pyteomics.biolccc 1.5.0 documentation

Installation

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Installation

Installing pyteomics.biolccc from the Python Package Index (PyPi)

GNU/Linux

The preferred way to obtain pyteomics.biolccc is via pip Python package manager. The shell code for a freshly installed Ubuntu system:

sudo apt-get install python-setuptools python-dev build-essential
sudo easy_install pip
sudo pip install pyteomics.biolccc

Windows

The easiest way to install pyteomics.biolccc on Windows is by using a precompiled .exe package available for download from the pyteomics.biolccc page on PyPi: http://pypi.python.org/pypi/pyteomics.biolccc/

If a precompiled package for your version of Python is not available, you may compile it yourself. The ready-to-use Python distributions, like ActivePython Community Edition or Enthought Python Distribution, already contain all the tools required for package building. The latter is free for academic use. With these distributions, pyteomics.biolccc can be installed via the standard routine:

easy_install pip
pip install pyteomics.biolccc

If your distribution lacks building tools, you may try to install them yourself.

1) You will need to download and install MinGW compiler suite (available at http://sourceforge.net/projects/mingw/files/Automated%20MinGW%20Installer/mingw-get-inst/). Note that a C++ compiler is not installed by default and should be checked during the installation process.

  1. Download and install the setuptools package (http://pypi.python.org/pypi/setuptools).
  2. Execute the following commands in the command line:
echo [build] > %HOMEPATH%\pydistutils.cfg
echo compiler = mingw32 >> %HOMEPATH%\pydistutils.cfg
c:\Python27\Scripts\easy_install.exe pip
c:\Python27\Scripts\pip.exe install pyteomics.biolccc

Do not forget to change the path to the python distribution according to your own directory structure.

Building libBioLCCC/pyteomics.biolccc from sources

The source code is available online at http://hg.theorchromo.ru/biolccc. You can download the archived source code or pull the mercurial repository:

hg clone http://hg.theorchromo.ru/biolccc

GNU/Linux

In order to compile pyteomics.biolccc you need the following tools to be installed:

  • GNU C++ compiler
  • Python 2.7
  • (pyteomics.biolccc) python-dev package
  • (pyteomics.biolccc) SWIG interface wrapper
  • (documentation) Doxygen documentation system
  • (documentation) Sphinx documentation system, version >= 1.0.0
  • (documentation) DVIPNG converter
  • (documentation) matplotlib Python library
  • (optional) Mercurial version control system

All these tools can be installed from the main repository of your Linux distribution and/or via pip/easy_install packaging system of Python. Under Ubuntu or Debian these dependencies can be satisfied using the following command:

sudo apt-get install build-essential python-dev swig \
             doxygen python-sphinx python-matplotlib dvipng \
             python-setuptools

In order to compile and install the Python package:

  • Build the target ‘pyteomics.biolccc’ outside the source directory using the build script.:

    python build.py -b /path/to/build/directory pyteomics.biolccc
    
  • Run setup.py then:

    python setup.py install
    

    or

    python setup.py build
    

    In the latter case, the built library can be found in build/lib directory.

Windows

The main platform of libBioLCCC/pyteomics.biolccc development is Linux. However, we clearly understand importance of Windows and write platform-independent code and use only the cross-platform tools. All the C++ code present in the project can be compiled under Windows platform.

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