The ABINIT Users Mailing List ( CLOSED )

[Aaron <nkleof@gmail.com>]

Dear abinit users:

     I have been trying to install abinit in a Fedora cluster, but have
encountered a installation problem.  After unpacking abinit-5.6.4.tar.gz
successfully, I executed commands in directory abinit-5.6.4/ in accordance 
with
the following sequence:
./config/scripts/makemake
everything was fine in this step, and then:
./configure FC=ifort
configuration completed without error, except a warning like this:
        +--------------------------------------------------------------+
        | About the Intel Fortran compiler                             |
        +--------------------------------------------------------------+
        | Your compiler will work properly only if the LD_LIBRARY_PATH |
        | and INTEL_LICENSE_FILE environment variables are correctly   |
        | set-up. Please make sure that this is the case before        |
        | building ABINIT.                                             |
        |                                                              |
        | In most cases it means sourcing a script in the Intel        |
        | compiler install directory, e.g.:                            |
        |                                                              |
        | . /opt/intel/fc/9.1/bin/ifortvars.sh                         |
        |                                                              |
        | for a Bourne-like shell (do not forget the leading dot), or  |
        |                                                              |
        | source /opt/intel/fc/9.1/bin/ifortvars.csh                   |
        |                                                              |
        | for a C-like shell.                                          |
        |                                                              |
        | If you do not know what this is all about, please refer to   |
        | the Intel documentation or ask your system administrator.    |
        |                                                              |
        | Please note that the same holds for the Intel C and C++      |
        | compilers.                                                   |
        +--------------------------------------------------------------+
I don't know if the LD_LIBRARY_PATH and INTEL_LICENSE_FILE environment
variables are correctly  set-up in my system, though I have checked 
environment
variables and found these:
*************************************************************
declare -x
INTEL_LICENSE_FILE="/home/opt/intel/licenses:/home/opt/intel//fce/10.1.015/licenses:/opt/intel/licenses:/home/mfeng/intel/licenses:/Users/Shared/Library/Application
Support/Intel/Licenses"
declare -x
LD_LIBRARY_PATH="/home/opt/acml/4.0.0/pathscale64/lib:/home/opt/pathscale/lib/3.0:/home/opt/pathscale/lib/3.0/32:/home/opt/intel/impi/3.1/lib64:/home/opt/intel/mkl/10.0.3.020/lib/em64t:/home/opt/intel//fce/10.1.015/lib"
*************************************************************
So I continued to execute command:
make
then errors appeared as following:
**************************************************************
checking for C compiler default output file name...
configure: error: C compiler cannot create executables
See `config.log' for more details.
make[4]: *** [configure-stamp] Error 77
make[4]: Leaving directory `/home/mfeng/abinit/abinit-5.6.4/plugins/netcdf'
make[3]: *** [package-ready] Error 2
make[3]: Leaving directory `/home/mfeng/abinit/abinit-5.6.4/plugins/netcdf'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory `/home/mfeng/abinit/abinit-5.6.4/plugins'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/home/mfeng/abinit/abinit-5.6.4'
make: *** [all] Error 2
**************************************************************
I looked into config.log where I found these:
