[overture] Re: error compiling CG with undefined reference

  • From: Bill Henshaw <henshaw@xxxxxxxx>
  • To: overture@xxxxxxxxxxxxx
  • Date: Mon, 23 Apr 2012 16:43:03 -0700

Hi David,
   1. If the other Overture tests from check.p work then I would not worry 
about the error below for asmo.cmd

   2. The function "_gfortran_transfer_real_write" should supposedly be in the 
gfortran library. If the Overture programs
       linked ok then they must have found this function then. One difference 
with cg is that it links to the lapack and blas
       libraries. Did you compile and install lapack and blas with the same 
version of gfortran as you used for Overture?

  3. You might also want to look at the Ubuntu install instructions from 
Mohammed:
                 
http://mabouali.wordpress.com/2012/01/16/installing-overture-on-a-freshly-installed-ubuntu/

Regards,
  Bill

On 04/23/2012 05:36 AM, David Sinden wrote:

sorry, should have included the line which breaks down, as it contains the 
linking of the source files etc
g++ -fPIC -g -w -I/home/dave/Code/Overture/cg.v24/common/src -I/home/dave/Code/Overture/cg.v24/common/shared -I/home/dave/Code/Overture/cg.v24/common/moving/src -I/home/dave/Code/Overture/cg.v24/common/multiComponent/src -I/home/dave/Code/Overture/cg.v24/common/chemistry -I/home/dave/Code/Overture/cg.v24/common/dataBase -I/home/dave/Code/Overture/cg.v24/src -I/home/dave/Code/Overture/Overture.v24/include -I/home/dave/Code/Overture/A++P++-0.8.0/A++/install/include -I/home/dave/Code/Overture/hdf5-1.6.5/include -I/home/dave/Code/Overture/Mesa-7.5.1/include -o /home/dave/Code/Overture/cg.v24/common/bin/checkCheckFiles /home/dave/Code/Overture/cg.v24/common/obj/checkCheckFiles.o -Wl,-rpath,/home/dave/Code/Overture/Overture.v24/lib -L/home/dave/Code/Overture/Overture.v24/lib -lOverture -lOverture_static -Wl,-rpath,/home/dave/Code/Overture/hdf5-1.6.5/lib -L/home/dave/Code/Overture/hdf5-1.6.5/lib -lhdf5 -ljpeg -lz -Wl,-rpath,/home/dave/Code/Overture/A++P++-0.8.0/A++/install/lib -L/home/dave/Code/Overture/A++P++-0.8.0/A++/install/lib -lApp -lApp_static -Wl,-rpath,/usr -L/usr -llapack -lblas -lgfortran -Wl,-rpath,/home/dave/Code/Overture/Mesa-7.5.1/lib -L/home/dave/Code/Overture/Mesa-7.5.1/lib -lGL -lGLU -lOSMesa -Wl,-rpath,/usr/lib -L/usr/lib -lXm -L/usr/lib -lXpm -lXp -lXt -lXmu -lXi -lXext -lX11 -Wl,-rpath,/usr/lib/perl/5.12/CORE -L/usr/lib/perl/5.12/CORE -lperl -ldl -lm -lpthread -lc -lcrypt 


On 23 April 2012 13:26, David Sinden <david.sinden@xxxxxxxxx 
<mailto:david.sinden@xxxxxxxxx>> wrote:

    i have installed overture and it seems to work, at least the checks, tests 
and examples all work, with one exception

    Running: /home/dave/Code/Overture/Overture.v24/bin/ogen noplot nopause 
abortOnEnd /home/dave/Code/Overture/Overture.v24/sampleGrids/asmo.cmd > 
gridsFromCad.out...
    Segmentation fault
    ERROR running /home/dave/Code/Overture/Overture.v24/bin/ogen noplot nopause 
abortOnEnd /home/dave/Code/Overture/Overture.v24/sampleGrids/asmo.cmd > 
gridsFromCad.out. Check the logfile
    gridsFromCad.out
     
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
    ERROR return rt=256

    the log file shows that there is no not sure how significant this is or 
what it indicates, but something is wrong as i can't make any of the files from 
cg as i get errors for a whole host of
    other undefined references such as

    /home/dave/Code/Overture/Overture.v24/lib/libOverture.so: undefined 
reference to `_gfortran_transfer_real_write'
    collect2: ld returned 1 exit status
    make[1]: *** [/home/dave/Code/Overture/cg.v24/common/bin/checkCheckFiles] 
Error 1
    make[1]: Leaving directory `/home/dave/Code/Overture/cg.v24/common'
    make: *** [libCommon] Error 2

    is this a problem from the compilation of overture or a problem in the 
linking of cg with overture? as cg uses the make.options settings from overture 
i doubt it. i have copied over the defenv
    file from overture and load that before compiling so that the environmental 
variables are the same, but could this be a problem. my set up is

    hdf5-1.6.5,
    mesa-7.5.1
    perl (v5.12.4)
    gcc version 4.6.1 (Ubuntu/Linaro 4.6.1-9ubuntu3)

    and i call the hdf5 and mesa directories directly. it looks similar to the 
error reported here: //www.freelists.org/post/overture/cg-error

    thanks, david

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