Compiling clearcut
clearcut is the reference implementation for Relaxed Neighbor Joining.[1]
Installed Version♯
clearcut 1.0.9 is installed on Proteus. Load the module:
clearcut/gcc/1.0.9
Modifying the Makefile♯
Modify the Makefile to use gcc:
CC = gcc
and adjust the optimization flags:
CFLAGS = -O3 -Wall -funroll-loops -fomit-frame-pointer -ffast-math -momit-leaf-frame-pointer -mavx -mfpmath=sse