- a -

• alignPartition() : sw_stage1.cpp

- e -

• executeTraceback() : libmasa.cpp

- g -

• getMasaProcessVmSize() : utils.hpp

- l -

• libmasa_entry_point() : libmasa.cpp , libmasa.hpp

- m -

• main() : MasaNetCLI.cpp , testing.cpp
• main_test() : Configs.cpp
• merge_partitions() : sw_stage4.cpp
• myfunction() : Alignment.cpp

- p -

• processBlock() : sw_stage4.cpp
• processCol() : sw_stage4.cpp
• processPartition() : sw_stage3.cpp

- r -

• reduce_partitions() : sw_stage3.cpp

- s -

• stage1() : sw_stage1.cpp , sw_stage1.h
• stage2() : sw_stage2.h , sw_stage2.cpp
• stage2_pool_send() : sw_stage2.cpp , sw_stage2.h
• stage2_pool_wait() : sw_stage2.h , sw_stage2.cpp
• stage3() : sw_stage3.cpp , sw_stage3.h
• stage4() : sw_stage4.cpp , sw_stage4.h
• stage4_pool_wait() : sw_stage4.cpp , sw_stage4.h
• stage5() : sw_stage5.h , sw_stage5.cpp
• stage6() : sw_stage6.h , sw_stage6.cpp