- \item{execname}{a character string specifying the name of the PHYML
- binary file. This argument can be left missing under Windows: the
- default name \code{"phyml_w32"} will then be used.}
- \item{path2exec}{a character string giving the path to the PHYML
- binary file. If \code{NULL} the file must be accessible to R (either
- it is in the computer path, or it is in R's working directory).}
+ \item{execname}{a character string specifying the name of the PhyML
+ executable. This argument can be left as \code{NULL} if PhyML's
+ default names are used: \code{"phyml_3.0_linux32"},
+ \code{"phyml_3.0_macintel"}, or \code{"phyml_3.0_win32.exe"}, under
+ Linux, MacOS, or Windows respectively.}
+ \item{append}{a logical indicating whether to erase previous PhyML
+ output files if present; the default is to not erase.}