I’m currently following the tutorial Installing the SciPy Stack to install SciPy on Ubuntu 12.04 (Precise Pangolin) (I can’t use apt-get install because I need a recent version).
However, I get errors when I do the following commands:
python setup.py build
sudo python setup.py install --prefix=/usr/local # Installs to /usr/local
python setup.py build
michael@michael-laptop-ubuntu:~/Downloads/scipy-0.11.0rc1$ python setup.py buildRunning from scipy source directory.
blas_opt_info:
blas_mkl_info:
libraries mkl,vml,guide not found in /usr/local/lib
libraries mkl,vml,guide not found in /usr/lib
libraries mkl,vml,guide not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
atlas_blas_threads_info:
Setting PTATLAS=ATLAS
libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
libraries ptf77blas,ptcblas,atlas not found in /usr/lib/sse2
libraries ptf77blas,ptcblas,atlas not found in /usr/lib
libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
atlas_blas_info:
libraries f77blas,cblas,atlas not found in /usr/local/lib
libraries f77blas,cblas,atlas not found in /usr/lib/sse2
libraries f77blas,cblas,atlas not found in /usr/lib
libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1423: 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__)
blas_info:
libraries blas not found in /usr/local/lib
libraries blas not found in /usr/lib
libraries blas not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1432: UserWarning:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
warnings.warn(BlasNotFoundError.__doc__)
blas_src_info:
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1435: UserWarning:
Blas (http://www.netlib.org/blas/) sources not found.
Directories to search for the sources can be specified in the
numpy/distutils/site.cfg file (section [blas_src]) or by setting
the BLAS_SRC environment variable.
warnings.warn(BlasSrcNotFoundError.__doc__)
Traceback (most recent call last):
File "setup.py", line 208, in <module>
setup_package()
File "setup.py", line 199, in setup_package
configuration=configuration )
File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
config = configuration()
File "setup.py", line 136, in configuration
config.add_subpackage('scipy')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/setup.py", line 8, in configuration
config.add_subpackage('integrate')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/integrate/setup.py", line 10, in configuration
blas_opt = get_info('blas_opt',notfound_action=2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
return cl().get_info(notfound_action)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
Error in sys.excepthook:
Traceback (most recent call last):
File "/usr/lib/python2.7/dist-packages/apport_python_hook.py", line 64, in apport_excepthook
from apport.fileutils import likely_packaged, get_recent_crashes
File "/usr/lib/python2.7/dist-packages/apport/__init__.py", line 1, in <module>
from apport.report import Report
File "/usr/lib/python2.7/dist-packages/apport/report.py", line 18, in <module>
import problem_report
File "/usr/lib/python2.7/dist-packages/problem_report.py", line 14, in <module>
import zlib, base64, time, sys, gzip, struct, os
File "/usr/lib/python2.7/gzip.py", line 10, in <module>
import io
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/__init__.py", line 83, in <module>
from matlab import loadmat, savemat, byteordercodes
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/__init__.py", line 11, in <module>
from mio import loadmat, savemat
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio.py", line 15, in <module>
from mio4 import MatFile4Reader, MatFile4Writer
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio4.py", line 9, in <module>
import scipy.sparse
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/__init__.py", line 180, in <module>
from csr import *
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/csr.py", line 12, in <module>
from sparsetools import csr_tocsc, csr_tobsr, csr_count_blocks, \
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/__init__.py", line 4, in <module>
from csr import *
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 25, in <module>
_csr = swig_import_helper()
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 17, in swig_import_helper
import _csr
ImportError: No module named _csr
Original exception was:
Traceback (most recent call last):
File "setup.py", line 208, in <module>
setup_package()
File "setup.py", line 199, in setup_package
configuration=configuration )
File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
config = configuration()
File "setup.py", line 136, in configuration
config.add_subpackage('scipy')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/setup.py", line 8, in configuration
config.add_subpackage('integrate')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/integrate/setup.py", line 10, in configuration
blas_opt = get_info('blas_opt',notfound_action=2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
return cl().get_info(notfound_action)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
sudo python setup.py install –prefix=/usr/local # installs to /usr/local
michael@michael-laptop-ubuntu:~/Downloads/scipy-0.11.0rc1$ sudo python setup.py install --prefix=/usr/local
[sudo] password for michael:
Running from scipy source directory.
