Amber12 is up to date

Searching for python2... Found python2.6: /usr/bin/python2.6
   Detected icc version 11
   Detected ifort version 11

Testing the icc compiler:
     icc  -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE  -o testp testp.c
OK

Testing the ifort compiler:
     ifort  -O0 -o testp testp.f
OK

Testing mixed C/Fortran compilation:
     icc  -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE  -c -o testp.c.o testp.c
     ifort  -O0 -c -o testp.f.o testp.f
     icc  -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -o testp testp.c.o testp.f.o -L/opt/intel/Compiler/11.1/046/lib/intel64/ -lifport -lifcore -lsvml
OK

Testing pointer size:
     icc  -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
Skipping configuration of FFTW3
 
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.
[kshatresh@ensemble amber12]$ vi configure.log
[kshatresh@ensemble amber12]$ make install >make_parallel.log $
make: *** empty variable name.  Stop.
[kshatresh@ensemble amber12]$ make install > log
nblist.c(883): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: totpair) \
          ^

eff.c(24): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: e_cons) private (i, rx, ry, rz, rw)
          ^

eff.c(90): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: e_bond) \
          ^

eff.c(180): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: e_theta) \
          ^

eff.c(336): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: e_tors) \
          ^

eff.c(968): warning #161: unrecognized #pragma
  #pragma omp parallel \
          ^

eff.c(1037): warning #161: unrecognized #pragma
  #pragma omp for schedule(dynamic, blocksize)
          ^

eff.c(1561): warning #161: unrecognized #pragma
  #pragma omp parallel \
          ^

eff.c(1602): warning #161: unrecognized #pragma
  #pragma omp for schedule(dynamic, blocksize)
          ^

eff.c(1754): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: epol, elec, evdw, evdwnp) \
          ^

eff.c(1847): warning #161: unrecognized #pragma
  #pragma omp for schedule(dynamic, blocksize)
          ^

eff.c(2115): warning #161: unrecognized #pragma
  #pragma omp parallel \
          ^

eff.c(2172): warning #161: unrecognized #pragma
  #pragma omp for schedule(dynamic, blocksize)
          ^

egbr6.c(136): warning #161: unrecognized #pragma
  #pragma omp parallel \
          ^

egbr6.c(302): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: epol, elec, evdw) \
          ^

egbr6.c(610): warning #161: unrecognized #pragma
  #pragma omp parallel \
          ^

sff2.c(2694): warning #161: unrecognized #pragma
  #pragma omp parallel \
          ^

sff2.c(3421): warning #161: unrecognized #pragma
  #pragma omp parallel reduction (+: epol, elec, evdw, evdwnp) \
          ^

sff2.c(4756): warning #161: unrecognized #pragma
  #pragma omp barrier
          ^

sff2.c(6447): warning #161: unrecognized #pragma
  #pragma omp parallel private (i, j, i3, ii, jj, in9, threadnum, numthreads)
          ^

sff2.c(6626): warning #161: unrecognized #pragma
  #pragma omp parallel private (k, j, kk, jj, threadnum, numthreads)
          ^

sff2.c(6651): warning #161: unrecognized #pragma
  #pragma omp for
          ^

ar: creating /export/home/kshatresh/amber12//lib/libsff_mpi.a
ar: creating libpbsa.a
main.o: In function `main':
main.c:(.text+0x3cf): warning: the use of `mktemp' is dangerous, better use `mkstemp'
/export/home/kshatresh/amber12//bin/yacc: 3 shift/reduce conflicts.
y.tab.c(800): warning #177: label "yynewerror" was declared but never referenced
  yynewerror:
  ^

y.tab.c(805): warning #177: label "yyerrlab" was declared but never referenced
  yyerrlab:
  ^

./parse:  82 symbols.
./parse:  19 types, lastuser = 14, v_error = 14.
./parse:   9 classes.
./parse:   8 kinds.
./parse:   4 accesses.
./parse:  27 attributes.
./parse:  40 rules.
./parse:  40 used symbols.
./parse:  15 used types.
./parse:   7 used classes.
./parse:   7 used kinds.
./parse:   0 errors.
database.c(430): warning #167: argument of type "int (*)()" is incompatible with parameter of type "__compar_fn_t"
  		sizeof(DICT_ENTRYt), ziDictKeyCompare );
  		                     ^

ar: creating libnab.a
/bin/mv: cannot move `build/lib.linux-x86_64-2.6/mpi4py' to `/export/home/kshatresh/amber12//bin/mpi4py': Directory not empty
ar: creating libsqm.a
ar: creating libFpbsa.a
ncsu-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(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 #6406: Conflicting attributes or multiple declaration of name.   [ZERO]
      if (.not.(spacing(n).gt.ZERO)) call afailed("ncsu-umbrella.F90", 122)
------------------------------^
ncsu-umbrella.F90(140): error #6406: Conflicting attributes or multiple declaration of name.   [ZERO]
   this%coeffs(1:ncoeffs) = ZERO
----------------------------^
ncsu-umbrella.F90(351): error #6406: Conflicting attributes or multiple declaration of name.   [ONE]
    hill = SCALE*(x2 - ONE)**2
-----------------------^
ncsu-umbrella.F90(475): error #6406: Conflicting attributes or multiple declaration of name.   [ZERO]
   v = ZERO
-------^
ncsu-umbrella.F90(493): error #6406: Conflicting attributes or multiple declaration of name.   [ONE]
      m4v_prod = ONE
-----------------^
ncsu-umbrella.F90(553): error #6406: Conflicting attributes or multiple declaration of name.   [ZERO]
   v = ZERO
-------^
ncsu-umbrella.F90(556): error #6406: Conflicting attributes or multiple declaration of name.   [ZERO]
      dv(i) = ZERO
--------------^
ncsu-umbrella.F90(573): error #6406: Conflicting attributes or multiple declaration of name.   [ONE]
      m4v_prod = ONE
-----------------^
ncsu-umbrella.F90(576): error #6406: Conflicting attributes or multiple declaration of name.   [ONE]
         m4dv_prod(i) = ONE
------------------------^
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)
--------^
(3604): catastrophic error: Too many errors, exiting
compilation aborted for ncsu-umbrella.F90 (code 1)
make[2]: *** [ncsu-umbrella.o] Error 1
make[1]: *** [parallel] Error 2
make: *** [install] Error 2