Re: [SOSlib-devel] more fun on AIX[Scanned]

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xtof

Many thanks
I seem to be making progress again!

I ran the autogen.sh again
and then repeated the xerces-c for expat substitution

The configure run was successful.
And I have managed to build some files!!!

In fact libODES.a is built which I guess is libSOS!!

I've run into a problem with getopt.h in odeSolver
but its early days with that!

Thanks

Andrew

> -----Original Message-----
> From: Christoph Flamm [mailto:xt...@tb...]=20
> Sent: 09 June 2006 16:15
> To: Andrew Finney
> Cc: SOSlib Development
> Subject: RE: [SOSlib-devel] more fun on AIX[Scanned]
>=20
> hi andrew,
>=20
> yes this seems to be the problem.
> you can look into the autogen.sh script in the source of=20
> ODE_solver the right order is
>=20
> aclocal -I config
> autoheader
> automake --add-missing --gnu --copy
>=20
> =3D;) xtof
>=20
> Andrew Finney writes:
>  > xtof
>  >
>  > Thanks for your help
>  >
>  > I think I have buggered up the configuration process.
>  > what is the correct set of commands to setup a=20
> configuration from  > scratch (i.e. generate all the=20
> configure and Makefile.in files) assuming  > a valid set of=20
> config and Makefile.am files?  I'm not a UNIX guru  >  > I=20
> have automake 1.9.6 and autoconf 2.59  >  > (I had to=20
> download and build my own copies as  > the system ones were=20
> too old for libSBML)  >  > I suspect that the lack of macro=20
> expansion in the makefile is causing  > the g++ error :-(  > =20
> > yours Andrew  >  > > -----Original Message-----  > > From:=20
> Christoph Flamm [mailto:xt...@tb...]  > > Sent: 09=20
> June 2006 15:58  > > To: Andrew Finney  > > Cc: SOSlib=20
> Development  > > Subject: Re: [SOSlib-devel] more fun on=20
> AIX[Scanned]  > >  > > hi andrew,  > >  > > g++ (GCC) 3.3.2=20
> is rather old, the current version is g++ (GCC) 4.0.2  > >=20
> which should be available for AIX.
>  > >
>  > > you still have problems with the=20
> automake/autoconf/configure  > > process; your configure=20
> script has not properly substituted  > > the @WHATEVER@=20
> variables from the Makefile.in with the values  > >=20
> determined by the configure script!
>  > >
>  > > which version of automake/autoconf are you using?
>  > > the current one's are:
>  > > automake (GNU automake) 1.9.5
>  > > autoconf (GNU Autoconf) 2.59
>  > >
>  > > =3D;) xtof
>  > >
>  > > Andrew Finney writes:
>  > >  > Rainer
>  > >  >
>  > >  > trying to get SOS lib to compile on AIX has been  >=20
> one  > > long hack and I have not got there yet...
>  > >  >
>  > >  > first:
>  > >  >
>  > >  > - I couldn't get xerces to link with libSBML
>  > >  >    so I'm using expat=20
>  > >  >=20
>  > >  > 	so I replaced xerces-c with expat as you described
>  > >  >
>  > >  > - I removed -Wl,-rpath from sbml.m4  > >  >=20
>  > >  > 	not supported
>  > >  >
>  > >  > - I added libstdc++ and libm to sbml.m4  >=20
>  > >  > 	not there by default
>  > >  >
>  > >  > - one of the makefile.in was missing which required
>  > >  > 	the following:
>  > >  >=20
>  > >  > 	touch src/sbmlsolver/config.h.in
>  > >  > 	aclocal
>  > >  > 	autoconf
>  > >  > 	automake --all-missing
>  > >  >
>  > >  > The above enabled me to complete ./configure  >  >=20
> However  > > when I run gmake at the top level I get:
>  > >  >
>  > >  > ----------------------------------------
>  > >  >
>  > >  > bash-2.05a$ gmake
>  > >  > Making all in src
>  > >  >         if g++ -DHAVE_CONFIG_H -I. -I. -I../src/sbmlsolver
>  > >  > @SUNDIALS_CFLAGS@  @G
>  > >  > RAPHVIZ_CFLAGS@  @SBML_CFLAGS@  @GRACE_CFLAGS@  -I.  =20
>   -g -O2 -MT
>  > >  > ASTIndexNameN
>  > >  > ode.o -MD -MP -MF ".deps/ASTIndexNameNode.Tpo" -c -o =20
> > > ASTIndexNameNode.o  > ASTIndex  > NameNode.cpp;  then mv=20
> -f  > > ".deps/ASTIndexNameNode.Tpo"
>  > >  > ".deps/ASTIndexNameNode.P
>  > >  > o"; else rm -f ".deps/ASTIndexNameNode.Tpo"; exit 1;=20
> fi  >  > > g++: cannot specify -o with -c or -S and multiple =20
> > > compilations  > make: 1254-004 The error code from the=20
> last  > > command is 1.
>  > >  >
>  > >  >
>  > >  > Stop.
>  > >  > gmake: *** [all-recursive] Error 1  > >  >=20
> bash-2.05a$ g++ --version  > >  > g++ (GCC) 3.3.2  > >  >=20
> Copyright (C) 2003 Free Software Foundation, Inc.
>  > >  > This is free software; see the source for copying  >=20
> > conditions.  There is  > NO  > warranty; not even for  > >=20
> MERCHANTABILITY or FITNESS FOR A PARTICULAR  > PURPOSE.
>  > >  >
>  > >  > -----------------------------
>  > >  >
>  > >  > Is the version of g++ I'm using too old?
>  > >  > Is this make output correct?
>  > >  >
>  > >  > Any ideas would be most helpful
>  > >  >
>  > >  > yours Andrew
>  > >  >
>  > >  >
>  > >  >
>  > >  > _______________________________________________
>  > >  > sbmlsolver-devel mailing list
>  > >  > sbm...@li...
>  > >  > https://lists.sourceforge.net/lists/listinfo/sbmlsolver-devel
>  > >
>  > > --
>  > > Christoph Flamm
>  > > Bioinformatik, Inst.f.Informatik, Univ.Leipzig, Germany
>  > >   www: http://www.tbi.univie.ac.at/~xtof
>  > > phone: ++49 341 97-16688 fax: ++49 341 97-16709  > >=20
> email: xt...@bi...  > > smail: Haertelstrasse=20
> 16-18, D-04107 Leipzig, Germany  > >=20
>=20
> --
> Christoph Flamm
> Bioinformatik, Inst.f.Informatik, Univ.Leipzig, Germany
>   www: http://www.tbi.univie.ac.at/~xtof
> phone: ++49 341 97-16688 fax: ++49 341 97-16709
> email: xt...@bi...
> smail: Haertelstrasse 16-18, D-04107 Leipzig, Germany
>=20