[BioPython] installation help

[Sevinsky Joel]

Andrew,

So I am rather new to this but the following seems pretty strange.  I
looked at importing Martel and this is what I got:

[sevinsky@atreides sevinsky]$ python
Python 2.2.1 (#1, Sep  9 2002, 09:26:21)
[GCC 3.2 (Mandrake Linux 9.0 3.2-1mdk)] on linux-i386
Type "help", "copyright", "credits" or "license" for more information.
>>> import Martel
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File "/usr/local/reportlab/__init__.py", line 6, in ?
    __doc__="""The Reportlab PDF generation library."""
  File "Martel/Expression.py", line 33, in ?
  File "Martel/Parser.py", line 33, in ?
ImportError: No module named TextTools
>>> import Bio
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File "/usr/local/biopython-1.10/Bio/__init__.py", line 65, in ?
    _load_registries()
  File "/usr/local/biopython-1.10/Bio/__init__.py", line 57, in
_load_registries
    module = __import__("Bio.config.%s" % module, {}, {},
["Bio","config"])
  File "/usr/local/biopython-1.10/Bio/config/DBRegistry.py", line 35, in ?
    from Bio import StdHandler
  File "/usr/local/biopython-1.10/Bio/StdHandler.py", line 5, in ?
    from Bio import Std, Decode
  File "/usr/local/biopython-1.10/Bio/Std.py", line 4, in ?
    Group = Martel.Group
AttributeError: 'module' object has no attribute 'Group'
>>> import Martel
>>> import Bio
>>>

First they both fail, and then they both work.  import Martel comes up
with the same TextTools error, then Bio has a new error, and then they
both import fine.

Joel


On Mon, 13 Jan 2003, Andrew Dalke wrote:

> Joel Sevinsky:
> > Yes, the typo was the cause of the mxBASE not loading, but I still have the
> > Bio problem.  After I corrected the typo both root and sevinsky have the
> > same problem as I reported for root earlier.  Thanks.
>
>
>   File "/usr/local/biopython-1.10/Bio/config/DBRegistry.py", line 33, in ?
>     from Martel import Parser
>   File "/usr/local/reportlab/__init__.py", line 6, in ?
>     __doc__="""The Reportlab PDF generation library."""
>   File "Martel/Expression.py", line 33, in ?
>   File "Martel/Parser.py", line 33, in ?
> ImportError: No module named TextTools
> >>> from mx import TextTools
> >>>
>
> I was going to say you need to install mxTextTools as well as
> mxBASE.  However, I see that you have a very strange exception.
> How did a reportlab file get stuck in the traceback.
>
> Can you 'import Martel' by itself?
>
> 					Andrew
> 					dalke@dalkescientific.com
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