Therein lies the problem (or at least A problem)....
COOT_PYTHON_DIR shouldn't be set (by you).
Instead, issue
source /sw/bin/init.sh
(or source /sw/bin/init.csh )
and then issue simply the command
coot
and see if it works?
On Sep 9, 2009, at 8:06 AM, Engin Ozkan wrote:
> This is what I get.
>
> [engin-ozkans-macbook-pro:~] eozkan% COOT_PYTHON_DIR was defined to
> be /sw/share/coot/python
> but no PyGtk and hence no coot_gui.
> Entry contents: help()
> Running string: help()
>
> Welcome to Python 2.6! This is the online help utility.
>
> Engin
>
> On 9/9/09 7:25 AM, William G. Scott wrote:
>> I'm going to make a wild guess and suggest it is a python version
>> mismatch.
>>
>> If you open the python scripting window and type in
>>
>> help()
>>
>> what do you see in the console window?
>>
>> I get this:
>>
>>
>> BL INFO:: command input is: help()
>>
>> Welcome to Python 2.6! This is the online help utility.
>>
>>
>>
>>
>> On Sep 8, 2009, at 10:47 AM, Engin Ozkan wrote:
>>
>>> Hi everybody,
>>>
>>> Using the revision 2283 on 10.5, I am seeing this whenever I am
>>> closing the application:
>>>
>>> /sw/bin/coot: line 5: 19785 Segmentation fault /sw/bin/coot-
>>> real "$@"
>>>
>>> Yep, coot shuts down with a segmentation fault. I haven't tested
>>> most functionality and it has not affected my use of coot yet, but
>>> I assumed it might help to report it. This seems to be the same
>>> bug observed by Christian on a 10.4 machine, because I get the
>>> similar Preferences crash. Empty 0-coot.state.scm is also probably
>>> due to the crash during exiting.
>>>
>>> Engin
>>>
>>> On 9/8/09 7:14 AM, William G. Scott wrote:
>>>> Hi Christian:
>>>>
>>>> I just committed coot 0.6-pre-1-revision-2283 to fink cvs. It
>>>> fixes a bug on 64-bit where the menu would freeze when
>>>> superposition is invoked. I suppose there is a 0.0000001 chance
>>>> that it fixes the other problem too. I have no way to test on
>>>> 10.5 intel (I still have 10.6) and haven't had direct access to
>>>> 10.4 for a long time. This could be a problem with coot or with
>>>> one of many of its ca. 230 dependencies.
>>>>
>>>> From what I have read, you can upgrade directly to SL (US $30, UK
>>>> £25), despite the propaganda on the box. I have ccp4 and coot and
>>>> the other crystallographic fink things running all in 64-bit now.
>>>> I'm hoping these will now pass the 70S ribosome test.
>>>>
>>>> I hope this works in the meantime.
>>>>
>>>> Bill
>>>>
>>>>
>>>>
>>>> On Sep 8, 2009, at 5:08 AM, Christian Benda wrote:
>>>>
>>>>> Dear all,
>>>>>
>>>>> we have updated coot to 0.6-pre-1 revision 2264 using fink on
>>>>> our Macs running 10.4.11
>>>>> to be able to use zalman stereo.
>>>>>
>>>>> Unfortunately it seems like this coot or the combination is not
>>>>> working correctly. So far,
>>>>> there are two main issues:
>>>>>
>>>>> 1. coot freezes and closes down after selecting e.g. the
>>>>> preferences menue
>>>>>
>>>>> 2. coot writes an empty 0-coot.state.scm file no matter what's
>>>>> loaded into coot.
>>>>>
>>>>> Any hints to what we can do? We really need the stereo and
>>>>> therefore revision 2225 or
>>>>> higher
>>>>>
>>>>> Many thanks in advance
>>>>>
>>>>> Christian
>>>>>
>>>>> Dr. Christian Benda
>>>>> Max Planck Institute of Biochemistry
>>>>> Structural Cell Biology
>>>>>
>>>>> Am Klopferspitz 18
>>>>> D-82152 Martinsried
>>>>> Germany
>>>>>
>>>>> Phone: +49 (0)89 85 78 23 37
>>>>> Fax: +49 (0)89 85 78 22 19
>>>>> Email: [log in to unmask]
>>>
>>>
>>> --
>>> Engin Özkan
>>> Post-doctoral Scholar
>>> Laboratory of K. Christopher Garcia
>>> Howard Hughes Medical Institute
>>> Dept of Molecular and Cellular Physiology
>>> 279 Campus Drive, Beckman Center B173
>>> Stanford School of Medicine
>>> Stanford, CA 94305
>>> ph: (650)-498-7111
>>
>
>
> --
> Engin Özkan
> Post-doctoral Scholar
> Laboratory of K. Christopher Garcia
> Howard Hughes Medical Institute
> Dept of Molecular and Cellular Physiology
> 279 Campus Drive, Beckman Center B173
> Stanford School of Medicine
> Stanford, CA 94305
> ph: (650)-498-7111
>
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