Your compilers are intel but you are configuring 'gnu'. Try
configuring with 'intel' instead.
-Dan
On Tue, Jul 5, 2016 at 7:07 AM, bharat gupta <bharat.85.monu.gmail.com> wrote:
> Dear Amber Users,
>
> I am trying to install a separate copy of Amber12+AmberTools13 to patch
> plumed 1.3 for metadynamics study. I copied the installed directory
> (/opt/amber12) to some other location. Then, I issued a "make clean
> uninstall" command in /src and AmberTools/src directories.
>
> After that I checked for mpif90, mpicc, mpiexec, using the following
> commands with there results:
>
> [root.leelab01 amber12]# which mpicc
> /opt/mpi/intel-14.0/openmpi-1.6.5/bin/mpicc
>
> [root.leelab01 amber12]# which mpiexec
> /opt/mpi/intel-14.0/openmpi-1.6.5/bin/mpiexec
>
> [root.leelab01 amber12]# mpif90 -show
> ifort -I/opt/mpi/intel-14.0.3/openmpi-1.6.5/include
> -I/opt/mpi/intel-14.0.3/openmpi-1.6.5/lib
> -L/opt/mpi/intel-14.0.3/openmpi-1.6.5/lib -lmpi_f90 -lmpi_f77 -lmpi -ldl
> -lm -lnuma -Wl,--export-dynamic -lrt -lnsl -lutil
>
> [root.leelab01 amber12]# mpicc -show
> icc -I/opt/mpi/intel-14.0.3/openmpi-1.6.5/include -pthread
> -L/opt/mpi/intel-14.0.3/openmpi-1.6.5/lib -lmpi -ldl -lm -lnuma
> -Wl,--export-dynamic -lrt -lnsl -lutil
>
> Then run the ./configure command for parallel.
>
> [root.leelab01 amber12]# ./configure -mpi gnu
> Checking for updates...
> Checking for available patches online. This may take a few seconds...
>
> Available AmberTools 13 patches:
>
> No patches available
>
> Available Amber 12 patches:
>
> No patches available
> Searching for python2... Found python2.6: /usr/bin/python2.6
>
> Obtaining the gnu suite version:
> gcc -v
> The version is 4.4.7
>
> Testing the gcc compiler:
> gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -o testp testp.c
> OK
>
> Testing the gfortran compiler:
> gfortran -O0 -o testp testp.f
> OK
>
> Testing mixed C/Fortran compilation:
> gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o testp.c.o
> testp.c
> gfortran -O0 -c -o testp.f.o testp.f
> gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -o testp testp.c.o
> testp.f.o -lgfortran -w
> OK
>
> Testing pointer size:
> gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -o test_pointer_size
> test_pointer_size.c
> Detected 64 bit operating system.
>
> Testing flex: OK
>
> Configuring NetCDF (may be time-consuming)...
>
> NetCDF configure succeeded.
>
> Checking for zlib: OK
>
> Checking for libbz2: OK
>
> Configuring fftw-3.3 for mdgx (may be time-consuming)...
>
> fftw-3.3 configure succeeded.
>
> The configuration file, config.h, was successfully created.
>
> The next step is to type 'make install'
>
> Cleaning the src directories. This may take a few moments.
> Configure complete.
>
> =======
>
> Error comes while "make install" command:
>
> csu-umbrella.F90(9): error #7013: This module file was not generated by any
> release of this compiler. [NETCDF]
> use netcdf, only : nf90_double, nf90_float
> ----^
> ncsu-umbrella.F90(66): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [NF90_DOUBLE]
> integer, private, parameter :: coeffs_type = nf90_double
> ---------------------------------------------^
> ncsu-umbrella.F90(79): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [ONE]
> double precision, private, parameter :: MINUS_ONE = -ONE
> -----------------------------------------------------^
> ncsu-umbrella.F90(80): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [ONE]
> double precision, private, parameter :: ONE_THIRD = ONE/THREE
> ----------------------------------------------------^
> ncsu-umbrella.F90(80): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [THREE]
> double precision, private, parameter :: ONE_THIRD = ONE/THREE
> --------------------------------------------------------^
> ncsu-umbrella.F90(82): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [ONE]
> double precision, private, parameter :: ONE_SIXTH = ONE/6
> ----------------------------------------------------^
> ncsu-umbrella.F90(83): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [TWO]
> double precision, private, parameter :: TWO_THIRD = TWO/THREE
> ----------------------------------------------------^
> ncsu-umbrella.F90(83): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [THREE]
> double precision, private, parameter :: TWO_THIRD = TWO/THREE
> --------------------------------------------------------^
> ncsu-umbrella.F90(84): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [ONE]
> double precision, private, parameter :: HALF = ONE/TWO
> -----------------------------------------------^
> ncsu-umbrella.F90(84): error #6592: This symbol must be a defined
> parameter, an enumerator, or an argument of an inquiry function that
> evaluates to a compile-time constant. [TWO]
> double precision, private, parameter :: HALF = ONE/TWO
> ---------------------------------------------------^
> ncsu-umbrella.F90(795): error #7013: This module file was not generated by
> any release of this compiler. [NETCDF]
> use netcdf
> -------^
> ncsu-umbrella.F90(9): error #6580: Name in only-list does not exist.
