Support Requests item #1576013, was opened at 2006-10-12 11:49
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Category: None
Group: v1.0 (example)
>Status: Deleted
Priority: 5
Private: No
Submitted By: R.J.V. Bertin (rjvbertin)
Assigned to: Nobody/Anonymous (nobody)
Summary: threading
Initial Comment:
This is mostly a question. I'm trying to do some multithreaded analysis,
calculating the correlation coefficient of 1 independent dataset (array) with 4
dependent arrays. It'd be nice if that could be done in 4 parallel threads.
As long as I stick to pure Python code (using equivalents to R routines that
can be found in Numpy and SciPy), this works fine. However, when I call R
functions through rpy, a crash will occur at some point, with the error
*** caught segfault ***
address 0x5164000, cause 'memory not mapped'
(this is on Mac OS X 10.4.8), somewhere in Rf_Eval.
Is this because R itself isn't thread-safe? The R/Python wrapper functions I'm
using:
def vvar(a):
v=rpy.r.var(a, na_rm=True)
if isnan(v):
return 0
return v
R_spearmanr=rpy.r('function(a,b){ kk<-cor.test(a,b,method="spearman"); c(
kk$estimate[[1]], kk$p.value) ; }')
I'm taking care to make copies of the arrays I'm correlating when initialising
the threads.
thanks in advance,
René
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