Forums

F.A.Q. F.A.Q.    Register Register    Login Login    Home Home
Search Search
SBML Discussions » sbml-interoperability » installation of libSBML 2.3.4/SBML Toolbox2.0.2
Show: Today's Posts  :: Message Navigator
| Subscribe to topic 
Return to the default flat view Create a new topic Submit Reply
AuthorTopic
celine


Posts: 11
Registered:
January 2011
installation of libSBML 2.3.4/SBML Toolbox2.0.2 25 Jan '11 14:10 Go to previous message

I am trying to install SBML-SAT on a Ubuntu 10.10 64bit system.

I have tried several different combinations of libsbml and SBML Toolbox with varying degrees of... failure Crying or Very Sad (if those failures are of any interest, I can list them)

I've been advised to use libsbml 2.3.4 and SBML Toolbox 2.0.2, as SBML-SAT has not yet been updated for the latest libsbml/SBML Toolbox.

On my latest attempt:
./configure --with-matlab=Application/Programming/MATLABR2010b

succeeds, and spits out:
Build Settings for libsbml v2.3.4:
----------------------------------
host type = linux
install dir = /usr/local
XML library = Xerces-C++
CC = gcc
CXX = g++
CFLAGS = -g -O2
CXXFLAGS = -g -O2
CPPFLAGS = -DLINUX
LDFLAGS =
LIBS = -lm
enable memory tracing? = no
use libcheck? = no
use SWIG? = no
use Python? = no
use Perl? = no
use Java? = no
use Matlab? = Application/Programming/MATLABR2010b
use Lisp = no

(Which I think it is successful?) Then, 'build' seems to be unsuccessful with the following errors:

make[2]: Entering directory `/home/celine/Downloads/libsbml-2.3.4/src/math'
g++ -I.. -I. -DLINUX -g -O2 -fPIC -MT MathMLHandler.o -MD -MP -MF ".deps/MathMLHandler.Po" -c -o MathMLHandler.o MathMLHandler.cpp
MathMLHandler.cpp: In member function ‘void MathMLHandler::characters(const XMLCh*, unsigned int)’:
MathMLHandler.cpp:381: error: ‘isAllWhiteSpace’ is not a member of ‘xercesc_3_1::XMLString’
make[2]: *** [MathMLHandler.o] Error 1
make[2]: Leaving directory `/home/celine/Downloads/libsbml-2.3.4/src/math'
make[1]: *** [math-recurse] Error 2
make[1]: Leaving directory `/home/celine/Downloads/libsbml-2.3.4/src'
make: *** [src-recurse] Error 2


First off, is it necessary to use libSBML 2.3.4? Initially I had installed (successfully) libSBML 4.2.0 before I read the dependencies statements of SBMLToolbox 3.0 and SBML-SAT. However, I can imagine that SBML toolbox 3.0 would not necessarily update the dependencies list, especially since there are newer editions already available.

If it is necessary to use libSBML 2.3.4, how can I fix the above errors?

Thanks for your help!
Celine

      

SubjectPosterDate
Read Message   installation of libSBML 2.3.4/SBML Toolbox2.0.2  celine25 Jan '11 14:10
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... Sarah Keating26 Jan '11 05:53
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... celine26 Jan '11 13:12
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... Torbjoern Klatt26 Jan '11 14:10
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... celine27 Jan '11 16:16
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... Torbjoern Klatt28 Jan '11 01:10
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... fbergman26 Jan '11 14:32
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... celine27 Jan '11 15:23
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... fbergman27 Jan '11 15:44
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... celine27 Jan '11 16:35
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... celine28 Jan '11 08:42
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... fbergman28 Jan '11 09:13
Read Message   Re: installation of libSBML 2.3.4/SBML Toolbox2.0.... celine31 Jan '11 17:15
Previous Topic:libSBML Installation Failed Message
Next Topic:Problem to bind libsbml with matlab
Go to forum:
-=] Back to Top [=-

Powered by FUDforum. (Copyright Advanced Internet Designs Inc.)

Please use our issue tracking system for any questions or suggestions about this website.