> [NF90_DOUBLE]
> use netcdf, only : nf90_double, nf90_float
> -------------------^
> ncsu-umbrella.F90(9): error #6580: Name in only-list does not exist.
> [NF90_FLOAT]
> use netcdf, only : nf90_double, nf90_float
> --------------------------------^
> ncsu-umbrella.F90(12): error #6580: Name in only-list does not exist.
> [ZERO]
> use ncsu_constants, only : ZERO, ONE, TWO, THREE, FOUR
> ---------------------------^
> ncsu-umbrella.F90(12): error #6580: Name in only-list does not exist.
> [ONE]
> use ncsu_constants, only : ZERO, ONE, TWO, THREE, FOUR
> ---------------------------------^
> ncsu-umbrella.F90(12): error #6580: Name in only-list does not exist.
> [TWO]
> use ncsu_constants, only : ZERO, ONE, TWO, THREE, FOUR
> --------------------------------------^
> ncsu-umbrella.F90(12): error #6580: Name in only-list does not exist.
> [THREE]
> use ncsu_constants, only : ZERO, ONE, TWO, THREE, FOUR
> -------------------------------------------^
> ncsu-umbrella.F90(12): error #6580: Name in only-list does not exist.
> [FOUR]
> use ncsu_constants, only : ZERO, ONE, TWO, THREE, FOUR
> --------------------------------------------------^
> ncsu-umbrella.F90(122): error #6404: This name does not have a type, and
> must have an explicit type. [ZERO]
> if (.not.(spacing(n).gt.ZERO)) call afailed("ncsu-umbrella.F90", 122)
> ------------------------------^
> ncsu-umbrella.F90(351): error #6404: This name does not have a type, and
> must have an explicit type. [ONE]
> hill = SCALE*(x2 - ONE)**2
> -----------------------^
> ncsu-umbrella.F90(811): error #6404: This name does not have a type, and
> must have an explicit type. [NF90_NOWRITE]
> rc = nf90_open(filename, nf90_nowrite, setid)
> ----------------------------^
> ncsu-umbrella.F90(811): error #6404: This name does not have a type, and
> must have an explicit type. [NF90_OPEN]
> rc = nf90_open(filename, nf90_nowrite, setid)
> --------^
> ncsu-umbrella.F90(814): error #6404: This name does not have a type, and
> must have an explicit type. [NF90_GLOBAL]
> rc = nf90_get_att(setid, nf90_global, 'nextents', nextents)
> ----------------------------^
> ncsu-umbrella.F90(814): error #6404: This name does not have a type, and
> must have an explicit type. [NF90_GET_ATT]
> rc = nf90_get_att(setid, nf90_global, 'nextents', nextents)
> --------^
> ncsu-umbrella.F90(818): error #6406: Conflicting attributes or multiple
> declaration of name. [ERR_UNIT]
> write (unit = ERR_UNIT, fmt = '(/a,a,a,a,'//pfmt(nextents)//',a/)') &
> --------------------^
> ncsu-umbrella.F90(818): error #6404: This name does not have a type, and
> must have an explicit type. [PFMT]
> write (unit = ERR_UNIT, fmt = '(/a,a,a,a,'//pfmt(nextents)//',a/)') &
> --------------------------------------------------^
> ncsu-umbrella.F90(818): error #6054: A CHARACTER data type is required in
> this context. [PFMT]
> write (unit = ERR_UNIT, fmt = '(/a,a,a,a,'//pfmt(nextents)//',a/)') &
> --------------------------------------------------^
> ncsu-umbrella.F90(845): error #6406: Conflicting attributes or multiple
> declaration of name. [ERR_UNIT]
> write (unit = ERR_UNIT, fmt = '(/a,a,a,a,i1,a,i1/)') ' **
> NCSU-Error ** : ', &
> -----------------------^
> ncsu-umbrella.F90(851): error #6406: Conflicting attributes or multiple
> declaration of name. [ERR_UNIT]
> write (unit = ERR_UNIT, fmt = '(/a,a,a,a,i1,a/)') ' ** NCSU-Error
> ** : ', &
> -----------------------^
> ncsu-umbrella.F90(863): error #6404: This name does not have a type, and
> must have an explicit type. [NF90_INQ_DIMID]
> rc = nf90_inq_dimid(setid, 'row-major', dimid)
> --------^
> /tmp/ifortrLxNaj.i90(3796): catastrophic error: Too many errors, exiting
> compilation aborted for ncsu-umbrella.F90 (code 1)
> make[2]: *** [ncsu-umbrella.o] Error 1
> make[2]: Leaving directory `/home/Bharat/Documents/amber12/src/sander'
> make[1]: *** [parallel] Error 2
> make[1]: Leaving directory `/home/Bharat/Documents/amber12/src'
> make: *** [install] Error 2
>
>
> Can anybody please help me to rectify this error?
>
>
> --
> *Best Regards*
> Bharat
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
--
-------------------------
Daniel R. Roe, PhD
Department of Medicinal Chemistry
University of Utah
30 South 2000 East, Room 307
Salt Lake City, UT 84112-5820
http://home.chpc.utah.edu/~cheatham/
(801) 587-9652
(801) 585-6208 (Fax)
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Received on Tue Jul 05 2016 - 07:00:03 PDT
