On 5 December 2012 15:41, case <case.biomaps.rutgers.edu> wrote:
> On Wed, Dec 05, 2012, Thomas Evangelidis wrote:
> >
> > Do you know what this error means and how can be solved? I use Fedora 17
> > 64bit with gcc and gfortran 4.7.2.
> >
> > ./configure -cuda gnu
> > make install
> > ...
> > ...
> > gfortran -DBINTRAJ -DDIRFRC_EFS -DDIRFRC_COMTRANS -DDIRFRC_NOVEC
> > -DFFTLOADBAL_2PROC -DPUBFFT -O3 -mtune=native -DCUDA -Duse_SPFP
> > -I/home/thomas/Programs/amber12/include -c binrestart.F90
> > binrestart.F90:48.7:
> >
> > use netcdf
> > 1
> > Fatal Error: File 'netcdf.mod' opened at (1) is not a GFORTRAN module
> file
>
> Have you been using other compilers before? I suspect that you just need
> to
> go to $AMBERHOME/include and remove any netcdf.* files you find there.
>
> I'm not sure why the configure script is not doing this, but see if it
> helps.
>
>
Yes, I had remnants of the old 3.4 version. I did a clean install with just
gcc and gfortran 4.7.2. The serial programs were installed successfully,
but when I compile serial cuda I get a long error message:
/usr/local/cuda/bin/nvcc -use_fast_math -gencode arch=compute_13,code=sm_13
-gencode arch=compute_20,code=sm_20 -gencode arch=compute_30,code=sm_30
-DCUDA -Duse_SPFP -I/usr/local/cuda/include -IB40C -IB40C/KernelCommon -c
kNLRadixSort.cu
B40C/radixsort_single_grid.cu: In instantiation of ‘cudaError_t
b40c::SingleGridRadixSortingEnactor<K,
V>::EnactSort(b40c::MultiCtaRadixSortStorage<K, V>&) [with int
LOWER_KEY_BITS = 12; K = unsigned int; V = unsigned int; cudaError_t =
cudaError]’:
kNLRadixSort.cu:39:48: required from here
B40C/radixsort_single_grid.cu:282:1: error: ‘GetWorkDecomposition’ was not
declared in this scope, and no declarations were found by
argument-dependent lookup at the point of instantiation [-fpermissive]
B40C/radixsort_single_grid.cu:282:1: note: declarations in dependent base
‘b40c::MultiCtaRadixSortingEnactor<unsigned int, unsigned int,
b40c::MultiCtaRadixSortStorage<unsigned int, unsigned int> >’ are not found
by unqualified lookup
B40C/radixsort_single_grid.cu:282:1: note: use ‘this->GetWorkDecomposition’
instead
B40C/radixsort_single_grid.cu:291:1: error: ‘PreSort’ was not declared in
this scope, and no declarations were found by argument-dependent lookup at
the point of instantiation [-fpermissive]
B40C/radixsort_single_grid.cu:291:1: note: declarations in dependent base
‘b40c::MultiCtaRadixSortingEnactor<unsigned int, unsigned int,
b40c::MultiCtaRadixSortStorage<unsigned int, unsigned int> >’ are not found
by unqualified lookup
B40C/radixsort_single_grid.cu:291:1: note: use ‘this->PreSort’ instead
B40C/radixsort_single_grid.cu: In instantiation of ‘cudaError_t
b40c::SingleGridRadixSortingEnactor<K,
V>::EnactSort(b40c::MultiCtaRadixSortStorage<K, V>&) [with int
LOWER_KEY_BITS = 16; K = unsigned int; V = unsigned int; cudaError_t =
cudaError]’:
kNLRadixSort.cu:46:48: required from here
B40C/radixsort_single_grid.cu:282:1: error: ‘GetWorkDecomposition’ was not
declared in this scope, and no declarations were found by
argument-dependent lookup at the point of instantiation [-fpermissive]
B40C/radixsort_single_grid.cu:282:1: note: declarations in dependent base
‘b40c::MultiCtaRadixSortingEnactor<unsigned int, unsigned int,
b40c::MultiCtaRadixSortStorage<unsigned int, unsigned int> >’ are not found
by unqualified lookup
B40C/radixsort_single_grid.cu:282:1: note: use ‘this->GetWorkDecomposition’
instead
B40C/radixsort_single_grid.cu:291:1: error: ‘PreSort’ was not declared in
this scope, and no declarations were found by argument-dependent lookup at
the point of instantiation [-fpermissive]
(and the stack trace continues...)
thanks,
Thomas
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Received on Wed Dec 05 2012 - 08:00:03 PST
