After a few years break from my dissertation research on coalescent modeling of HIV sequences, I’ve decided to dive in again. I am interested in generating some sequences from coalescent models with various characterestics. Though ms and msHOT from the Hudson lab are what I’ve used previously, I decided to see what else is out there.
The paper describing their methodology can be found here. The files are available here. In the extracted directory simply run “make all”.
I ran into two compilation errors:
I changed uint to int on line 1272 and combined the cout onlines 1273 and 1274 into one line, which fixed the complaints. Then the build complained:
Simply comment out “LINKFLAGS = -static” and everything should happily compile.