I got some helpful feedbacks from Jon Meredith about the errors encountered
during my previous runs:

I don't have a Windows environment available to replicate your work with,
but it looks a bit like the R script is being interpreted as a shell script
rather than as Rscript

You may have soem more mileage running Rscript directly.
    /path/to/Rscript priv/summary.r -i tests/current

The inputs from Jon are very helpful and now I am able to run the command to
generate benchmark graphs, such as the following example output below.
Thanks for the good info from Jon.

$ "C:/Program Files/R/R-3.0.1/bin/x64/Rscript" priv/summary.r -i
tests/20130716_013808
[1] "plyr"
Loading required package: plyr
[1] "grid"
Loading required package: grid
[1] "getopt"
Loading required package: getopt
[1] "proto"
Loading required package: proto
[1] "ggplot2"
Loading required package: ggplot2
Loading required package: methods
[1] 0
[1] 85.96346
geom_smooth: method="auto" and size of largest group is <1000, so using
loess. Use 'method = x' to change the smoothing method.
geom_smooth: method="auto" and size of largest group is <1000, so using
loess. Use 'method = x' to change the smoothing method.
geom_smooth: method="auto" and size of largest group is <1000, so using
loess. Use 'method = x' to change the smoothing method.
geom_smooth: method="auto" and size of largest group is <1000, so using
loess. Use 'method = x' to change the smoothing method.
geom_smooth: method="auto" and size of largest group is <1000, so using
loess. Use 'method = x' to change the smoothing method.
geom_smooth: method="auto" and size of largest group is <1000, so using
loess. Use 'method = x' to change the smoothing method.
geom_smooth: method="auto" and size of largest group is <1000, so using
loess. Use 'method = x' to change the smoothing method.
null device
          1




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