How to install scipy with pip3?
It's telling you exactly what you need to do: install all those build dependencies.
Before I get there, I've said a few times before that I generally don't recommend people use pip
(or pip3
) to install packages into their global Python install. Both pip
and apt-get
are completely oblivious to each other. Files can be unduly overwritten or removed and because much of your operating system depends on your Python environment working, messing with it isn't a good idea.
So I would recommend either using a virtualenv (where you keep everything separate from the system) or only using repository-deployed packages.
That said, the technical reason you can't install is because SciPy needs to compile a load of stuff and it has external dependencies for a lot of that. These need to be fulfilled. You could do this manually (by reading the error) or in this case where there is a repo version, you could ask Apt to install the build dependencies:
sudo apt-get build-dep python3-scipy
And that will install a metric butt-load of packages. Note that some of these will probably be things you've already wedged in with pip
. I'm seeing a lot of numpy stuff. Beware.
And you'd still need to go through a similar process if you're building in a virtualenv but I would recommend against using apt
to fulfil your dependencies because you'll probably have differing versions of dependencies. That's not a healthy build recipe.
In short, using the repo version is easiest.
You could also try
sudo apt-get install python3-scipy
Related videos on Youtube
Comments
-
alvas over 1 year
I am trying to install scipy for python3.x and I am trying to install it with pip3
sudo pip3 install scipy
But I have the following errors:
Downloading/unpacking scipy Running setup.py (path:/tmp/pip_build_root/scipy/setup.py) egg_info for package scipy warning: no previously-included files matching '*_subr_*.f' found under directory 'scipy/linalg/src/id_dist/src' no previously-included directories found matching 'scipy/special/tests/data/boost' no previously-included directories found matching 'scipy/special/tests/data/gsl' no previously-included directories found matching 'doc/build' no previously-included directories found matching 'doc/source/generated' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*~' found anywhere in distribution warning: no previously-included files matching '*.bak' found anywhere in distribution warning: no previously-included files matching '*.swp' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution Installing collected packages: scipy Running setup.py install for scipy blas_opt_info: blas_mkl_info: libraries mkl,vml,guide not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE openblas_info: libraries openblas not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE atlas_blas_threads_info: Setting PTATLAS=ATLAS libraries ptf77blas,ptcblas,atlas not found in ['/usr/local/lib', '/usr/lib/atlas-base', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE atlas_blas_info: libraries f77blas,cblas,atlas not found in ['/usr/local/lib', '/usr/lib/atlas-base', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE blas_info: FOUND: language = f77 library_dirs = ['/usr/lib'] libraries = ['blas'] FOUND: language = f77 library_dirs = ['/usr/lib'] libraries = ['blas'] define_macros = [('NO_ATLAS_INFO', 1)] lapack_opt_info: openblas_lapack_info: libraries openblas not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE lapack_mkl_info: mkl_info: libraries mkl,vml,guide not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE NOT AVAILABLE atlas_threads_info: Setting PTATLAS=ATLAS libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib libraries lapack_atlas not found in /usr/local/lib libraries ptf77blas,ptcblas,atlas not found in /usr/lib/atlas-base libraries lapack_atlas not found in /usr/lib/atlas-base libraries ptf77blas,ptcblas,atlas not found in /usr/lib libraries lapack_atlas not found in /usr/lib libraries ptf77blas,ptcblas,atlas not found in /usr/lib/x86_64-linux-gnu libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu <class 'numpy.distutils.system_info.atlas_threads_info'> NOT AVAILABLE atlas_info: libraries f77blas,cblas,atlas not found in /usr/local/lib libraries lapack_atlas not found in /usr/local/lib libraries f77blas,cblas,atlas not found in /usr/lib/atlas-base libraries lapack_atlas not found in /usr/lib/atlas-base libraries f77blas,cblas,atlas not found in /usr/lib libraries lapack_atlas not found in /usr/lib libraries f77blas,cblas,atlas not found in /usr/lib/x86_64-linux-gnu libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu <class 'numpy.distutils.system_info.atlas_info'> NOT AVAILABLE lapack_info: libraries lapack not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE lapack_src_info: NOT AVAILABLE /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1526: UserWarning: Atlas (http://math-atlas.sourceforge.net/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [atlas]) or by setting the ATLAS environment variable. warnings.warn(AtlasNotFoundError.__doc__) /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1432: UserWarning: Atlas (http://math-atlas.sourceforge.net/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [atlas]) or by setting the ATLAS environment variable. warnings.warn(AtlasNotFoundError.__doc__) /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1443: UserWarning: Lapack (http://www.netlib.org/lapack/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [lapack]) or by setting the LAPACK environment variable. warnings.warn(LapackNotFoundError.__doc__) /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1446: UserWarning: Lapack (http://www.netlib.org/lapack/) sources not found. Directories to search for the sources can be specified in the numpy/distutils/site.cfg file (section [lapack_src]) or by setting the LAPACK_SRC environment variable. warnings.warn(LapackSrcNotFoundError.__doc__) Traceback (most recent call last): File "<string>", line 1, in <module> File "/tmp/pip_build_root/scipy/setup.py", line 237, in <module> setup_package() File "/tmp/pip_build_root/scipy/setup.py", line 234, in setup_package setup(**metadata) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/core.py", line 135, in setup config = configuration() File "/tmp/pip_build_root/scipy/setup.py", line 173, in configuration config.add_subpackage('scipy') File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 966, in add_subpackage caller_level = 2) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 935, in get_subpackage caller_level = caller_level + 1) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 872, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "scipy/setup.py", line 13, in configuration config.add_subpackage('interpolate') File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 966, in add_subpackage caller_level = 2) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 935, in get_subpackage caller_level = caller_level + 1) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 872, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "scipy/interpolate/setup.py", line 11, in configuration lapack_opt = get_info('lapack_opt', notfound_action=2) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py", line 356, in get_info return cl().get_info(notfound_action) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py", line 514, in get_info raise self.notfounderror(self.notfounderror.