undefined reference to `__gfortran_st_write`

[kguy]

Hi,

I just installed itpp-4.0.7 on cygwin 1.7.1 (win7 64). I also installed the
itpp-external-3.2.0

When compiling and linking as described in point 4 here
http://itpp.sourceforge.net/current/installation.html
get the following
error message.

$ make
g++ `/usr/local/bin/itpp-config --debug --cflags` example.cpp -o example_debug  `/usr/local/bin/itpp-config --debug --static --libs`
/usr/local/lib/liblapack.a(xerbla.o):xerbla.f:(.text+0x3f): undefined reference to `__gfortran_st_write'
/usr/local/lib/liblapack.a(xerbla.o):xerbla.f:(.text+0x5a): undefined reference to `__gfortran_transfer_character'
/usr/local/lib/liblapack.a(xerbla.o):xerbla.f:(.text+0x75): undefined reference to `__gfortran_transfer_integer'
/usr/local/lib/liblapack.a(xerbla.o):xerbla.f:(.text+0x7d): undefined reference to `__gfortran_st_write_done'
/usr/local/lib/liblapack.a(xerbla.o):xerbla.f:(.text+0x89): undefined reference to `__gfortran_stop_numeric'
/usr/local/lib/liblapack.a(ilaenv.o):ilaenv.f:(.text+0x6e): undefined reference to `__gfortran_compare_string'
/usr/local/lib/liblapack.a(ilaenv.o):ilaenv.f:(.text+0x9a): undefined reference to `__gfortran_compare_string'
/usr/local/lib/liblapack.a(ilaenv.o):ilaenv.f:(.text+0xc6): undefined reference to `__gfortran_compare_string'
/usr/local/lib/liblapack.a(ilaenv.o):ilaenv.f:(.text+0xf2): undefined reference to `__gfortran_compare_string'
/usr/local/lib/liblapack.a(ilaenv.o):ilaenv.f:(.text+0x11e): undefined reference to `__gfortran_compare_string'
/usr/local/lib/liblapack.a(ilaenv.o):ilaenv.f:(.text+0x146): more undefined references to `__gfortran_compare_string' follow
/usr/local/lib/liblapack.a(dhseqr.o):dhseqr.f:(.text+0x7df): undefined reference to `__gfortran_concat_string'
/usr/local/lib/liblapack.a(liblapack_noopt_la-dlamch.o):dlamch.f:(.text+0xcb8): undefined reference to `__gfortran_st_write'
/usr/local/lib/liblapack.a(liblapack_noopt_la-dlamch.o):dlamch.f:(.text+0xcd6): undefined reference to `__gfortran_transfer_integer'
/usr/local/lib/liblapack.a(liblapack_noopt_la-dlamch.o):dlamch.f:(.text+0xce4): undefined reference to `__gfortran_st_write_done'
/usr/local/lib/liblapack.a(zhseqr.o):zhseqr.f:(.text+0x3b5): undefined reference to `__gfortran_concat_string'
/usr/local/lib/liblapack.a(dtrtri.o):dtrtri.f:(.text+0x466): undefined reference to `__gfortran_concat_string'
/usr/local/lib/liblapack.a(ztrtri.o):ztrtri.f:(.text+0x413): undefined reference to `__gfortran_concat_string'
/usr/local/lib/liblapack.a(zlaqr0.o):zlaqr0.f:(.text+0x1827): undefined reference to `_csqrt'
/usr/local/lib/liblapack.a(zlahqr.o):zlahqr.f:(.text+0xd43): undefined reference to `_csqrt'
/usr/local/lib/liblapack.a(zlahqr.o):zlahqr.f:(.text+0xd87): undefined reference to `_csqrt'
/usr/local/lib/liblapack.a(zlahqr.o):zlahqr.f:(.text+0xebf): undefined reference to `_csqrt'
/usr/local/lib/liblapack.a(zlaqr4.o):zlaqr4.f:(.text+0x17f5): undefined reference to `_csqrt'
collect2: ld returned 1 exit status
make: *** [example] Error 1

