aggregateOutput: Aggregate Output Over Landscape
In MGDrivE: Mosquito Gene Drive Explorer

This function aggregates the output of a run over the entire output, i.e., all of the patches. It writes the output one level above the folder pointed to by readDir, if writeDir is NULL. Output consists of 2 csv files, one for males and one for females, "...M_LandscapeAgg_Run...csv".

1	aggregateOutput(readDir, writeDir=NULL)

`readDir`	Directory where output was written to
`writeDir`	Directory to write output to. Default is one level above readDir

## Not run: 
# This assumes user has run MGDrivE and output is in fPath.
#  See vignette for examples on how to run MGDrivE

# read/write dirs
fPath <- "folder/containing/output"
oPath <- "folder/to/write/stuff"

# first, split output by patch and aggregate females by mate genotype
# remember, cube is for example and changes with simulation
#  landscape aggregation will work if females are not aggregated, but it's slower
cube <- cubeMendelian()

splitOutput(readDir = fPath, writeDir = NULL, remFile = TRUE)
aggregateFemales(readDir= fPath, writeDi = NULL, genotypes = cube$genotypesID,
                 remFile = TRUE)

# aggregate mosquitoes over entire landscape
#  no return value
aggregateOutput(readDir = fPath, writeDir = NULL)

## End(Not run)