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#rev 2018-08-28 davidsch
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We provide as many modules as possible that come with the current Debian GNU/Linux stable release. Nevertheless, that might not be enough for your needs since you may want to use the newest version of some module or one that is not part of Debian. Furthermore you might want to use a different version of Python. We provide some modules that come with the current Debian GNU/Linux stable release, but usually this is because they are dependencies of an installed software. For python we strongly recommend to build own python environments with the desired python versions and modules.
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The recommended way to install additional python modules is through {{{pip}}}. Unfortunately, {{{pip}}} does not allow users to install modules in the user context. That means that you will first have to install your own version of python in your home. From that moment on, you can install modules through {{{pip}}}. Our recommended way to install such environments is trough Conda, alternatively via building an environment via `pyenv` is as well possible. Additional module can then either be installed by conda itself or trough `pip`.
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== Installing your own python environment with Conda ==

For a detailed overview for conda please follow to the [[Programming/Languages/Conda|Conda documentation]].
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{{{Pyenv}}} is a collection of tools that allow users to manage different versions of python. In the simplest case you will need it to simply get an installation of python in your user space. Using that custom python installation, you will then be able to install additional modules in a very comfortable way, since you can install them in the "system path" (which is then somewhere within your home). `Pyenv` is a collection of tools that allow users to manage different versions of python. In the simplest case you will need it to simply get an installation of python in your user space. Using that custom python installation, you will then be able to install additional modules in a very comfortable way, since you can install them in the "system path" (which is then somewhere within your home).
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Here is a small howto for installing python 2.7.7 in your home: Here is a small howto for installing python 2.7.15 in your home:
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curl -L https://raw.githubusercontent.com/yyuu/pyenv-installer/master/bin/pyenv-installer | bash}}}

 * Add the following three lines to your ~/.bashrc:		 curl https://raw.githubusercontent.com/yyuu/pyenv-installer/master/bin/pyenv-installer -o pyenv-installer}}}
 Check what the script is doing and then execute it:
 {{{
bash ./pyenv-installer
}}}
 You can remove the installer file afterwards.
 * Add the following three lines to your ~/.bash_profile:
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 * Install some python version, e.g. for python 2.7.7:  * Install some python version, e.g. for python 2.7.15:
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pyenv install 2.7.7 env PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install 2.7.15
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 Note, that settting of `PYTHON_CONFIGURE_OPTS="--enable-shared"` is needed if you need to link against the libpython shared library.
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pyenv global 2.7.7}}} pyenv global 2.7.15}}}
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 || Website of pyenv || https://github.com/yyuu/pyenv/ ||
 || Website of pyenv installer || https://github.com/yyuu/pyenv-installer ||		  || Website of pyenv || https://github.com/pyenv/pyenv ||
 || Website of pyenv installer || https://github.com/pyenv/pyenv-installer ||
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Once you installed your custom python with the explanations given above, you are ready to install additional or newer modules the easy way. As an example, you can just run Once you installed your custom python with the explanations given above, you are ready to install additional or newer modules the easy way. The usage of `pip` is very easy. The following command installs the module `numpy`.
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pip install numpy}}}
to install {{{numpy}}} within your custom python installation.		 pip install numpy
}}}
while the next command would upgrade an existing installation of {{{numpy}}}
{{{
pip install --upgrade numpy
}}}
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For advanced usage of {{{pip}}}, please consult the manuals: http://pip.readthedocs.org/en/latest/ For advanced usage of `pip`, please consult the manuals: https://pip.pypa.io/en/latest/
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== Installation of custom (non easy_install-able) Python modules in the home directory of a user == == Installation of Python modules that are not available in the archives of pip ==
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We are sometimes asked for newer version of Python modules. We do no longer build Python modules in SEPP as the requests for modules and their versions is too widespread to keep these modules maintainable.

On this page we will list some bash-snippets that install some often requested modules in a users home.

== numpy ==

{{{#!highlight bash
#!/bin/bash

VERSION_NUMPY=1.7.1
builddir="/scratch/${USER}/build/numpy"

mkdir -p ${builddir}

cd ${builddir}
wget --output-document=numpy-${VERSION_NUMPY}.tar.gz \
    http://sourceforge.net/projects/numpy/files/NumPy/${VERSION_NUMPY}/numpy-${VERSION_NUMPY}.tar.gz/download
tar -xvvzkf numpy-${VERSION_NUMPY}.tar.gz
cd numpy-${VERSION_NUMPY}
python setup.py build --fcompiler=gnu95
python setup.py install --user
}}}

== scipy ==

|| '''Depends on''' ||
|| numpy ||

{{{#!highlight bash
#!/bin/bash

VERSION_SCIPY=0.13.0b1
builddir="/scratch/${USER}/build/scipy"

mkdir -p ${builddir}

cd ${builddir}
wget --output-document=scipy-${VERSION_SCIPY}.tar.gz \
    http://downloads.sourceforge.net/project/scipy/scipy/${VERSION_SCIPY}/scipy-${VERSION_SCIPY}.tar.gz
tar -xvvzkf scipy-${VERSION_SCIPY}.tar.gz
cd scipy-${VERSION_SCIPY}
python setup.py build
python setup.py install --user
}}}

