[CIG-SHORT] Pylith install error

[Birendra jha]

Hi Matt

I didn't modify the LD_LIBRARY_PATH after setting it through pylith's setup.sh. Because I don't know how to give the path /usr/lib of the headnode, while compiling on the compute node, which has its own /usr/lib. 

thanks
Birendra
--------------------------------------------
On Thu, 9/12/13, Matthew Knepley <knepley at gmail.com> wrote:

 Subject: Re: [CIG-SHORT] Pylith install error
 To: cig-short at geodynamics.org
 Date: Thursday, September 12, 2013, 1:17 AM
 
 Did you try setting
 LD_LIBRARY_PATH?
    Matt
 On Sep 11, 2013 10:40
 AM, "Birendra jha" <bjha7333 at yahoo.com>
 wrote:
 
 Hi
 
 
 
 The configuration is such that I am installing it in my home
 directory on the head node of a cluster, but compiling on
 one of the compute nodes. I am not compiling on the head
 node because I get C compiler error during the configure
 phase.
 
 
 The headnode and the compute node have different versions of
 libgfortran (so.1 and so.3). Here are the steps I took:
 
 
 
 qrsh -l hostname=gpu-0-31   (ignore gpu in the name, I am
 not using gpu stuff)
 
 module add openmpi            (I do this because there
 is no openmpi on this gpu node, only on headnode)
 
 cd /share/home/bjha/build/pylith-1.9.0/
 
 ../../src/pylith/pylith-installer-1.9.0-0/configure
 --prefix=/share/home/bjha/pylith-1.9.0
 
 source setup.sh                   (everything ok so
 far)
 
 make
 
 libgfortran.so.1, needed by
 /share/apps/openmpi/openmpi-1.3.3/lib/libmpi_f90.so, not
 found (try using -rpath or -rpath-link)
 
 
 
 Is it possible to add the libgfortran.so.1 path from the
 head node while compiling on the gpu node?
 
 
 
 Or, is the only option is to install openmpi (a newer
 version that goes with libgfortran.so.3) on the compute
 node? This might take a while because it depends on our
 system admin.
 
 
 
 thanks
 
 Birendra
 
 
 
 --------------------------------------------
 
 On Wed, 9/11/13, Brad Aagaard <baagaard at usgs.gov>
 wrote:
 
 
 
  Subject: Re: [CIG-SHORT] Pylith install error
 
  To: cig-short at geodynamics.org
 
  Date: Wednesday, September 11, 2013, 9:38 AM
 
 
 
  Birendra,
 
 
 
  Check to make sure than mpicc, mpicxx, and mpif90 are
 
  pointing to the
 
  correct compilers using mpicc -show, mpicxx -show, and
 
  mpif90 -show. If
 
  a consistent set of compilers and paths are being used
 for
 
  MPI and your
 
  environment, you should not get an error like this.
 
 
 
  Regards,
 
  Brad
 
 
 
 
 
 
 
  On 9/10/13 8:32 PM, Birendra jha wrote:
 
  > Hi
 
  >
 
  > I am installing pylith-1.9.0 from the installer on a
 
  different computer and I got following error during the
 make
 
  step:
 
  >
 
  > Making all in fortran
 
  > make[5]: Entering directory
 
  `/share/home/bjha/build/pylith-1.9.0/hdf5-build/fortran'
 
  > Making all in src
 
  > make[6]: Entering directory
 
  `/share/home/bjha/build/pylith-1.9.0/hdf5-build/fortran/src'
 
  >    FC     H5test_kind.o
 
  >    FCLD   H5test_kind
 
  > /usr/bin/ld: warning: libgfortran.so.1, needed by
 
  /share/apps/openmpi/openmpi-1.3.3/lib/libmpi_f90.so, not
 
  found (try using -rpath or -rpath-link)
 
  > ./H5test_kind > H5fortran_detect.f90
 
  > ./H5test_kind: error while loading shared libraries:
 
  libgfortran.so.1: cannot open shared object file: No such
 
  file or directory
 
  > make[6]: *** [H5fortran_detect.f90] Error 127
 
  > make[6]: Leaving directory
 
  `/share/home/bjha/build/pylith-1.9.0/hdf5-build/fortran/src'
 
  > make[5]: *** [all-recursive] Error 1
 
  > make[5]: Leaving directory
 
  `/share/home/bjha/build/pylith-1.9.0/hdf5-build/fortran'
 
  > make[4]: *** [all-recursive] Error 1
 
  > make[4]: Leaving directory
 
  `/share/home/bjha/build/pylith-1.9.0/hdf5-build'
 
  > make[3]: *** [hdf5] Error 2
 
  > make[3]: Leaving directory
 
  `/share/home/bjha/build/pylith-1.9.0'
 
  > make[2]: *** [installed_hdf5] Error 2
 
  > make[2]: Leaving directory
 
  `/share/home/bjha/build/pylith-1.9.0'
 
  > make[1]: *** [installed_netcdf] Error 2
 
  > make[1]: Leaving directory
 
  `/share/home/bjha/build/pylith-1.9.0'
 
  > make: *** [installed_pylith] Error 2
 
  >
 
  > I checked that the computer has libgfortran.so.1 in
 
  both /usr/lib and /usr/lib64.
 
  >
 
  > Is it a path issue?
 
  >
 
  > Thanks and regards
 
  > Birendra
 
  > _______________________________________________
 
  > CIG-SHORT mailing list
 
  > CIG-SHORT at geodynamics.org
 
  > http://geodynamics.org/cgi-bin/mailman/listinfo/cig-short
 
  >
 
 
 
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