在Ubuntu上安装SciPy / Python


SciPy/Python install on Ubuntu

我目前正在按照教程安装SciPy Stack在Ubuntu 12.04(精确穿山甲)上安装SciPy(我不能使用apt-get install，因为我需要最新版本)。

但是，当我执行以下命令时出现错误：

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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

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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.

此外，如何测试此模块是否正确安装？

相关讨论

我通常的工作流程是使用virtualenv来获得带有最新软件包的Python发行版。

在此环境中，您可以使用pip安装和更新所需的所有软件包，而无需任何sudo调用。

因此，如果您只需要SciPy(和NumPy)，那将是：

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$ sudo apt-get install python-virtualenv python-pip
$ sudo apt-get build-dep python-numpy python-scipy
$ # Create virtualenv in home
$ virtualenv .myenv
$ # Activate the virtualenv
$ source .myenv/bin/activate
(myenv)$ pip install -U numpy
(myenv)$ pip install -U scipy

(如果您没有root访问权限，则可以按照此处的说明安装virtualenv和pip。但是，您需要NumPy和SciPy的依赖项。)

您可以在.bash_profile中包含source .myenv/bin/activate，并且您的shell将始终以该环境开头。如果使用需求文件，则可以轻松地在所有计算机上安装和维护相同的环境。

相关讨论

有同样的问题。以下对我有用：

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sudo apt-get install libblas-dev
sudo apt-get install liblapack-dev
sudo apt-get install gfortran
相关讨论

您需要按照输出建议下载并安装Atlas。之后，重试SciPy安装。

其他选项是apt-get install旧版本。这将自动安装所有依赖项;然后手动安装新的。这将导致您的计算机上有两个库，一个在/usr/share/pyshared中，另一个在/usr/local下，但是您可以通过更改模块加载路径来确保加载哪个库。

此外，如果您将省略--prefix=/usr/local，在较旧版本之上安装较新版本时，它将被覆盖，并且不需要路径修改。

相关讨论

您正在尝试从源代码构建SciPy。

如果您只想安装SciPy，请使用以下命令：

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sudo apt-get install python-scipy
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我遇到了与OP相同的问题(在Red Hat Linux 5.7上对我来说;是的，我知道它已经过时了)所有这些都是通过安装ATLAS标头(和"静态库"，它说)来解决的：

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 yum install atlas-devel

PyPM是安装它的好方法。版本是beta 0.10.1，它包含所有依赖项。您需要Active Python来访问PyPM，但您应该能够轻松安装。

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pypm install scipi
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对于Fedora 20：

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pip install virtualenv virtualenvwrapper
mkvirtualenv scipy_project
sudo yum-buildep scipy
pip install scipy

我希望它有所帮助！