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academic/spades

Jul 28th, 2017
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  1. Scanning dependencies of target spades
  2. [ 87%] Building CXX object projects/spades/CMakeFiles/spades.dir/main.cpp.o
  3. In file included from /tmp/SBo/SPAdes-3.10.1/src/projects/spades/main.cpp:14:0:
  4. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp:17:18: error: ‘function’ in namespace ‘std’ does not name a template type
  5. typedef std::function<void()> callback_t;
  6. ^~~~~~~~
  7. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp:21:33: error: expected ‘)’ before ‘const’
  8. segfault_handler(callback_t const &cb = 0) {
  9. ^~~~~
  10. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp:35:12: error: ‘callback_t’ does not name a type; did you mean ‘clock_t’?
  11. static callback_t &callback() {
  12. ^~~~~~~~~~
  13. clock_t
  14. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp: In destructor ‘segfault_handler::~segfault_handler()’:
  15. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp:30:9: error: ‘callback’ was not declared in this scope
  16. callback() = 0;
  17. ^~~~~~~~
  18. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp:30:9: note: suggested alternative: ‘calloc’
  19. callback() = 0;
  20. ^~~~~~~~
  21. calloc
  22. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp: In static member function ‘static void segfault_handler::handler(int)’:
  23. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp:45:17: error: ‘callback’ was not declared in this scope
  24. if (callback())
  25. ^~~~~~~~
  26. /tmp/SBo/SPAdes-3.10.1/src/common/utils/segfault_handler.hpp:45:17: note: suggested alternative: ‘calloc’
  27. if (callback())
  28. ^~~~~~~~
  29. calloc
  30. In file included from /tmp/SBo/SPAdes-3.10.1/src/common/sequence/seq.hpp:38:0,
  31. from /tmp/SBo/SPAdes-3.10.1/src/common/sequence/sequence.hpp:16,
  32. from /tmp/SBo/SPAdes-3.10.1/src/common/io/reads/single_read.hpp:12,
  33. from /tmp/SBo/SPAdes-3.10.1/src/common/utils/indices/edge_position_index.hpp:11,
  34. from /tmp/SBo/SPAdes-3.10.1/src/common/pipeline/graph_pack.hpp:10,
  35. from /tmp/SBo/SPAdes-3.10.1/src/projects/spades/launch.hpp:12,
  36. from /tmp/SBo/SPAdes-3.10.1/src/projects/spades/main.cpp:15:
  37. /tmp/SBo/SPAdes-3.10.1/src/common/sequence/nucl.hpp: In member function ‘bool nucl_complement_functor::operator()(char) const’:
  38. /tmp/SBo/SPAdes-3.10.1/src/common/sequence/nucl.hpp:84:19: warning: ?: using integer constants in boolean context [-Wint-in-bool-context]
  39. return cc ? cc : 'N';
  40. ~~~^~~~~~~~~~
  41. make[2]: *** [projects/spades/CMakeFiles/spades.dir/build.make:63: projects/spades/CMakeFiles/spades.dir/main.cpp.o] Error 1
  42. make[1]: *** [CMakeFiles/Makefile2:1798: projects/spades/CMakeFiles/spades.dir/all] Error 2
  43. make: *** [Makefile:152: all] Error 2
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