] warnings.warn(msg)
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/fcompiler/__init__.py:517:
> >> >> > UserWarning: FFLAGS is used as is, not appended to flags already
> >> >> > defined by numpy.distutils! Use NPY_DISTUTILS_APPEND_FLAGS=1 to
> >> >> > obtain appending behavior instead (this behavior will become default
> >> >> > in a future release).
> >> >> > [numpy-1.16.1] fflags = self.flag_vars.flags + dflags + oflags +
> >> >> > aflags
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/fcompiler/__init__.py:530:
> >> >> > UserWarning: LDFLAGS is used as is, not appended to flags already
> >> >> > defined by numpy.distutils! Use NPY_DISTUTILS_APPEND_FLAGS=1 to
> >> >> > obtain appending behavior instead (this behavior will become default
> >> >> > in a future release).
> >> >> > [numpy-1.16.1] linker_so_flags = self.flag_vars.linker_so
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/fcompiler/__init__.py:540:
> >> >> > UserWarning: LDFLAGS is used as is, not appended to flags already
> >> >> > defined by numpy.distutils! Use NPY_DISTUTILS_APPEND_FLAGS=1 to
> >> >> > obtain appending behavior instead (this behavior will become default
> >> >> > in a future release).
> >> >> > [numpy-1.16.1] linker_exe_flags = self.flag_vars.linker_exe
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/fcompiler/__init__.py:517:
> >> >> > UserWarning: FFLAGS is used as is, not appended to flags already
> >> >> > defined by numpy.distutils! Use NPY_DISTUTILS_APPEND_FLAGS=1 to
> >> >> > obtain appending behavior instead (this behavior will become default
> >> >> > in a future release).
> >> >> > [numpy-1.16.1] fflags = self.flag_vars.flags + dflags + oflags +
> >> >> > aflags
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/fcompiler/__init__.py:530:
> >> >> > UserWarning: LDFLAGS is used as is, not appended to flags already
> >> >> > defined by numpy.distutils! Use NPY_DISTUTILS_APPEND_FLAGS=1 to
> >> >> > obtain appending behavior instead (this behavior will become default
> >> >> > in a future release).
> >> >> > [numpy-1.16.1] linker_so_flags = self.flag_vars.linker_so
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1/src/numpy/distutils/fcompiler/__init__.py:540:
> >> >> > UserWarning: LDFLAGS is used as is, not appended to flags already
> >> >> > defined by numpy.distutils! Use NPY_DISTUTILS_APPEND_FLAGS=1 to
> >> >> > obtain appending behavior instead (this behavior will become default
> >> >> > in a future release).
> >> >> > [numpy-1.16.1] linker_exe_flags = self.flag_vars.linker_exe
> >> >> > [numpy-1.16.1] error: Command "gcc -pthread -shared
> >> >> > -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib -L.
> >> >> > -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib
> >> >> > -L/home/mmarco/sagep3/local/lib
> >> >> > -Wl,-rpath,/home/mmarco/sagep3/local/lib -shared
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/alloc.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/arrayobject.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/arraytypes.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/array_assign_scalar.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/array_assign_array.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/arrayfunction_override.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/buffer.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/calculation.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/compiled_base.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/common.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/convert.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/convert_datatype.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/conversion_utils.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/ctors.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime_strings.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime_busday.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/datetime_busdaycal.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/descriptor.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/dragon4.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/dtype_transfer.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/einsum.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/flagsobject.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/getset.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/hashdescr.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/item_selection.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/iterators.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/lowlevel_strided_loops.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/mapping.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/methods.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/multiarraymodule.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_templ.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_api.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_constr.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/nditer_pywrap.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/number.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/refcount.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/sequence.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/shape.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/scalarapi.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/multiarray/scalartypes.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/strfuncs.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/temp_elide.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/typeinfo.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/usertypes.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/multiarray/vdot.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/umathmodule.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/reduction.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/umath/loops.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/umath/matmul.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/ufunc_object.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/extobj.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/cpuid.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/umath/scalarmath.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/ufunc_type_resolution.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/umath/override.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/npymath/npy_math.o
