Package Bio :: Package Blast :: Module Applications :: Class BlastpgpCommandline
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Class BlastpgpCommandline

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                     object --+            
Application.AbstractCommandline --+        
                  _BlastCommandLine --+    
              _BlastAllOrPgpCommandLine --+

Create a commandline for the blastpgp program from NCBI (OBSOLETE).

With the release of BLAST+ (BLAST rewritten in C++ instead of C), the NCBI
are replacing blastpgp with a renamed tool psiblast. This module provides
NcbipsiblastCommandline as a wrapper for the new tool psiblast.

Like blastpgp (and blastall), this wrapper is now obsolete, and will be
deprecated and removed in a future release of Biopython.

>>> from Bio.Blast.Applications import BlastpgpCommandline
>>> cline = BlastpgpCommandline(help=True)
>>> cline
BlastpgpCommandline(cmd='blastpgp', help=True)
>>> print(cline)
blastpgp --help

You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.

Instance Methods [hide private]
__init__(self, cmd='blastpgp', **kwargs)
Create a new instance of a command line wrapper object.
source code

Inherited from _BlastCommandLine (private): _validate

Inherited from Application.AbstractCommandline: __call__, __repr__, __setattr__, __str__, set_parameter

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __sizeof__, __subclasshook__

Properties [hide private]

Inherited from object: __class__

Method Details [hide private]

__init__(self, cmd='blastpgp', **kwargs)

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Create a new instance of a command line wrapper object.

Overrides: object.__init__
(inherited documentation)