Package Bio :: Package Application
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Package Bio.Application

General mechanisms to access applications in biopython.
Classes
AbstractCommandline Generic interface for running applications from biopython.
ApplicationResult Make results of a program available through a standard interface.
_AbstractParameter A class to hold information about a parameter for a commandline.
_Argument Represent an argument on a commandline.
_Option Represent an option that can be set for a program.

Function Summary
  generic_run(commandline)
Run an application with the given commandline.
  _file_exists(self, filename)
Make sure that a passed filename exists.

Function Details

generic_run(commandline)

Run an application with the given commandline.

This expects a pre-built commandline that derives from AbstractCommandline, and returns a ApplicationResult object to get results from a program, along with handles of the standard output and standard error.

_file_exists(self, filename)

Make sure that a passed filename exists.

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