Hi, I'm trying to use RAxML to do the phylogenetic analysis for my data. I'd like to compile it on my mac. By following the guidebook, I use command "makefile" to compile Makefile.AVX2.gcc, but RAxML seems not installed successfully because when I type "raxmlHPC", it returned "command not found". There're a lot of Makefile* in my folder: Makefile.AVX2.gcc Makefile.AVX2.HYBRID.gcc Makefile.AVX2.mac Makefile.AVX2.MPI.gcc Makefile.AVX2.PTHREADS.gcc Makefile.AVX2.PTHREADS.mac . And the same format for SSE3. I don't know which one to choose to do makefile.
I read the README instruction, there are three different version corresponding to different Makefile (Sequential version; Pthreads version and Coarse-grain MPI version), My mac was bought in 2016 so it's pretty new, can anybody tell how to install RAXML here successfully? Thank you very much.
Have you installed a compiler? Does the make command execute without errors? Are RAxML binaries being created? If yes, then you just need to add them to your $PATH, i.e. you need to tell your shell about them. It doesn't just automagically know where everything is..