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#' This is a special R script which can be used to generate a report. You can
#' write normal text in roxygen comments.
#'
#' First we set up some options (you do not have to do this):
#+ setup, include=FALSE
library(knitr)
opts_chunk$set(fig.path='figure/silk-')
#' The report begins here.
#+ test-a, cache=FALSE
# boring examples as usual
set.seed(123)
x = rnorm(5)
mean(x)
#' You can use the special syntax {{code}} to embed inline expressions, e.g.
{{mean(x)+2}}
#' is the mean of x plus 2.
#' The code itself may contain braces, but these are not checked. Thus,
#' perfectly valid (though very strange) R code such as `{{2 + 3}} - {{4 - 5}}`
#' can lead to errors because `2 + 3}} - {{4 - 5` will be treated as inline code.
#'
#' Now we continue writing the report. We can draw plots as well.
#+ test-b, fig.width=5, fig.height=5
par(mar = c(4, 4, .1, .1)); plot(x)
#' Actually you do not have to write chunk options, in which case knitr will use
#' default options. For example, the code below has no options attached:
var(x)
quantile(x)
#' And you can also write two chunks successively like this:
#+ test-chisq5
sum(x^2) # chi-square distribution with df 5
#+ test-chisq4
sum((x - mean(x))^2) # df is 4 now
#' Done. Call spin('knitr-spin.R') to make silk from sow's ear now and knit a
#' lovely purse.
# /* you can write comments between /* and */ like C comments (the preceding #
# is optional)
Sys.sleep(60)
# */
# /* there is no inline comment; you have to write block comments */
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