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Also, when having previously installed the software GMAP/GSNAP it seems to add two files in /usr/local/include/ - except.h and assert.h which causes the below errors, until they are removed .
from /home/transcriptomics/software/dropEst/Tools/ReadParameters.cpp:1:
/usr/local/include/except.h:15:32: error: conflicting declaration ‘typedef struct Except_Frame_T* Except_Frame_T’
typedef struct Except_Frame_T *Except_Frame_T;
^
/usr/local/include/except.h:15:16: note: previous declaration as ‘struct Except_Frame_T’
typedef struct Except_Frame_T *Except_Frame_T;
^
/usr/local/include/except.h:17:18: error: field ‘prev’ has incomplete type ‘Except_Frame_T’
Except_Frame_T prev;
^
/usr/local/include/except.h:16:8: note: definition of ‘struct Except_Frame_T’ is not complete until the closing brace
struct Except_Frame_T {
^
CMakeFiles/DropTools.dir/build.make:62: recipe for target 'CMakeFiles/DropTools.dir/Tools/ReadParameters.cpp.o' failed
make[2]: *** [CMakeFiles/DropTools.dir/Tools/ReadParameters.cpp.o] Error 1
CMakeFiles/Makefile2:179: recipe for target 'CMakeFiles/DropTools.dir/all' failed
make[1]: *** [CMakeFiles/DropTools.dir/all] Error 2
Makefile:94: recipe for target 'all' failed
make: *** [all] Error 2
master@transcriptomics:/ho
and
/usr/local/include/assert.h:5:20: fatal error: except.h: No such file or directory
compilation terminated.
CMakeFiles/DropTools.dir/build.make:62: recipe for target 'CMakeFiles/DropTools.dir/Tools/ReadParameters.cpp.o' failed
make[2]: *** [CMakeFiles/DropTools.dir/Tools/ReadParameters.cpp.o] Error 1
CMakeFiles/Makefile2:179: recipe for target 'CMakeFiles/DropTools.dir/all' failed
make[1]: *** [CMakeFiles/DropTools.dir/all] Error 2
Makefile:94: recipe for target 'all' failed
make: *** [all] Error 2
The text was updated successfully, but these errors were encountered:
Not really sure these are issues but might be useful for future reference.
Fixed this by editing line 7 of CMakeLists.txt to include '-fopenmp':
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -fopenmp -m64 -DBOOST_LOG_DYN_LINK -std=c++11 -Wno-attributes -Wno-deprecated -Wno-deprecated-declarations")
Also, when having previously installed the software GMAP/GSNAP it seems to add two files in /usr/local/include/ - except.h and assert.h which causes the below errors, until they are removed .
and
The text was updated successfully, but these errors were encountered: