[CIG-LONG] new install

Thu Jan 31 20:46:43 PST 2013

OK, I tried editing my config.cfg file (attached) as you described in 
the previous thread, but the install terminated fairly quickly.

I, like Frank, download and install fblas with my petsc install. Here is 
my Petsc install command:

  ./configure --with-cc=gcc --with-fc=gfortran --download-f-blas-lapack 
--download-mpich --without-x

Here's the output from running scons:

scons: Reading SConscript files ...
Copy("/home/matty/Programs/Gale/gale/build/StGermain/stg_static_modules.cxx", 
"/home/matty/Programs/Gale/gale/StGermain/libStGermain/src/stg_static_modules.cxx.tmpl")
scons: done reading SConscript files.
scons: Building targets ...
Install file: "boost/boost/config.hpp" as "build/include/boost/config.hpp"
ar rc build/lib/libjson_parser.a build/json_parser/add_components.os 
build/json_parser/parse_json.os build/json_parser/fix_start_end.os 
build/json_parser/print_xml.os build/json_parser/add_defaults.os
ranlib build/lib/libjson_parser.a
mpicxx -o build/bin/Gale 
-Wl,-rpath=/home/matty/Programs/Petsc/petsc-3.2-p7/lib 
-Wl,-rpath=/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib 
-Wl,-rpath=/home/matty/Programs/Gale/gale/build/lib StGermain/src/main.o 
build/StGermain/stg_static_modules.o 
-L/home/matty/Programs/Petsc/petsc-3.2-p7/lib 
-L/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib 
-L/home/matty/Programs/Petsc/petsc-3.2-p7/linux-gnu-c-debug/lib 
-Lbuild/lib -lUnderworld -lPICellerator -lStgFEM -lStgDomain -lStGermain 
-lpcu -lmuparserx -ljson_parser -ljson_spirit -lboost_filesystem 
-lboost_system -lpetsc -lhdf5 -lxml2 -lflapack -lfblas
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libflapack.a(dgesvd.o): 
In function `dgesvd_':
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/dgesvd.f:215: 
undefined reference to `_gfortran_concat_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/dgesvd.f:379: 
undefined reference to `_gfortran_concat_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libflapack.a(dhseqr.o): 
In function `dhseqr_':
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/dhseqr.f:345: 
undefined reference to `_gfortran_concat_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libflapack.a(dormbr.o): 
In function `dormbr_':
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/dormbr.f:183: 
undefined reference to `_gfortran_concat_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/dormbr.f:186: 
undefined reference to `_gfortran_concat_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libflapack.a(dormbr.o):/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/dormbr.f:191: 
more undefined references to `_gfortran_concat_string' follow
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libflapack.a(ilaenv.o): 
In function `ilaenv_':
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/ilaenv.f:200: 
undefined reference to `_gfortran_compare_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/ilaenv.f:201: 
undefined reference to `_gfortran_compare_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/ilaenv.f:207: 
undefined reference to `_gfortran_compare_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/ilaenv.f:207: 
undefined reference to `_gfortran_compare_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/ilaenv.f:207: 
undefined reference to `_gfortran_compare_string'
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libflapack.a(ilaenv.o):/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack/ilaenv.f:207: 
more undefined references to `_gfortran_compare_string' follow
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libflapack.a(dlamch.o): 
In function `dlamc2_':
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack-extra/dlamch.f:525: 
undefined reference to `_gfortran_st_write'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack-extra/dlamch.f:525: 
undefined reference to `_gfortran_transfer_integer_write'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/lapack-extra/dlamch.f:525: 
undefined reference to `_gfortran_st_write_done'
/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib/libfblas.a(xerbla.o): 
In function `xerbla_':
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/blas/xerbla.f:33: 
undefined reference to `_gfortran_st_write'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/blas/xerbla.f:33: 
undefined reference to `_gfortran_transfer_character_write'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/blas/xerbla.f:33: 
undefined reference to `_gfortran_transfer_integer_write'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/blas/xerbla.f:33: 
undefined reference to `_gfortran_st_write_done'
/home/matty/Programs/Petsc/petsc-3.2-p7/externalpackages/fblaslapack-3.1.1/blas/xerbla.f:35: 
undefined reference to `_gfortran_stop_string'
collect2: ld returned 1 exit status
scons: *** [build/bin/Gale] Error 1
scons: building terminated because of errors.

> Matty <matty.mookerjee at sonoma.edu> wrote:
>> Walter,
>>
>> That definitely seemed to help. I got through the configure stage this
>> time.  It didn't find PETScExt, but I think I recall that that was
>> OK. When I ran scons I get this error:
> Now you need to add flapack and fblas
>
>    http://www.geodynamics.org/pipermail/cig-long/2013-January/000890.html
>
> Cheers,
> Walter Landry
> _______________________________________________
> CIG-LONG mailing list
> CIG-LONG at geodynamics.org
> http://geodynamics.org/cgi-bin/mailman/listinfo/cig-long
>

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prefix = '/home/matty/Programs/Gale/gale'
build_dir = 'build'
with_debugging = 1
with_warnings = 1
lib_type = 'static'
CXX = 'mpicxx'
CXXFLAGS = []
LINKFLAGS = ['$__RPATH']
with_glucifer = 0
with_hdf5 = 1
with_experimental = False
with_osmesa = 1
with_sdl = 1
with_x11 = 1
with_carbon = 1
with_png = 1
with_jpeg = 1
with_fame = 1
eptiming = 0
with_memory_stats = 0
with_cautious_mode = 0
CPPPATH = ['/usr/include/libxml2', '/home/matty/Programs/Petsc/petsc-3.2-p7/include', '/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/include']
LIBPATH = ['/home/matty/Programs/Petsc/petsc-3.2-p7/lib', '/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib', '/home/matty/Programs/Petsc/petsc-3.2-p7/linux-gnu-c-debug/lib']
RPATH = ['/home/matty/Programs/Petsc/petsc-3.2-p7/lib', '/home/matty/Programs/Petsc/petsc-3.2-p7/arch-linux2-c-debug/lib']
LIBS = ['petsc', 'hdf5', 'xml2','flapack','fblas']
CPPDEFINES = ['DEBUG', 'HAVE_LIBXML2', 'HAVE_MPI', 'HAVE_HDF5', 'HAVE_PETSC']
CXXFLAGS = []
FRAMEWORKS = []
CCFLAGS = ['-g', '-Wwrite-strings', '-Wno-strict-aliasing', '-Wno-unknown-pragmas', '-g3', '-Wall']
shared_libs = 0
static_libs = 1
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