The ABINIT Users Mailing List ( CLOSED )

[Myrta Grüning <Myrta.Gruning@uclouvain.be>]

Hallo Aaron

Sorry... maybe I was too fast in reading the log of your make.
Try as well to configure with --disable-etsf-io.
To be sure you can do a make distclean before configuring again.

If you still have problems consider to disable all new features:

--disable-netcdf --disable-etsf-io --disable-bigdft --disable-wannier90

you can read more about in the letter accompanying the release
http://www.abinit.org/package/?text=5_6_4

Good luck

m



On Thu, December 25, 2008 12:30 pm, °¢»ð wrote:
> hallo Myrta,
>     Thank you for your advice.  I have tried reconfiguring with
> --disable-netcdf, and I have checked with ./configure --help that the key
> is
> correct.  Disappointing that the key had no effect on the problem.  Errors
> appeared just like before.
>     Could it be related to authority?  I don't have root power.  The
> compilation was done in my own directory.
>
> 2008/12/25 Myrta Grüning <Myrta.Gruning@uclouvain.be>
>
>> Hallo Aaron,
>>
>> the "About Intel Fortran Compiler" is indeed a message/warning that
>> appears every time you choose ifort and it does not imply that the
>> configure process failed.
>> It seems however that you have problem with the netcdf libraries.
>> NETCDF support is very useful, but at the moment not essential.
>> You can try to reconfigure abinit disabling netcdf (--disable-netcdf or
>> --enable-netcdf=no, check with ./configure --help if those keys are
>> correct). Then try again make to see if it works. I hope it does.
>>
>> m
>>
>>
>> On Thu, December 25, 2008 5:14 am, Aaron wrote:
>> > 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
>> >
>>
>>
>> ****************************************************
>> Dr. Myrta Gruning
>> Université Catholique de Louvain
>> SE/FSA/MAPR/PCPM
>> Pl. Croix du Sud 1
>> 1348 - Louvain-la-Neuve (Belgium)
>>
>> tel  : +32 (0)10/47 3568
>> fax  : +32 (0)10/47 3452
>> email: myrta.gruning@uclouvain.be
>> url  : http://www.myrta.eu
>>
>>
>


****************************************************
Dr. Myrta Gruning
Université Catholique de Louvain
SE/FSA/MAPR/PCPM
Pl. Croix du Sud 1
1348 - Louvain-la-Neuve (Belgium)

tel  : +32 (0)10/47 3568
fax  : +32 (0)10/47 3452
email: myrta.gruning@uclouvain.be
url  : http://www.myrta.eu