Re: [SOSlib-discuss] SBML Solver 1.6.0 under Cygwin (fwd)

[Rainer M. <ra...@tb...>]

we forgot to include the SOSlib list in the follow-up email, so just for 
the sake of archive completeness: libSBML examples produced the same 
errors and thus the problem appeared to be libSBML internal.

R

John Legato wrote:
> Hi Rainer,
> 
> Thanks for the reply, I did a make install and pointed to the installed 
> directory, not sure where the line below came from.
> 
> Thanks
> 
> John
> 
> On Wed, 16 May 2007, Rainer Machne wrote:
> 
>> Hi John,
>>
>> I have never tried it on cygwin and never seen these errors but I'll 
>> try one guess:
>>
>>>
>> //biocoreserver1/jlegato/cygwin/libsbml-2.3.4/src/sbml/SBMLReader.cpp:113: 
>>
>>
>> might indicate that you are linking directly to the libsbml source 
>> directory? I somehow remember (but are not sure) that libsbml on 
>> building uses internally a different directory structure - and 
>> different include paths - then when installed. Did you do a `make 
>> install' to above libsbml directory or just `make' in libsbml's own 
>> directory? I think we had the problem once, that SOSlib needs to be 
>> linked to the libsbml install directory and not to it's main source 
>> directory. ... just guessing.
>>
>> Rainer
>>
>> On Tue, 15 May 2007, John Legato wrote:
>>
>>>
>>>
>>>
>>> We are attempting to build SBMLSolver 1.6.0 under Cygwin 1.5 and are 
>>> encountering errors during configure's detection of SBML. We've built 
>>> libsbml 2.3.4 and Xerces 2.7.0 from source  We are using the 
>>> following configure command:
>>> ./configure --with-libsbml=/cygdrive/g/public//cygwin/libsbml-2_3_4/ 
>>> --with-sundials=/cygdrive/g/public/cygwin/sundials-2_1_1/
>>>
>>> We are getting errors along the lines of:
>>>
>>> cygdrive/g/public//cygwin/libsbml-2_3_4//include/sbml 
>>> -L/cygdrive/g/public/cygwin/libxerces2_7_0/
>>> lib -Wl,-rpath,/cygdrive/g/public//cygwin/libsbml-2_3_4//lib 
>>> -L/cygdrive/g/public//cygwin/libsbml-
>>> 2_3_4//lib conftest.c  -lxerces-c -lsbml >&5
>>> /cygdrive/g/public//cygwin/libsbml-2_3_4//lib/libsbml.a(SBMLReader.o): 
>>> In function `_ZNSsC1IPcEET_
>>> S1_RKSaIcE':
>>> /usr/lib/gcc/i686-pc-cygwin/3.4.4/include/c++/bits/basic_string.tcc:(.text+0x11): 
>>> undefined refere
>>> nce to `xercesc_2_7::XMLString::transcode(unsigned short const*)'
>>> /usr/lib/gcc/i686-pc-cygwin/3.4.4/include/c++/bits/basic_string.tcc:(.text+0x3e): 
>>> undefined refere
>>> nce to `xercesc_2_7::XMLString::release(char**)'
>>> /cygdrive/g/public//cygwin/libsbml-2_3_4//lib/libsbml.a(SBMLReader.o): 
>>> In function `_Z16XMLReader_
>>> createPN11xercesc_2_714DefaultHandlerE':
>>> //biocoreserver1/jlegato/cygwin/libsbml-2.3.4/src/sbml/SBMLReader.cpp:113: 
>>> undefined reference to
>>> `___gxx_personality_sj0'
>>>
>>> (Compressed Full log attached)
>>>
>>> Does anyone have any insights into what is going wrong?
>>>
>>> Thanks
>>>
>>> John
>>> ---
>>> Contractor
>>
> 
> ---
> Contractor