It's definitely possible. It's also somewhat annoying. If you
actually have made an R module, you could do
r.install_packages(stuff with the repo mentioned)
r.library('my_module')
and that might be the easiest way to gain access. Unfortunately, it's
not very easy to use user-defined functions (or R library ones) with
optional arguments using the r.foo() syntax.
Here is an example of something I've (successfully) used. I've
removed stuff that isn't about getting stuff out of R to make it more
readable. I've already installed and loaded the orloca and depth
libraries of R here, so you are seeing the sort of syntax one has to
use, particularly because R doesn't always return things in Python-
friendly packages when one uses r.eval()
Good luck!
def MCBC(prof,algorithm='w'): # the function that gets the
mediancentres from a profile
if algorithm in ['w','g']: # Weiszfeldt or gradient methods
for k in range(6):
exes += [cos(k*npi/3)]
whys += [sin(k*npi/3)]
Z =
r.eval('zsummin(loca.p(c(%s),c(%s),c(%s)),max.iter=400,algorithm="\
%s")'%(str(exes)[1:-1],str(whys)[1:-1],str(prof)[1:-1],algorithm))
Z = Z.split()
return (RR(Z[1]),RR(Z[2]))
if algorithm in ['depth','depth2']:
for k in range(6):
exes += prof[k]*[cos(k*npi/3)]
whys += prof[k]*[sin(k*npi/3)]
if algorithm=='depth':
Z =
r.eval('med(matrix(c(%s),ncol=2),maxit=400,method="Spatial")'%str(exes
+whys)[1:-1]) # Note optional arguments maxit=200 and eps=1e-8 can be
changed
if algorithm=='depth2':
r.eval('spamed=function(x){list(median
= .Fortran("medctr78", as.numeric(x), med = numeric(length(x[1, ])),
as.integer(length(x[, 1])), as.integer(length(x[1, ])), integer(1),
err = integer(1), PACKAGE = "depth")$med)}')
Z = r.eval('spamed(matrix(c(%s),ncol=2))'%str(exes+whys)
[1:-1])
Z = Z.splitlines()[1].split() # this returns only the [1] 1 0
part of the string as a list of strings
return (RR(Z[1]),RR(Z[2])) # do something like this to account
for floating point error, though certainly this is one of the most
naive things one could do
On Mar 21, 2:08 pm, Kirill Vankov <kirill.van...@gmail.com> wrote:
> Suppose I have some R code with some functions defined. I would like
> to be able to call these functions within SAGE. I did not find any
> examples of someone doing so and I was not able to do so myself...
>
> I understand how to initiate R session within SAGE and within notebook
> cell, however, it is not what I want. I want to create variables in
> SAGE, call my own R function passing SAGE variables and use the
> outputs again in SAGE. There are quite many functions in my R
> library, therefore I want to avoid rewriting all the code in SAGE.
>
> Any hints how to do that?
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