compile issue

[conchoecia]

Hello, ran into this problem with make today:

g++ -Wall -O3 -m64 -static -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11  -c kmer_counter/kmer_counter.cpp -o kmer_counter/kmer_counter.o
In file included from /usr/local/include/assert.h:5:0,
                 from /usr/include/c++/5/cassert:43,
                 from kmer_counter/radix.h:13,
                 from kmer_counter/kb_collector.h:18,
                 from kmer_counter/kmc.h:26,
                 from kmer_counter/kmer_counter.cpp:18:
/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 {
        ^
makefile:79: recipe for target 'kmer_counter/kmer_counter.o' failed
make: *** [kmer_counter/kmer_counter.o] Error 1

[marekkokot]

Hi,

Sorry for the late response. I am not sure what causes this issue, I am not able to reproduce it. After a while of googling I was able to find this thread: https://github.com/isovic/graphmap/issues/77

Maybe the following will help: https://github.com/isovic/graphmap/issues/77#issuecomment-342840966 but I am not sure, notice the warning.

Let me know if you were able to solve the problem.

[conchoecia]

No worries - I was never able to get it to compile, but I just downloaded one the binaries from the main KMC website and got that to run fine. I'll leave the issue open but feel free to close it if you'd like?

[marekkokot]

Ok. Thanks for the info and for using KMC. In case of any other questions don't hesitate and ask.