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/npymath/ieee754.o
> >> >> >
> >> >> > build/temp.linux-x86_64-3.7/build/src.linux-x86_64-3.7/numpy/core/src/npymath/npy_math_complex.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/npymath/halffloat.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/array_assign.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/mem_overlap.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/npy_longdouble.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/ucsnarrow.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/ufunc_override.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/numpyos.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/cblasfuncs.o
> >> >> > build/temp.linux-x86_64-3.7/numpy/core/src/common/python_xerbla.o
> >> >> > -L/home/mmarco/sagep3/local/lib -L/usr/lib64
> >> >> > -L/home/mmarco/sagep3/local/lib -Lbuild/temp.linux-x86_64-3.7
> >> >> > -lnpymath -lnpysort -lopenblas -lblas -lm -lpython3.7m -o
> >> >> > build/lib.linux-x86_64-3.7/numpy/core/_multiarray_umath.cpython-37m-x86_64-linux-gnu.so"
> >> >> > failed with exit status 1
> >> >> > [numpy-1.16.1]
> >> >> > ************************************************************************************************************************************************************************************
> >> >> > [numpy-1.16.1] Error building / installing numpy
> >> >> > [numpy-1.16.1]
> >> >> > ************************************************************************************************************************************************************************************
> >> >> > [numpy-1.16.1]
> >> >> > [numpy-1.16.1] real 1m9.458s
> >> >> > [numpy-1.16.1] user 2m31.554s
> >> >> > [numpy-1.16.1] sys 0m5.076s
> >> >> > [numpy-1.16.1]
> >> >> > ************************************************************************
> >> >> > [numpy-1.16.1] Error installing package numpy-1.16.1
> >> >> > [numpy-1.16.1]
> >> >> > ************************************************************************
> >> >> > [numpy-1.16.1] Please email sage-devel
> >> >> > (http://groups.google.com/group/sage-devel)
> >> >> > [numpy-1.16.1] explaining the problem and including the log file
> >> >> > [numpy-1.16.1] /home/mmarco/sagep3/logs/pkgs/numpy-1.16.1.log
> >> >> > [numpy-1.16.1] Describe your computer, operating system, etc.
> >> >> > [numpy-1.16.1] If you want to try to fix the problem yourself,
> >> >> > *don't* just cd to
> >> >> > [numpy-1.16.1]
> >> >> > /home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1 and type
> >> >> > 'make' or whatever is appropriate.
> >> >> > [numpy-1.16.1] Instead, the following commands setup all environment
> >> >> > variables
> >> >> > [numpy-1.16.1] correctly and load a subshell for you to debug the
> >> >> > error:
> >> >> > [numpy-1.16.1] (cd
> >> >> > '/home/mmarco/sagep3/local/var/tmp/sage/build/numpy-1.16.1' &&
> >> >> > '/home/mmarco/sagep3/sage' --sh)
> >> >> > [numpy-1.16.1] When you are done debugging, you can type "exit" to
> >> >> > leave the subshell.
> >> >> > [numpy-1.16.1]
> >> >> > ************************************************************************
> >> >> > make[3]: *** [Makefile:2151:
> >> >> > /home/mmarco/sagep3/local/var/lib/sage/installed/numpy-1.16.1] Error 1
> >> >> > make[3]: se sale del directorio '/home/mmarco/sagep3/build/make'
> >> >> > make[2]: *** [Makefile:1829: all-start] Error 2
> >> >> > make[2]: se sale del directorio '/home/mmarco/sagep3/build/make'
> >> >> >
> >> >> > real 79m33,742s
> >> >> > user 94m17,108s
> >> >> > sys 7m4,820s
> >> >> > ***************************************************************
> >> >> > Error building Sage.
> >> >> >
> >> >> >
> >> >> > Somebody else has experienced something like this?
> >> >> >
> >> >> > --
> >> >> > You received this message because you are subscribed to the Google
> >> >> > Groups "sage-devel" group.
> >> >> > To unsubscribe from this group and stop receiving emails from it,
> >> >> > send an email to sage-...@googlegroups.com.
> >> >> > To view this discussion on the web visit
> >> >> > https://groups.google.com/d/msgid/sage-devel/9248c918-b1da-4051-a7cd-98d142ab7ea4%40googlegroups.com.
> >> >
> >> > --
> >> > You received this message because you are subscribed to the Google
> >> > Groups "sage-devel" group.
> >> > To unsubscribe from this group and stop receiving emails from it, send
> >> > an email to sage-...@googlegroups.com.
> >> > To view this discussion on the web visit
> >> > https://groups.google.com/d/msgid/sage-devel/5218bcb7-a559-4236-af00-d8be40a0febb%40googlegroups.com.
> >
> > --
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> > "sage-devel" group.
> > To unsubscribe from this group and stop receiving emails from it, send an
> > email to sage-devel+unsubscr...@googlegroups.com.
> > To view this discussion on the web visit
> > https://groups.google.com/d/msgid/sage-devel/88da39e0-adea-4bbf-8f8b-ede673f08765%40googlegroups.com.
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