Re: [Ecell-users] ecell-3.2.3pre2 AttributeError

[luli <lu...@eb...>]

Dear Yasuhiro,

Thank you for your reply.
However, while running "make" for ecell3.1, I got the following error

--
...(I only displayed the part when error start)
make[5]: Entering directory 
`/home/luli/bin/ecell-ecell3-ed9c78e-ecell3.1source/ecell/libecs'
/bin/bash ../libtool --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I. 
-I.. -I..  -I../.. -I/home/luli/bin/ecell-ecell3-ed9c78e-ecell3.1source 
-I../../libltdl  -I/usr/include -g -O2 -g -O2 -MT libecs.lo -MD -MP -MF 
.deps/libecs.Tpo -c -o libecs.lo libecs.cpp
mv -f .deps/libecs.Tpo .deps/libecs.Plo
mv: cannot stat `.deps/libecs.Tpo': No such file or directory
...
-- 

Cheers
Lu

On 20/03/12 06:21, Yasuhiro Naito wrote:
> Dear Lu,
>
> Another way is downgrading E-cell to ver 3.1.x.
>
> You can download the latest version of E-Cell 3.1.x from GitHub [ecell/ecell3 branch:ecell-3.1].
> https://github.com/ecell/ecell3/tree/ecell-3.1 (ZIP download)
>
> You should run ./autogen.sh before ./configure .
> I installed it just now on the latest Ubuntu, and successfully run the model including PythonProcess.
>
> We are sorry for the inconvenience.
>
> Regards,
> Yasuhiro
>
>
> On 2012/03/20, at 11:21, Yasuhiro Naito wrote:
>
>> Dear Lu,
>>
>> I'm not a developer but a modeler with E-Cell project.
>> As you pointed out, both of PythonFluxProcess and PythonProcess in ver 3.2.x don't work correctly at present. E-Cell3 developers work to fix the problems.
>> Temporarily, I use custom Processes wrote in C++ instead of using Python(Flux)Process.
>> Some built-in Processes such as MichaelisUniUniFluxProces (/ecell/dm/MichaelisUniUniFluxProcess.cpp) are good samples to develop custom Process.
>>
>> Regards
>> Yasuhiro
>>
>>
>> On 2012/03/20, at 2:56, luli wrote:
>>
>>> Dear ECell3 developers,
>>>
>>> I just installed ecell-3.2.3pre2, however, encountering the following
>>> problems.
>>>
>>> 1) PythonFluxProcess does not allow any "attribute" appear in the
>>> expression.
>>> For instance:
>>>
>>>     Process PythonFluxProcess( test )
>>>     {
>>>         k    0.5;
>>>         StepperID    DE1;
>>>         Expression    "k*S1.MolarConc*self.getSuperSystem().SizeN_A";
>>>         VariableReferenceList     [S1 Variable:/Spine:A] [P1
>>> Variable:/Spine:B];
>>>     }
>>>
>>> When running ecell3-session..... ecell gives AttributeError, complaining
>>> that there is no MolarConc attribute.
>>>
>>> 2) PythonProcess does not allo any "attribute" appear in the expression
>>> either.
>>>
>>> Could you give an explanation please.
>>>
>>> BTW, the Ecell user manual is very incomplete and out of date (the last
>>> modification is June 30th 2006).
>>> Is it possible to update this manual, since ECell becomes more and more
>>> popular now?
>>>
>>> Cheers
>>> Lu
>>>
>>>
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