[petsc-users] PETSc, C++ and Eclipse

[Satish Balay]

>>>>>>
/usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2/../../../gcrt1.o: In function `_start':
(.text+0x20): undefined reference to `main'
/tmp/ccEthkOE.o: In function `solveMatrix':
/home/mdbockman/Documents/Research/codes/quadrilateral_FEM/quad_FEM_svn_local/quad_FEM_svn/Debug/../SparseMatrixPetsc.c:22: undefined reference to `PetscInitialize'
<<<<<<

Normally you get unresolved symbols when linking stuff in wrong order.

i.e the order should be:

SparseMatrixPetsc.o -lpetsc

and not

-lpetsc SparseMatrixPetsc.o

Or its possible you've added the 'make getlinklib' info to the compile
command - not link command.

[assuming eclipse does the build in the above 2 steps.]

Satish

On Wed, 27 Jul 2011, Matt Bockman wrote:

> I added the include directories from "make getincludedirs" and I added the
> line from "make getlinklib". Eclipse creates a gcc call as follows:
> 
> /home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/bin/mpicc
> -I/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/include
> -I/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/include
> -I/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/include
> -O0 -g3 -pg -p -Wall
> -Wl,-rpath,/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/lib
> -Wl,-rpath,/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/lib
> -L/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/lib
> -lpetsc -lX11
> -Wl,-rpath,/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/lib
> -L/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/lib
> -lflapack -lfblas -lnsl -lrt -lm
> -L/home/mdbockman/Documents/Research/codes/petsc/petsc-3.1-p8/linux-gnu-c-debug/lib
> -L/usr/lib/x86_64-linux-gnu/gcc/x86_64-linux-gnu/4.5.2
> -L/usr/lib/x86_64-linux-gnu -ldl -lmpich -lpthread -lrt -lgcc_s -lmpichf90
> -lgfortran -lm -lm -ldl -lmpich -lpthread -lrt -lgcc_s -ldl -MMD -MP
> -MF"SparseMatrixPetsc.d" -MT"SparseMatrixPetsc.d" -o"SparseMatrixPetsc.o"
> "../SparseMatrixPetsc.c
> 
> And when it is compiled I get the following:
> 
> http://pastebin.com/CbRzYcZj
> 
> The source file which is being compiled is:
> 
> http://pastebin.com/Q85hXvnS
> 
> Please have a look. I'm not quite sure what I'm doing wrong but I feel like
> I'm getting closer and closer to the solution.
> 
> Matt
> 
> On Wed, Jul 27, 2011 at 11:52 AM, Satish Balay <balay at mcs.anl.gov> wrote:
> 
> > use:
> > make getincludedirs
> >
> > Satish
> >
> > On Wed, 27 Jul 2011, Mohammad Mirzadeh wrote:
> >
> > > I applogize for the mistake; Include files are actually located
> > > in $PETSC_DIR/include
> > >
> > > On Wed, Jul 27, 2011 at 11:18 AM, Mohammad Mirzadeh <mirzadeh at gmail.com
> > >wrote:
> > >
> > > > Ok then. Now I don't have enough experience with Eclipse so
> > > > I apologize beforehand if you already know these/have tried them out.
> > If
> > > > not, hopefully they can be of help. I assume there should be a way in
> > > > Eclipse to give it the link lib directory. In plain makefile that's
> > just a
> > > > simple step when linking. To get all the needed linklibs for petsc, you
> > can
> > > > do
> > > >
> > > > make getlinklibs
> > > >
> > > > in the $PETSC_DIR. As for the needed include files, they are all
> > located
> > > > in
> > > >
> > > > $PETSC_DIR/$PETSC_ARCH/include
> > > >
> > > > Again, its easy to use these directories along with your makefile. I'm
> > not
> > > > sure about how you give them to Eclipse though. Hopefully this has been
> > > > helpful.
> > > >
> > > > Best,
> > > > Mohammad
> > > >
> > > >
> > > >
> > > >
> > > > On Wed, Jul 27, 2011 at 10:52 AM, Matt Bockman <mdbockma at ucsd.edu>
> > wrote:
> > > >
> > > >> Just pointing it to the library would be sufficient.
> > > >>
> > > >> Matt
> > > >>
> > > >>
> > > >> On Wed, Jul 27, 2011 at 10:21 AM, Mohammad Mirzadeh <
> > mirzadeh at gmail.com>wrote:
> > > >>
> > > >>> So do you want to be able to compile PETSc with Eclipse or just point
