#Introduction NREVanalysis is used to check (and generate) the best phylogenetic tree, where GTR is favoured compared against NREV6 and NREV12 models ##Installation At the moment, only Linux is supported
HYPHY have released a Windows binary, so it is possible to port to Windows (this was a previous limitation)
run the following in the terminal (will need sudo privileges; bash sometimes optional)
bash installRequiredLibs
bash installHyPhy
####FastTree Try provided binaries:
- type in the terminal:
<full directory>/FastTree
or<full directory>/FastTreeMP
(e.g. if NREVanalysis is located in Documents folder then open a terminal and type~/Documents/NREVanalysis/FastTree/FastTreeMP)
- if the response is multiple lines (i.e. shows how to use the program) then the file is compatible with the system
- the first output line should be 'Usage for FastTree version...' etc.
- if there is an error such as cannot find the command or must install the program, compile by running:
bash installFastTree
(see file in editor for details) - if you'd like FastTree to be slightly more accurate in generating the initial tree, recompile FastTree with -DUSE_DOUBLE
finally run:
javac *.java
Alternative, run
bash install
which does the previous steps for you, but will build FastTree explicitly