blas_opt_info:
blas_mkl_info:
libraries mkl,vml,guide not found in /usr/local/lib
libraries mkl,vml,guide not found in /usr/lib
libraries mkl,vml,guide not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
atlas_blas_threads_info:
Setting PTATLAS=ATLAS
libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
libraries ptf77blas,ptcblas,atlas not found in /usr/lib/sse2
libraries ptf77blas,ptcblas,atlas not found in /usr/lib
libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
atlas_blas_info:
libraries f77blas,cblas,atlas not found in /usr/local/lib
libraries f77blas,cblas,atlas not found in /usr/lib/sse2
libraries f77blas,cblas,atlas not found in /usr/lib
libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1423: 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__)
blas_info:
libraries blas not found in /usr/local/lib
libraries blas not found in /usr/lib
libraries blas not found in /usr/lib/i386-linux-gnu
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1432: UserWarning:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
warnings.warn(BlasNotFoundError.__doc__)
blas_src_info:
NOT AVAILABLE
/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1435: UserWarning:
Blas (http://www.netlib.org/blas/) sources not found.
Directories to search for the sources can be specified in the
numpy/distutils/site.cfg file (section [blas_src]) or by setting
the BLAS_SRC environment variable.
warnings.warn(BlasSrcNotFoundError.__doc__)
Traceback (most recent call last):
File "setup.py", line 208, in <module>
setup_package()
File "setup.py", line 199, in setup_package
configuration=configuration )
File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
config = configuration()
File "setup.py", line 136, in configuration
config.add_subpackage('scipy')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/setup.py", line 8, in configuration
config.add_subpackage('integrate')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/integrate/setup.py", line 10, in configuration
blas_opt = get_info('blas_opt',notfound_action=2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
return cl().get_info(notfound_action)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
Error in sys.excepthook:
Traceback (most recent call last):
File "/usr/lib/python2.7/dist-packages/apport_python_hook.py", line 64, in apport_excepthook
from apport.fileutils import likely_packaged, get_recent_crashes
File "/usr/lib/python2.7/dist-packages/apport/__init__.py", line 1, in <module>
from apport.report import Report
File "/usr/lib/python2.7/dist-packages/apport/report.py", line 18, in <module>
import problem_report
File "/usr/lib/python2.7/dist-packages/problem_report.py", line 14, in <module>
import zlib, base64, time, sys, gzip, struct, os
File "/usr/lib/python2.7/gzip.py", line 10, in <module>
import io
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/__init__.py", line 83, in <module>
from matlab import loadmat, savemat, byteordercodes
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/__init__.py", line 11, in <module>
from mio import loadmat, savemat
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio.py", line 15, in <module>
from mio4 import MatFile4Reader, MatFile4Writer
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio4.py", line 9, in <module>
import scipy.sparse
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/__init__.py", line 180, in <module>
from csr import *
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/csr.py", line 12, in <module>
from sparsetools import csr_tocsc, csr_tobsr, csr_count_blocks, \
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/__init__.py", line 4, in <module>
from csr import *
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 25, in <module>
_csr = swig_import_helper()
File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 17, in swig_import_helper
import _csr
ImportError: No module named _csr
Original exception was:
Traceback (most recent call last):
File "setup.py", line 208, in <module>
setup_package()
File "setup.py", line 199, in setup_package
configuration=configuration )
File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
config = configuration()
File "setup.py", line 136, in configuration
config.add_subpackage('scipy')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/setup.py", line 8, in configuration
config.add_subpackage('integrate')
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
caller_level = 2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
caller_level = caller_level + 1)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
config = setup_module.configuration(*args)
File "scipy/integrate/setup.py", line 10, in configuration
blas_opt = get_info('blas_opt',notfound_action=2)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
return cl().get_info(notfound_action)
File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError:
Blas (http://www.netlib.org/blas/) libraries not found.
Directories to search for the libraries can be specified in the
numpy/distutils/site.cfg file (section [blas]) or by setting
the BLAS environment variable.
Moreover, how do I test if this module was installed correctly?
PyPM is a good way to install it. The version is beta 0.10.1 and it includes all of the dependencies. You need Active Python to access PyPM, but that you should be able to install easily.