Here is my makefile

 FLAGS_DEBUG = `/usr/local/bin/itpp-config --debug --cflags`
FLAGS_OPT   = `/usr/local/bin/itpp-config --cflags`

LIBS_DEBUG  = `/usr/local/bin/itpp-config --debug --static --libs`
LIBS_OPT    = `/usr/local/bin/itpp-config --static --libs`

example: example.cpp
    g++ $(FLAGS_DEBUG) example.cpp -o example_debug  $(LIBS_DEBUG)
    g++ $(FLAGS_OPT) example.cpp -o example_opt  $(LIBS_OPT)

Thanks for any hint.

GA

[Bogdan Cristea]

It seems that there is an issue with your gfortran compiler. Have you
installed gfortran for cygwin and its development package ?

Also, instead of using itpp-external-3.2.0 you could try to install lapack and
fftw from cygwin, this approach works for me with no errors.

[kguy]

BTW here is itpp configuration

------------------------------------------------------------------------------
itpp-4.0.7 library configuration:
------------------------------------------------------------------------------

Directories:

  - prefix ......... : /usr/local
  - exec_prefix .... : ${prefix}
  - includedir ..... : ${prefix}/include
  - libdir ......... : ${exec_prefix}/lib
  - datarootdir .... : ${prefix}/share
  - docdir ......... : ${datarootdir}/doc/${PACKAGE_TARNAME}

Switches:

  - debug .......... : yes
  - exceptions ..... : no
  - html-doc ....... : yes
  - shared ......... : no
  - static ......... : yes
  - explicit deps .. : yes
  - zdotu .......... : zdotusub

Documentation tools:

  - doxygen ........ : yes
  - latex .......... : yes
  - dvips .......... : yes
  - ghostscript .... : yes

Testing tools:

  - diff ........... : yes

Optional modules:

  - comm ........... : yes
  - fixed .......... : yes
  - optim .......... : yes
  - protocol ....... : yes
  - signal ......... : yes
  - srccode ........ : yes

External libs:

  - BLAS ........... : yes
    * MKL .......... : no
    * ACML ......... : no
    * ATLAS ........ : no
  - LAPACK ......... : yes
  - FFT ............ : yes
    * MKL .......... : no
    * ACML ......... : no
    * FFTW ......... : yes

Compiler/linker flags/libs/defs:

  - CXX ............ : g++
  - F77 ............ : g77
  - CXXFLAGS ....... : -DNDEBUG -O3 -pipe
  - CXXFLAGS_DEBUG . : -Wall -ggdb -pipe
  - CPPFLAGS ....... : 
  - LDFLAGS ........ : 
  - LIBS ........... : -lfftw3 -llapack -lblas

------------------------------------------------------------------------------
Now type 'make && make install' to build and install itpp-4.0.7 library
------------------------------------------------------------------------------

[kguy]