> > it
> > > >>> to the library to use in your own applications?
> > > >>>
> > > >>>
> > > >>> On Wed, Jul 27, 2011 at 9:14 AM, Matt Bockman <mdbockma at ucsd.edu>
> > wrote:
> > > >>>
> > > >>>> Thanks Mohammad,
> > > >>>>
> > > >>>> I'll give that a shot. I use Qt Creator for some GUI applications so
> > I
> > > >>>> am familiar with it, but I've never tried doing a non-Qt project in
> > it. I'd
> > > >>>> really like to get Eclipse to work.
> > > >>>>
> > > >>>> Regarding the makefiles for eclipse. There are makefiles that it
> > > >>>> generates (which are for GNU make) but I think I can also manually
> > create my
> > > >>>> makefiles. After sleeping on it, it seems like this might be the
> > best
> > > >>>> option, unless I can figure out a way to configure eclipse to
> > include the
> > > >>>> conf/variables and conf/rules files in the makefile.
> > > >>>>
> > > >>>> Matt
> > > >>>>
> > > >>>>
> > > >>>> On Wed, Jul 27, 2011 at 12:01 AM, Mohammad Mirzadeh <
> > mirzadeh at gmail.com
> > > >>>> > wrote:
> > > >>>>
> > > >>>>> Although this is sort of orthogonal to what you do right now,
> > > >>>>> I recommend Qt Creator as an alternative IDE to Eclipse. It links
> > nicely
> > > >>>>> with PETSc(or any other library for that matter) and has excellent
> > c/c++
> > > >>>>> support.
> > > >>>>>
> > > >>>>> Mohammad
> > > >>>>>
> > > >>>>>
> > > >>>>> On Tue, Jul 26, 2011 at 7:22 PM, Barry Smith <bsmith at mcs.anl.gov
> > >wrote:
> > > >>>>>
> > > >>>>>>
> > > >>>>>>  There is a tiny bit of information in the PETSc users manual
> > about
> > > >>>>>> Eclipse:
> > > >>>>>>
> > > >>>>>> \section{Eclipse Users} \sindex{eclipse}
> > > >>>>>>
> > > >>>>>> If you are interested in developing code that uses PETSc from
> > Eclipse
> > > >>>>>> or developing PETSc in Eclipse and have knowledge of how to do
> > indexing and
> > > >>>>>> build libraries in Eclipse please contact us at \
> > > >>>>>> trl{petsc-dev at mcs.anl.gov}.
> > > >>>>>>
> > > >>>>>> To make PETSc an Eclipse package
> > > >>>>>> \begin{itemize}
> > > >>>>>> \item Install the Mecurial plugin for Eclipse and then import the
> > > >>>>>> PETSc repository to Eclipse.
> > > >>>>>> \item elected New->Convert to C/C++ project and selected shared
> > > >>>>>> library. After this point you can perform searchs in the code.
> > > >>>>>> \end{itemize}
> > > >>>>>>
> > > >>>>>>  A PETSc user has provided the following steps to build an Eclipse
> > > >>>>>> index for PETSc that can be used with their own code without
> > compiling PETSc
> > > >>>>>> source into their project.
> > > >>>>>> \begin{itemize}
> > > >>>>>> \item In the user project source directory, create a symlink to
> > the
> > > >>>>>> petsc/src directory.
> > > >>>>>> \item Refresh the project explorer in Eclipse, so the new symlink
> > is
> > > >>>>>> followed.
> > > >>>>>> \item Right-click on the project in the project explorer, and
> > choose
> > > >>>>>> "Index -> Rebuild". The index should now be build.
> > > >>>>>> \item Right-click on the PETSc symlink in the project explorer,
> > and
> > > >>>>>> choose "Exclude from build..." to make sure Eclipse does not try
> > to compile
> > > >>>>>> PETSc with the project.
> > > >>>>>> \end{itemize}
> > > >>>>>>
> > > >>>>>> We'd love to have someone figure out how to do it right and
> > include
> > > >>>>>> that information.
> > > >>>>>>
> > > >>>>>>   Barry
> > > >>>>>>
> > > >>>>>> On Jul 26, 2011, at 4:32 PM, Matt Bockman wrote:
> > > >>>>>>
> > > >>>>>> > Has anyone gotten PETSc to work w/Eclipse? Eclipse nicely
> > generates
> > > >>>>>> all my makefiles for me for my current project (which is written
> > in C++).
> > > >>>>>> I'd like to link PETSc w/my application but I'm not sure how to do
> > this.
> > > >>>>>> >
> > > >>>>>> > Suggestions?
> > > >>>>>> >
> > > >>>>>> > Thanks,
> > > >>>>>> > Matt
> > > >>>>>>
> > > >>>>>>
> > > >>>>>
> > > >>>>
> > > >>>
> > > >>
> > > >
> > >
> >
> >
>