**************************************************************
conftest.c:16:28: error: ac_nonexistent.h: No such file or directory
configure:9254: $? = 1
configure: failed program was:
| /* confdefs.h.  */
| #define PACKAGE_NAME "ABINIT"
| #define PACKAGE_TARNAME "abinit"
| #define PACKAGE_VERSION "5.6.4"
| #define PACKAGE_STRING "ABINIT 5.6.4"
| #define PACKAGE_BUGREPORT "https://bugs.launchpad.net/abinit/";
| #define PACKAGE "abinit"
| #define VERSION "5.6.4"
| #define ABINIT_VERSION "5.6.4"
| #define ABINIT_VERSION_MAJOR "5"
| #define ABINIT_VERSION_MINOR "6"
| #define ABINIT_VERSION_MICRO "4"
| #define ABINIT_VERSION_BUILD "20081225"
| #define ABINIT_VERSION_BASE "5.6"
| /* end confdefs.h.  */
.........
conftest.c: In function 'main':
conftest.c:34: error: 'not' undeclared (first use in this function)
conftest.c:34: error: (Each undeclared identifier is reported only once
conftest.c:34: error: for each function it appears in.)
conftest.c:34: error: expected ';' before 'big'
configure:11056: $? = 1
configure: failed program was:
| /* confdefs.h.  */
| #define PACKAGE_NAME "ABINIT"
| #define PACKAGE_TARNAME "abinit"
| #define PACKAGE_VERSION "5.6.4"
| #define PACKAGE_STRING "ABINIT 5.6.4"
| #define PACKAGE_BUGREPORT "https://bugs.launchpad.net/abinit/";
| #define PACKAGE "abinit"
| #define VERSION "5.6.4"
| #define ABINIT_VERSION "5.6.4"
| #define ABINIT_VERSION_MAJOR "5"
| #define ABINIT_VERSION_MINOR "6"
| #define ABINIT_VERSION_MICRO "4"
| #define ABINIT_VERSION_BUILD "20081225"
| #define ABINIT_VERSION_BASE "5.6"
| #define GCC_CC 1
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| /* end confdefs.h.  */
| #include <sys/types.h>
| #include <sys/param.h>
|
| int
| main ()
| {
| #if BYTE_ORDER != BIG_ENDIAN
|  not big endian
| #endif
|
|   ;
............
configure:12443: checking whether we are using the GNU Fortran compiler
configure:12462: ifort -c   conftest.F >&5
fortcom: Error: conftest.F, line 3: Syntax error, found END-OF-STATEMENT when
expecting one of: => = . ( : %
       choke me
---------------^
fortcom: Error: conftest.F, line 3: This statement is positioned incorrectly
and/or has syntax errors.
       choke me
---------------^
compilation aborted for conftest.F (code 1)
configure:12468: $? = 1
configure: failed program was:
|       program main
| #ifndef __GNUC__
|        choke me
| #endif
|
|       end
**********************************************************************
As I continued to execute command:
make install
compilation aborted with following errors:
***********************************************************************
ifort -DHAVE_CONFIG_H -I. -I../.. -I../../src/defs -I../../src/defs
-I/home/mfeng/abinit/abinit-5.6.4/plugins/netcdf
-I/home/mfeng/abinit/abinit-5.6.4/plugins/etsf_io
-I/home/mfeng/abinit/abinit-5.6.4/plugins/bigdft   -g -O3 -arch pn4 -tune pn4
-xT -extend_source -vec-report0 -c -o chkdpr.o chkdpr.F90
ifort -DHAVE_CONFIG_H -I. -I../.. -I../../src/defs -I../../src/defs
-I/home/mfeng/abinit/abinit-5.6.4/plugins/netcdf
-I/home/mfeng/abinit/abinit-5.6.4/plugins/etsf_io
-I/home/mfeng/abinit/abinit-5.6.4/plugins/bigdft   -g -O3 -arch pn4 -tune pn4
-xT -extend_source -vec-report0 -c -o chkinp.o chkinp.F90
fortcom: Error: chkinp.F90, line 50: Error in opening the compiled module 
file.
 Check INCLUDE paths.   [ETSF_IO]
 use etsf_io
-----^
compilation aborted for chkinp.F90 (code 1)
make[2]: *** [chkinp.o] Error 1
make[2]: Leaving directory `/home/mfeng/abinit/abinit-5.6.4/src/13iovars'
make[1]: *** [install-recursive] Error 1
make[1]: Leaving directory `/home/mfeng/abinit/abinit-5.6.4/src'
make: *** [install-recursive] Error 1
***************************************************************************
    I hope the problem would not be a serious one and someone could give me
some suggestions.  Any advice is welcome.

Best regards,
Aaron