@cristeab

Hi thanks for your answer

gfortran seems to be installed properly

$ gfortran -v
Using built-in specs.
Target: i686-pc-cygwin
Configured with: /gnu/gcc/releases/packaging/4.3.4-3/gcc4-4.3.4-3/src/gcc-4.3.4/configure --srcdir=/gnu/gcc/releases/packaging/4.3.4-3/gcc4-4.3.4-3/src/gcc-4.3.4 --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --libexecdir=/usr/lib --datadir=/usr/share
 --localstatedir=/var --sysconfdir=/etc --infodir=/usr/share/info --mandir=/usr/share/man --datadir=/usr/share --infodir=/usr/share/info --mandir=/usr/share/man -v --with-gmp=/usr --with-mpfr=/usr --enable-bootstrap --enable-version-specific-runtime-libs --with-slibdir=/usr/
bin --libexecdir=/usr/lib --enable-static --enable-shared --enable-shared-libgcc --disable-__cxa_atexit --with-gnu-ld --with-gnu-as --with-dwarf2 --disable-sjlj-exceptions --enable-languages=ada,c,c++,fortran,java,objc,obj-c++ --disable-symvers --enable-libjava --program-suf
fix=-4 --enable-libgomp --enable-libssp --enable-libada --enable-threads=posix --with-arch=i686 --with-tune=generic --enable-libgcj-sublibs CC=gcc-4 CXX=g++-4 CC_FOR_TARGET=gcc-4 CXX_FOR_TARGET=g++-4 GNATMAKE_FOR_TARGET=gnatmake GNATBIND_FOR_TARGET=gnatbind AS=/opt/gcc-tools
/bin/as.exe AS_FOR_TARGET=/opt/gcc-tools/bin/as.exe LD=/opt/gcc-tools/bin/ld.exe LD_FOR_TARGET=/opt/gcc-tools/bin/ld.exe --with-ecj-jar=/usr/share/java/ecj.jar
Thread model: posix
gcc version 4.3.4 20090804 (release) 1 (GCC)

gkamendje@Thales ~/Projects/WideSail/ITPP/itpp-4.0.7
$ which gfortran
/usr/bin/gfortran

gkamendje@Thales ~/Projects/WideSail/ITPP/itpp-4.0.7
$

I did a full installation of cygwin and I though that all the lib and lib-dev
package were installed. I will try to manually install those again.

GA

Thanks

[kguy]

gfortran is correctly installed and I can compile and link fortran programs
with call to lapack routines using gfortran

gkamendje@Thales ~/Projects/WideSail/ITPP
$ gfortran --version
GNU Fortran (GCC) 4.3.4 20090804 (release) 1
Copyright (C) 2008 Free Software Foundation, Inc.

GNU Fortran comes with NO WARRANTY, to the extent permitted by law.
You may redistribute copies of GNU Fortran
under the terms of the GNU General Public License.
For more information about these matters, see the file named COPYING


gkamendje@Thales ~/Projects/WideSail/ITPP
$ gfortran  -o test test.for -llapack

gkamendje@Thales ~/Projects/WideSail/ITPP
$ ./test.exe
 Testing a lapack sub routine was successfull:

gkamendje@Thales ~/Projects/WideSail/ITPP
$

I used the following line to configure make and install

./configure --disable-shared --enable-static --enable-debug F77=gfortran &&
make && make check && make install

everything was OK. But still I am not able to compile the sample code.

Plz help

GA

[Adam Piątyszek]

Hi GA,

I think your local installation of LAPACK in /usr/local/lib is somehow broken.
At least the static library. I recommend you to remove all the files from
itpp-external package installation and try with LAPACK and FFTW provided by
Cygwin. The itpp-external package is only recommended when native LAPACK, BLAS
and FFTW libraries are not available.

If this still won't help, please try to use shared linking instead of static.

BR,

/Adam

[kguy]

@ediap

Thanks for the hint. That solved the problem. the LAPACK installation in
/usr/local/lib (from itpp-external package) was indeed broken. I deleted it
and relied on the LAPACK and FFTW packages provided by Cygwin. Here is what I
did

1) deleted all LAPACK and FFTW libraries in /usr/local/lib

2) use the following to configure build and install (I enabled both shared and
static since I was not sure that the problem was related to the static
linking)

(./configure --enable-shared --enable-static --enable-debug F77=gfortran &&
make && make check && make install) > compile.log

3) Build and executed the test program as described in point 4 @ http://itpp.
sourceforge.net/current/installation.html (itpp.sourceforge.net)

every thing was just fine!!

I still do not understand why using the itpp-external the installation routine
reports that all tests passed meanwhile compiling and linking even the
simplest program does not work. I though that the installation would link all
tests routines against those libraries and hence assert that they are properly
configured. I am certainly missing something here.

BR

GA