Graham -
Graham Smith wrote:
Below is a function that I am trying to run in orgmode/babel.
It seems to run OK, but instead of printing out three values, its only
printing the final result.
Once again, i would appreciate some help with what I am missing.
Thanks,
Graham
#+srcname: CI_function
#+begin_src R :session daf
summary.ci<-function(x){
xbar<-mean(x)
sigma<-sd(x)
n<-length(x)
sem<-sigma/sqrt(n)
lower.ci<-xbar+sem*qnorm(0.025)
upper.ci<-xbar+sem*qnorm(0.975)
print (xbar)
print (lower.ci)
print (upper.ci)
}
#+end_src
#+srcname: SumFlowering2005
#+begin_src R :session daf
summary.ci(daf$Flower[daf$YEAR=="2005"])
#+end_src
#+results: SumFlowering2005
: 1.97860201016947
From org-babel docs...
The following options are mutually exclusive, and specify how the
results should be collected from the source code block.
------------------------------------------------------
value
This is the default. The result is the value of the last statement
in the source code block. This header argument places Org-babel in
functional mode. Note that in some languages, e.g., python, use of this
result type requires that a return statement be included in the body of
the source code block. E.g., :results value.
output
The result is the collection of everything printed to stdout during
the execution of the source code block. This header argument places
Org-babel in scripting mode. E.g., :results output.
-------------------------------------------------------
So, add ":results output" to your source header block.
Or, you might want to define your R function to return a list of the
three components you're after for further processing, and then not have
to include ":results output"
Instead of the 3 print statements, which don't create objects, you could
substitute
list(xbar, lower.ci, upper.ci)
--Erik
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