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

[John L. <jl...@he...>]

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