Re: [openbabel-scripting] Problems makeing the SWIG interface

[Noel O'B. <no...@ca...>]

On Fri, 2005-12-16 at 09:28 -0800, S Joshua Swamidass wrote:
> As a quick fix, just move them manually.
It does work if I move them manually, that's how I know that this is the
problem. It's possible to add a line to the Makefile, or Makefile.in or
whatever, to add the lines to the start of openbabel.py (not very
elegant though :-).

> Next try and move them to the front of the openbabel.i file.
I tried this, but the Perl wrapper dies as follows:

~/Tools/OpenBabel/openbabel/scripts$ make
/usr/bin/swig -perl5 -c++ -o perl/openbabel_perl.cpp \
        -I../src openbabel.i
openbabel.i:5: Error: Syntax error in input.
../src/oberror.h:162: Warning(401): Nothing known about base class
'std::stringbuf'. Ignored.
../src/obconversion.h:175: Warning(401): Nothing known about base class
'std::binary_function<char const *,char const *,bool >'. Ignored.
../src/obconversion.h:175: Warning(401): Maybe you forgot to instantiate
'std::binary_function<char const *,char const *,bool >' using %template.
*** No module name specified using %module or -module.
make: *** [perl/openbabel_perl.cpp] Error 1

If I remove the call to the Perl wrapper, and just run the Python
wrapper, the extra Python code still comes after the initial section of
openbabel.py. So, no change.

I think that I should get the latest SWIG, as Geoff recommends - I have
1.3.24, but he used 1.3.27, if that makes a difference.

>  That
> should put it at the first part of the openbabel.py file.  If none of
> that works, send a line to the listserve and i"ll poke around some
> swig faqs to find the answer.

Good luck,
Noel

> 
> On 16/12/05, Noel O'Boyle <no...@ca...> wrote:
> > I cannot get this patch to work, as the inserted lines always come after
> > the initial "import _openbabel" in openbabel.py. Any thoughts?
> >
> > Regards,
> >  Noel
> >
> > On Fri, 2005-12-09 at 11:52 -0800, S Joshua Swamidass wrote:
> > > It works!
> > >
> > > Add this code to the openbabel.i file to add the patch to the .py library file:
> > >
> > > %pythoncode %{
> > > import sys
> > > import dl
> > > sys.setdlopenflags(sys.getdlopenflags() | dl.RTLD_GLOBAL)
> > > %}
> > >
> > > You may want to add a python snippet to execute this code only if the
> > > architecture is Linux.
> > >
> > > Thanks for the help :)
> > >
> > > Josh
> > >
> > > On 09/12/05, Geoffrey Hutchison <ge...@ge...> wrote:
> > > >
> > > > On Dec 9, 2005, at 12:17 PM, Noel O'Boyle wrote:
> > > >
> > > > > (1) Is Python scripting for Openbabel available in Windows somehow?
> > > >
> > > > I don't have a Windows box to test. I'm also not sure how it would
> > > > link against the Windows OpenBabel DLLs.
> > > >
> > > > > (2) Is it necessary to compile?
> > > >
> > > > Well, I believe you can get DLLs either from the Open Babel windows
> > > > download or from Chris Morley. Certainly you *can* compile on Windows.
> > > >
> > > > > (3) What's the current status of Cygwin/OpenBabel compilation?
> > > >
> > > > So-so. I know the problem, but haven't had the time to fix it or test
> > > > it.
> > > >
> > > > Cheers,
> > > > -Geoff
> > > >
> > > >
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