Hi Freesurfers,
I tried different ways to compile freesurfer for support cuda 9.1.
Unfortunately, I still cannot get it work.
While I tried to compile a specific module freesurfer/utils where the
errors generated, I got the error message. Any suggestions would be
appreciated!
gcc -DHAVE_CONFIG_H -I. -I.. -I../include -I../include/dicom -I../xml2
-I../include/NrrdIO -DTEEM_DIO=0
-DTEEM_32BIT=0 -DTEEM_QNANHIBIT=1 -DTEEM_ENDIAN=1234 -I../jpeg -I../tiff
-I../expat -I/home/bc/software
/environment/freesurfer_src/centos6-x86_64-packages/itk/current/include/InsightToolkit
-I/home/bc/softwa
re/environment/freesurfer_src/centos6-x86_64-packages/itk/current/include/InsightToolkit/Algorithms
-I/h
ome/bc/software/environment/freesurfer_src/centos6-x86_64-packages/itk/current/include/InsightToolkit/Ba
sicFilters
-I/home/bc/software/environment/freesurfer_src/centos6-x86_64-packages/itk/current/include/In
sightToolkit/Common
-I/home/bc/software/environment/freesurfer_src/centos6-x86_64-packages/itk/current/i
nclude/InsightToolkit/IO
-I/home/bc/software/environment/freesurfer_src/centos6-x86_64-packages/itk/curr
ent/include/InsightToolkit/Numerics
-I/home/bc/software/environment/freesurfer_src/centos6-x86_64-packag
es/itk/current/include/InsightToolkit/Numerics/Statistics
-I/home/bc/software/environment/freesurfer_src
/centos6-x86_64-packages/itk/current/include/InsightToolkit/Review
-I/home/bc/software/environment/frees
urfer_src/centos6-x86_64-packages/itk/current/include/InsightToolkit/Review/Statistics
-I/home/bc/softwa
re/environment/freesurfer_src/centos6-x86_64-packages/itk/current/include/InsightToolkit/SpatialObject
-
I/home/bc/software/environment/freesurfer_src/centos6-x86_64-packages/itk/current/include/InsightToolkit
/Utilities -DHAVE_ITK_LIBS -I../glut -DHAVE_GLUT_LIBS
-I/home/bc/software/environment/freesurfer_src/c
entos6-x86_64-packages/vxl/current/include/vxl/core
-I/home/bc/software/environment/freesurfer_src/cento
s6-x86_64-packages/vxl/current/include/vxl/vcl
-I/home/bc/software/environment/freesurfer_src/centos6-x8
6_64-packages/vxl/current/include/vxl/v3p/netlib
-I/home/bc/software/environment/freesurfer_src/centos6-
x86_64-packages/vxl/current/include/vxl/v3p/netlib/opt
-I/usr/local/cuda/include -DHAVE_ZLIB -g -O3 -mss
e2 -mfpmath=sse -Wall -Wno-unused-but-set-variable -DUSE_SSE_MATHFUN
-fopenmp -DHAVE_OPENMP -m64 -DLinx -DANSI -fdata-sections
-ffunction-sections -Wl,--gc-sections
-I/home/bc/software/environment/freesurfe
r_src/centos6-x86_64-packages/mni/current/include -DFS_CUDA
-I/usr/local/cuda/include -MT libutils_cud
a_a-mrishash.o -MD -MP -MF .deps/libutils_cuda_a-mrishash.Tpo -c -o
libutils_cuda_a-mrishash.o `test -f
'mrishash.c' || echo './'`mrishash.c
mrifilter.c: In function ‘MRIconvolveGaussian’:
mrifilter.c:2618:7: error: ‘width’ undeclared (first use in this function)
if (width <= 1 || height <= 1 || depth <= 1)
^
mrifilter.c:2618:7: note: each undeclared identifier is reported only once
for each function it appears
in
mrifilter.c:2618:21: error: ‘height’ undeclared (first use in this function)
if (width <= 1 || height <= 1 || depth <= 1)
^
mrifilter.c:2618:36: error: ‘depth’ undeclared (first use in this function)
if (width <= 1 || height <= 1 || depth <= 1)
^
Makefile:4419: recipe for target 'libutils_cuda_a-mrifilter.o' failed
make[3]: *** [libutils_cuda_a-mrifilter.o] Error 1
make[3]: *** Waiting for unfinished jobs....
mv -f .deps/libutils_cuda_a-mriprob.Tpo .deps/libutils_cuda_a-mriprob.Po
mv -f .deps/libutils_cuda_a-mrisbiorthogonalwavelets.Tpo
.deps/libutils_cuda_a-mrisbiorthogonalwavelets.
Po
mv -f .deps/libutils_cuda_a-mrisegment.Tpo
.deps/libutils_cuda_a-mrisegment.Po
mv -f .deps/libutils_cuda_a-mrishash.Tpo .deps/libutils_cuda_a-mrishash.Po
mv -f .deps/libutils_cuda_a-mrinorm.Tpo .deps/libutils_cuda_a-mrinorm.Po
mv -f .deps/libutils_cuda_a-mripolv.Tpo .deps/libutils_cuda_a-mripolv.Po
mv -f .deps/libutils_cuda_a-mriset.Tpo .deps/libutils_cuda_a-mriset.Po
make[3]: Leaving directory
'/home/bc/software/environment/freesurfer_src/freesurfer/utils'
Makefile:6230: recipe for target 'all-recursive' failed
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory
'/home/bc/software/environment/freesurfer_src/freesurfer/utils'
Makefile:1060: recipe for target 'all-recursive' failed
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory
'/home/bc/software/environment/freesurfer_src/freesurfer'
Makefile:970: recipe for target 'all' failed
make: *** [all] Error 2
Best,
Foucault
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