[MacPorts] #25510: Python Crash

MacPorts noreply at macports.org
Sun Jul 4 12:57:01 PDT 2010


#25510: Python Crash
--------------------------------+-------------------------------------------
 Reporter:  raramayo@…          |       Owner:  macports-tickets@…                   
     Type:  defect              |      Status:  new                                  
 Priority:  Normal              |   Milestone:                                       
Component:  ports               |     Version:  1.9.1                                
 Keywords:                      |        Port:                                       
--------------------------------+-------------------------------------------

Old description:

> If I type:
>
> ==========
> >python
>
> Python 2.6.5 (r265:79063, Jun 16 2010, 11:08:17)
> [GCC 4.0.1 (Apple Inc. build 5493)] on darwin
> Type "help", "copyright", "credits" or "license" for more information.
>
> >>>>help()
>
> Welcome to Python 2.6!  This is the online help utility.
>
> If this is your first time using Python, you should definitely check out
> the tutorial on the Internet at http://docs.python.org/tutorial/.
>
> Enter the name of any module, keyword, or topic to get help on writing
> Python programs and using Python modules.  To quit this help utility and
> return to the interpreter, just type "quit".
>
> To get a list of available modules, keywords, or topics, type "modules",
> "keywords", or "topics".  Each module also comes with a one-line summary
> of what it does; to list the modules whose summaries contain a given word
> such as "spam", type "modules spam".
>
> >>>>modules
>
> Please wait a moment while I gather a list of all available modules...
>
> /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6
> /site-packages/Bio/AlignAce/__init__.py:26: DeprecationWarning:
> Bio.AlignAce is deprecated. Please use Bio.Motif instead.
>   DeprecationWarning)
> /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6
> /site-packages/Bio/Enzyme/__init__.py:23: DeprecationWarning: Bio.Enzyme
> is deprecated, and will be removed in a future release of Biopython. Most
> of the functionality  is now provided by Bio.ExPASy.Enzyme.  If you want
> to  continue to use Bio.Enzyme, please get in contact  via the mailing
> lists to avoid its permanent removal from Biopython.
>   " Biopython.", DeprecationWarning)
> ...
> ...
> ...
> ...
> /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6
> /site-packages/Bio/Prosite/__init__.py:65: DeprecationWarning:
> Bio.Prosite is deprecated, and will be removed in a future release of
> Biopython. Most of the functionality  is now provided by
> Bio.ExPASy.Prosite.  If you want to  continue to use Bio.Prosite, please
> get in contact  via the mailing lists to avoid its permanent removal from
> Biopython.
>   " Biopython.", DeprecationWarning)
> Bus error
>
> >
>
> ==========
>
> ANd at this point python crashes

New description:

 If I type:

 ==========
 {{{
 >python

 Python 2.6.5 (r265:79063, Jun 16 2010, 11:08:17)
 [GCC 4.0.1 (Apple Inc. build 5493)] on darwin
 Type "help", "copyright", "credits" or "license" for more information.

 >>>>help()

 Welcome to Python 2.6!  This is the online help utility.

 If this is your first time using Python, you should definitely check out
 the tutorial on the Internet at http://docs.python.org/tutorial/.

 Enter the name of any module, keyword, or topic to get help on writing
 Python programs and using Python modules.  To quit this help utility and
 return to the interpreter, just type "quit".

 To get a list of available modules, keywords, or topics, type "modules",
 "keywords", or "topics".  Each module also comes with a one-line summary
 of what it does; to list the modules whose summaries contain a given word
 such as "spam", type "modules spam".

 >>>>modules

 Please wait a moment while I gather a list of all available modules...

 /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6
 /site-packages/Bio/AlignAce/__init__.py:26: DeprecationWarning:
 Bio.AlignAce is deprecated. Please use Bio.Motif instead.
   DeprecationWarning)
 /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6
 /site-packages/Bio/Enzyme/__init__.py:23: DeprecationWarning: Bio.Enzyme
 is deprecated, and will be removed in a future release of Biopython. Most
 of the functionality  is now provided by Bio.ExPASy.Enzyme.  If you want
 to  continue to use Bio.Enzyme, please get in contact  via the mailing
 lists to avoid its permanent removal from Biopython.
   " Biopython.", DeprecationWarning)
 ...
 ...
 ...
 ...
 /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6
 /site-packages/Bio/Prosite/__init__.py:65: DeprecationWarning: Bio.Prosite
 is deprecated, and will be removed in a future release of Biopython. Most
 of the functionality  is now provided by Bio.ExPASy.Prosite.  If you want
 to  continue to use Bio.Prosite, please get in contact  via the mailing
 lists to avoid its permanent removal from Biopython.
   " Biopython.", DeprecationWarning)
 Bus error

 >
 }}}
 ==========

 ANd at this point python crashes

--

Comment(by blb@…):

 What ports do you have installed (use {{{port installed}}} to see)?  Could
 be an issue with some module; also, are you on 10.4 or 10.5?

-- 
Ticket URL: <http://trac.macports.org/ticket/25510#comment:1>
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