ariadnesabbag / ibpp Goto Github PK

• Claudia Solís-Lemus, L. Lacey Knowles and Cécile Ané (2014). Bayesian species delimitation combining multiple genes and traits in a unified framework. Evolution 69(2):492-507.

• Ziheng Yang and Bruce Rannala (2010). Bayesian species delimitation using multilocus sequence data. PNAS 107:9264–9269. software.

See the version history for potentially new features.

For a Windows executable and instructions, see here.

To install and compile on Linux or Mac (with Xcode installed):

• download and unzip the package, or clone it using git: git clone https://github.com/cecileane/iBPP.git

• navigate to the source directory: cd iBPP/src/

• compile with gcc -o ibpp -O3 bpp.c tools.c -lm. On Mac OS X, do clang -o ibpp -O3 bpp.c tools.c -lm to request the Apple compiler clang explicitly. With gcc 4.4.7 to 5.4.0, the option -std=c89 is necessary:

  gcc -o ibpp -O3 -std=c89 bpp.c tools.c -lm

  With gcc 6.1.0, an executable is produced but does not work.

• move the executable to a directory in your PATH, typically ~/bin/, to run iBPP from anywhere: mv ibpp ~/bin/

• check that the executable runs on a very short example:

  • navigate to the example folder: cd ../examples/
  • then run ibpp: ibpp 5s.analysis.ctl

A simulation tools is also available as part of the package. To get it, compile with the option

gcc -o ibpp-simul -DSIMULATION -O3 bpp.c tools.c -lm

possibly adding the option -std=c89 depending on your compiler.