ecell-users Mailing List for E-Cell System

Ok, thanks.

One question,

Why are you guys still using the old libtool and didn't switch to the new one?

Is it so hard to recompile ecell everytime.... :)

Do you think you will get rid of it in the future or not?
If you really need it, can you please write somewhere how to compile it?

./configure
make

doesn't work.

Cheers,
Michele.


On Thu, Apr 30, 2009 at 3:59 AM, Moriyoshi Koizumi <mor...@gm...> wrote:
> I completely removed the part of Session class in which the current
> working directory is changed to the place the given script is located.
>  You'll find it not bothering with 3.1.107 or later versions.
>
> Thanks for the report and the patch.
>
> -- moriyoshi
>
>
>
> 2009/4/20 Michele Mattioni <mat...@eb...>:
>> Hello list,
>>
>> I modified the SessionManager class so it doesn't change always the
>> directory, but it has a true/false switch to do it.
>>
>> Patch attached (against the last revision of the svn)
>> Default is False. (Not as normal)
>>
>> Cheers,
>> Michele
>>
>> ------------------------------------------------------------------------------
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>>
>>
>

I completely removed the part of Session class in which the current
working directory is changed to the place the given script is located.
 You'll find it not bothering with 3.1.107 or later versions.

Thanks for the report and the patch.

-- moriyoshi



2009/4/20 Michele Mattioni <mat...@eb...>:
> Hello list,
>
> I modified the SessionManager class so it doesn't change always the
> directory, but it has a true/false switch to do it.
>
> Patch attached (against the last revision of the svn)
> Default is False. (Not as normal)
>
> Cheers,
> Michele
>
> ------------------------------------------------------------------------------
> Stay on top of everything new and different, both inside and
> around Java (TM) technology - register by April 22, and save
> $200 on the JavaOne (SM) conference, June 2-5, 2009, San Francisco.
> 300 plus technical and hands-on sessions. Register today.
> Use priority code J9JMT32. http://p.sf.net/sfu/p
> _______________________________________________
> Ecell-users mailing list
> Ece...@li...
> https://lists.sourceforge.net/lists/listinfo/ecell-users
>
>

Hello list,

I modified the SessionManager class so it doesn't change always the
directory, but it has a true/false switch to do it.

Patch attached (against the last revision of the svn)
Default is False. (Not as normal)

Cheers,
Michele

This eventually turned out to be a problem in ecel3-session-manager
script, rather than the session manager modules. Try ecell-3.1.107rc4
to see if it works.

-- moriyoshi

2009/3/31 giuseppe aprea <apr...@gm...>:
> Hallo,
> I am using the ecell release 3.1.107rc3 and I have some problem in
> running ecell3-session-manager.
>
> I send you just an example code.
>
> When I try to run the attached scripts (ecell3-session-manager esm.py)
> I get the following error:
>
> Traceback (most recent call last):
>  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
> line 278, in <module>
>    sys.exit( main( sys.argv ) )
>  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
> line 271, in main
>    aConsole.loadScript( anEsmFile, aParameters  )
>  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
> line 89, in loadScript
>    execfile( esmfile, aContext )
>  File "esm.py", line 14, in <module>
>    class RCGA:
> TypeError: Error when calling the metaclass bases
>    __metaclass__() takes exactly 3 arguments (4 given)
>
>
> unfortunately I am not a very skilled python programmer but I think
> that the problem is triggered when I try to run sessions
> from my own class in the script esm.py (if I run everything from the
> main function it runs fine). Is there a workaround to
> keep the program structure and avoid the error?
>
> Thanks,
>
> giuseppe
>
> ------------------------------------------------------------------------------
>
> _______________________________________________
> Ecell-users mailing list
> Ece...@li...
> https://lists.sourceforge.net/lists/listinfo/ecell-users
>
>

I don't know if it can help but I noticed that if I change

class myClass: -----> class myClass(object):

the code doesn't show:

File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
line 278, in <module>

    sys.exit( main( sys.argv ) )

  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
line 271, in main

    aConsole.loadScript( anEsmFile, aParameters  )

  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
line 89, in loadScript

    execfile( esmfile, aContext )

  File "esm.py", line 14, in <module>

    class myClass:

TypeError: Error when calling the metaclass bases

    __metaclass__() takes exactly 3 arguments (4 given)


It seems all method not
involving arguments (other than self) work fine, except
if I write them as "self.method()" (instead "method()"
alone works)
Unfortunately that is not enough. The error I when I use
sessionmanager methods with arguments is:

  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
line 278, in <module>

    sys.exit( main( sys.argv ) )

  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
line 271, in main

    aConsole.loadScript( anEsmFile, aParameters  )

  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
line 89, in loadScript

    execfile( esmfile, aContext )

  File "esm.py", line 74, in <module>

    main()

  File "esm.py", line 70, in main

    ga.go()

  File "esm.py", line 64, in go

    for ajob in
getSystemProxy().jobs:getSystemProxy().getSessionProxy(ajob).clear()

RuntimeError: dictionary changed size during iteration


Has anybody any idea about a workaround to use all methods?

thanks

giuseppe







2009/3/31 yuri matsuzaki <yu...@e-...>:
> Works fine with 3.1.106 but failed with 3.1.107rc3.
> The directory structure of session manager script
>  looks a lot different between 3.1.106 and 3.1.107rc1.
> Might this have something to do  with the problem?
> I have not traced the problem further. Any ideas anyone?
>
> Yuri
>
> 2009/3/31 giuseppe aprea <apr...@gm...>:
>> Hallo,
>> I am using the ecell release 3.1.107rc3 and I have some problem in
>> running ecell3-session-manager.
>>
>> I send you just an example code.
>>
>> When I try to run the attached scripts (ecell3-session-manager esm.py)
>> I get the following error:
>>
>> Traceback (most recent call last):
>>  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
>> line 278, in <module>
>>    sys.exit( main( sys.argv ) )
>>  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
>> line 271, in main
>>    aConsole.loadScript( anEsmFile, aParameters  )
>>  File "/afs/.enea.it/project/cresco/LA2/cresco_sp21_bionet/soft/cresco1x/bin/ecell3-session-manager",
>> line 89, in loadScript
>>    execfile( esmfile, aContext )
>>  File "esm.py", line 14, in <module>
>>    class RCGA:
>> TypeError: Error when calling the metaclass bases
>>    __metaclass__() takes exactly 3 arguments (4 given)
>>
>>
>> unfortunately I am not a very skilled python programmer but I think
>> that the problem is triggered when I try to run sessions
>> from my own class in the script esm.py (if I run everything from the
>> main function it runs fine). Is there a workaround to
>> keep the program structure and avoid the error?
>>
>> Thanks,
>>
>> giuseppe
>