Re: parcellfun test issue on Mac OS 10.8, was Re: problems installing openmpi_ext

[c.]

On 11 Sep 2013, at 15:43, Ben Abbott <address@hidden> wrote:

> On Sep 11, 2013, at 9:17 AM, Francis Poulin wrote:
> 
>>> Alex,
>>> 
>>> Sorry for the late response.  I'm able to run the parcellfun_example using 
>>> 3.6.4 from Macports.  My variants are +atlas+docs+fltk+gcc47+x11.
>>> 
>>>     
>>> https://trac.macports.org/browser/trunk/dports/math/octave-devel/Portfile
>>> 
>>> Perhaps duplicating the configure options used by macports will clear 
>>> things up for you?
>>> 
>>> Ben
>> 
>> Hello,
>> 
>> With my current macports installation of octave-devel, octave-general, 
>> octave-bim, after I load the packages and try running parcellfun_example I 
>> get that it cannot find one of the bim functions.
>> 
>> octave:5> pkg list
>> 
>> Package Name  | Version | Installation directory
>> --------------+---------+-----------------------
>>        bim *|   0.1.1 | /opt/local/share/octave/packages/bim-0.1.1
>>        fpl *|   0.1.6 | /opt/local/share/octave/packages/fpl-0.1.6
>>        general *|   1.3.2 | /opt/local/share/octave/packages/general-1.3.2
>>        msh *|   0.1.1 | /opt/local/share/octave/packages/msh-0.1.1
>>       splines *|   1.0.7 | /opt/local/share/octave/packages/splines-1.0.7
>> 
>> octave:6> parcellfun_example
>> error: 'bim1a_laplacian' undefined near line 40 column 7
>> error: called from:
>> error:   /Users/fpoulin/parcellfun_example.m at line 40, column 5
>> 
>> 
>> I can try the other options that Ben suggested but since those don't involve 
>> bim I wouldn't think they would make a world of difference but could give it 
>> a try.
>> 
>> Cheers, Francis
> 
> opps.  I responded to the wrong thread.  I'm seeing this same error.  The 
> parcellfun_example script must be modified to use the version of the bim 
> package provided by macports.  Mostly that means changing the names.

not only the names, unfortunately ... some functions have also exchanged the 
order of inputs parameters. 
that is a very old version of bim about 5 y.o. :(

> Unfortunately, there are other problems.
> 
> parcellfun_example
> error: BIM1Alaplacian: quotient: nonconformant arguments (op1 is 1x0, op2 is 
> 99x1)
> error: called from:
> error:   /opt/local/share/octave/packages/bim-0.1.1/BIM1Alaplacian.m at line 
> 60, column 7
> error:   /Users/bpabbott/octave/parcellfun_example.m at line 41, column 5
> 
> I assume macports does not  provide the same version of bim as is expected by 
> parcellfun_example?
> 
> The packages I have installed are ...
> 
> ver
> ----------------------------------------------------------------------
> GNU Octave Version 3.6.4
> GNU Octave License: GNU General Public License
> Operating System: Darwin 11.4.2 Darwin Kernel Version 11.4.2: Thu Aug 23 
> 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 x86_64
> ----------------------------------------------------------------------
> Package Name   | Version | Installation directory
> ---------------+---------+-----------------------
>          bim *|   0.1.1 | /opt/local/share/octave/packages/bim-0.1.1
>      control *|   2.4.1 | /opt/local/share/octave/packages/control-2.4.1
>          fpl *|   0.1.6 | /opt/local/share/octave/packages/fpl-0.1.6
>      general *|   1.3.2 | /opt/local/share/octave/packages/general-1.3.2
> miscellaneous  |   1.2.0 | 
> /opt/local/share/octave/packages/miscellaneous-1.2.0
>          msh *|   0.1.1 | /opt/local/share/octave/packages/msh-0.1.1
>        optim  |   1.2.2 | /opt/local/share/octave/packages/optim-1.2.2
>       signal  |   1.2.0 | /opt/local/share/octave/packages/signal-1.2.0
>      specfun  |   1.1.0 | /opt/local/share/octave/packages/specfun-1.1.0
>      splines *|   1.0.7 | /opt/local/share/octave/packages/splines-1.0.7
>       struct  |  1.0.10 | /opt/local/share/octave/packages/struct-1.0.10
> 
> Ben
>