== matplotlib ==

|| '''Depends on''' ||
|| numpy ||

{{{#!highlight bash
#!/bin/bash

VERSION_MATPLOTLIB=1.3.0
builddir="/scratch/${USER}/build/matplotlib"

mkdir -p ${builddir}

cd ${builddir}
wget --output-document=matplotlib-${VERSION_MATPLOTLIB}.tar.gz \
    http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-${VERSION_MATPLOTLIB}/matplotlib-${VERSION_MATPLOTLIB}.tar.gz/download
tar -xvvzkf matplotlib-${VERSION_MATPLOTLIB}.tar.gz
cd matplotlib-${VERSION_MATPLOTLIB}
python setup.py build
python setup.py install --user
}}}

== nose ==

|| '''Depends on''' ||
|| numpy ||
|| scipy ||

{{{#!highlight bash
#!/bin/bash

VERSION_NOSE=1.0.0
builddir="/scratch/${USER}/build/nose"

mkdir -p ${builddir}

cd ${builddir}
wget http://somethingaboutorange.com/mrl/projects/nose/nose-${VERSION_NOSE}.tar.gz
tar -xvvzkf nose-${VERSION_NOSE}.tar.gz
cd nose-${VERSION_NOSE}
python setup.py build
python setup.py install --user
}}}		 Here we provide some shell script snippets for installing frequently asked modules which cannot be installed through {{{pip}}}. These scripts just provide an example installation. You might have to adapt some paths in order to make the module work correctly with the version of python you are using (e.g. if you run your custom python provided through `pyenv`).

Python

We provide some modules that come with the current Debian GNU/Linux stable release, but usually this is because they are dependencies of an installed software. For python we strongly recommend to build own python environments with the desired python versions and modules.

Our recommended way to install such environments is trough Conda, alternatively via building an environment via pyenv is as well possible. Additional module can then either be installed by conda itself or trough pip.

Installing your own python environment with Conda

For a detailed overview for conda please follow to the Conda documentation.

Installing your own python versions with pyenv

Pyenv is a collection of tools that allow users to manage different versions of python. In the simplest case you will need it to simply get an installation of python in your user space. Using that custom python installation, you will then be able to install additional modules in a very comfortable way, since you can install them in the "system path" (which is then somewhere within your home).

Here is a small howto for installing python 2.7.15 in your home:

  • Install pyenv: 
    curl https://raw.githubusercontent.com/yyuu/pyenv-installer/master/bin/pyenv-installer -o pyenv-installer
    Check what the script is doing and then execute it: 
    bash ./pyenv-installer
    You can remove the installer file afterwards.
  • Add the following three lines to your ~/.bash_profile: 
    export PATH="$HOME/.pyenv/bin:$PATH"
eval "$(pyenv init -)" 
eval "$(pyenv virtualenv-init -)"
  • Restart your shell so the path changes take effect: 
    exec $SHELL
  • Install some python version, e.g. for python 2.7.15: 
    env PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install 2.7.15
pyenv rehash

    Note, that settting of PYTHON_CONFIGURE_OPTS="--enable-shared" is needed if you need to link against the libpython shared library.

  • Make sure that this new python version will be used when you run python. You only need to run this command once: 
    pyenv global 2.7.15

  • In order to update pyenv run: 

    pyenv update

Documentation of pyenv

Installation of additional or newer modules with pip

Once you installed your custom python with the explanations given above, you are ready to install additional or newer modules the easy way. The usage of pip is very easy. The following command installs the module numpy. 

pip install numpy

while the next command would upgrade an existing installation of numpy 

pip install --upgrade numpy

For advanced usage of pip, please consult the manuals: https://pip.pypa.io/en/latest/

Installation of Python modules that are not available in the archives of pip

Here we provide some shell script snippets for installing frequently asked modules which cannot be installed through pip. These scripts just provide an example installation. You might have to adapt some paths in order to make the module work correctly with the version of python you are using (e.g. if you run your custom python provided through pyenv).

nlopt

   1 #!/bin/bash
   2 
   3 # Installation script for nlopt library
   4 
   5 VERSION=2.3
   6 INSTALLDIR=$HOME/.local
   7 BUILDDIR=/scratch/$USER/nlopt
   8 
   9 mkdir -p $BUILDDIR
  10 cd $BUILDDIR
  11 
  12 wget "http://ab-initio.mit.edu/nlopt/nlopt-${VERSION}.tar.gz"
  13 tar -xvvzkf nlopt-${VERSION}.tar.gz
  14 cd nlopt-${VERSION}
  15 
  16 ./configure \
  17         --enable-shared \
  18         --prefix=$INSTALLDIR \
  19         OCT_INSTALL_DIR=$INSTALLDIR/octave/oct \
  20         M_INSTALL_DIR=$INSTALLDIR/octave/m/ \
  21         MEX_INSTALL_DIR=$INSTALLDIR/mex \
  22         GUILE_INSTALL_DIR=$INSTALLDIR/guile
  23 
  24 make
  25 make install

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Programming/Languages/Python (last edited 2023-11-06 08:33:58 by stroth)