__doc__) numpy.distutils.system_info.LapackNotFoundError: Lapack (http://www.netlib.org/lapack/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [lapack]) or by setting the LAPACK environment variable. Complete output from command /usr/bin/python3 -c "import setuptools, tokenize;__file__='/tmp/pip_build_root/scipy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-w234i8a7-record/install-record.txt --single-version-externally-managed --compile: blas_opt_info: blas_mkl_info: libraries mkl,vml,guide not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE openblas_info: libraries openblas not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE atlas_blas_threads_info: Setting PTATLAS=ATLAS libraries ptf77blas,ptcblas,atlas not found in ['/usr/local/lib', '/usr/lib/atlas-base', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE atlas_blas_info: libraries f77blas,cblas,atlas not found in ['/usr/local/lib', '/usr/lib/atlas-base', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE blas_info: FOUND: language = f77 library_dirs = ['/usr/lib'] libraries = ['blas'] FOUND: language = f77 library_dirs = ['/usr/lib'] libraries = ['blas'] define_macros = [('NO_ATLAS_INFO', 1)] lapack_opt_info: openblas_lapack_info: libraries openblas not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE lapack_mkl_info: mkl_info: libraries mkl,vml,guide not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE NOT AVAILABLE atlas_threads_info: Setting PTATLAS=ATLAS libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib libraries lapack_atlas not found in /usr/local/lib libraries ptf77blas,ptcblas,atlas not found in /usr/lib/atlas-base libraries lapack_atlas not found in /usr/lib/atlas-base libraries ptf77blas,ptcblas,atlas not found in /usr/lib libraries lapack_atlas not found in /usr/lib libraries ptf77blas,ptcblas,atlas not found in /usr/lib/x86_64-linux-gnu libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu <class 'numpy.distutils.system_info.atlas_threads_info'> NOT AVAILABLE atlas_info: libraries f77blas,cblas,atlas not found in /usr/local/lib libraries lapack_atlas not found in /usr/local/lib libraries f77blas,cblas,atlas not found in /usr/lib/atlas-base libraries lapack_atlas not found in /usr/lib/atlas-base libraries f77blas,cblas,atlas not found in /usr/lib libraries lapack_atlas not found in /usr/lib libraries f77blas,cblas,atlas not found in /usr/lib/x86_64-linux-gnu libraries lapack_atlas not found in /usr/lib/x86_64-linux-gnu <class 'numpy.distutils.system_info.atlas_info'> NOT AVAILABLE lapack_info: libraries lapack not found in ['/usr/local/lib', '/usr/lib', '/usr/lib/x86_64-linux-gnu'] NOT AVAILABLE lapack_src_info: NOT AVAILABLE /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1526: UserWarning: Atlas (http://math-atlas.sourceforge.net/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [atlas]) or by setting the ATLAS environment variable. warnings.warn(AtlasNotFoundError.__doc__) /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1432: UserWarning: Atlas (http://math-atlas.sourceforge.net/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [atlas]) or by setting the ATLAS environment variable. warnings.warn(AtlasNotFoundError.__doc__) /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1443: UserWarning: Lapack (http://www.netlib.org/lapack/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [lapack]) or by setting the LAPACK environment variable. warnings.warn(LapackNotFoundError.__doc__) /usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py:1446: UserWarning: Lapack (http://www.netlib.org/lapack/) sources not found. Directories to search for the sources can be specified in the numpy/distutils/site.cfg file (section [lapack_src]) or by setting the LAPACK_SRC environment variable. warnings.warn(LapackSrcNotFoundError.__doc__) Traceback (most recent call last): File "<string>", line 1, in <module> File "/tmp/pip_build_root/scipy/setup.py", line 237, in <module> setup_package() File "/tmp/pip_build_root/scipy/setup.py", line 234, in setup_package setup(**metadata) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/core.py", line 135, in setup config = configuration() File "/tmp/pip_build_root/scipy/setup.py", line 173, in configuration config.add_subpackage('scipy') File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 966, in add_subpackage caller_level = 2) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 935, in get_subpackage caller_level = caller_level + 1) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 872, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "scipy/setup.py", line 13, in configuration config.add_subpackage('interpolate') File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 966, in add_subpackage caller_level = 2) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 935, in get_subpackage caller_level = caller_level + 1) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/misc_util.py", line 872, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "scipy/interpolate/setup.py", line 11, in configuration lapack_opt = get_info('lapack_opt', notfound_action=2) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py", line 356, in get_info return cl().get_info(notfound_action) File "/usr/local/lib/python3.4/dist-packages/numpy/distutils/system_info.py", line 514, in get_info raise self.notfounderror(self.notfounderror.__doc__) numpy.distutils.system_info.LapackNotFoundError: Lapack (http://www.netlib.org/lapack/) libraries not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [lapack]) or by setting the LAPACK environment variable. ---------------------------------------- Cleaning up... Command /usr/bin/python3 -c "import setuptools, tokenize;__file__='/tmp/pip_build_root/scipy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-w234i8a7-record/install-record.txt --single-version-externally-managed --compile failed with error code 1 in /tmp/pip_build_root/scipy Storing debug log for failure in /home/alvas/.pip/pip.log
How do I install
scipy
withpip3
? If there isn't any solution withpip3
, how else can i install scipy for python3.x? -
imrek over 8 yearsI tried this, to no avail: ImportError: No module named 'scipy'.