Hello list,
I use R for microarray analysis.
One procedure I use takes a large matrix, and loops through it looking
for specific rows, does an operation with them, and outputs a result
(single row) as a row of another matrix. The loop goes on about 25000
times.
When I run the loop directly from the R console itself, it takes about
3 minutes in my computer. I'm ok with that.
Now, when that same code is ran from within a GUI we created using
Perl (Tcl/Tkx) it's taking 25-30 minutes to run.
Within the R code I inserted a line so that it writes a little file
every 1000th iteration of the loop, so that I can follow the progress.
I don't understand why it takes 10x longer when ran from Perl.
I am not new to R, but I am new to using it within Perl or any other
language. Is there a way to improve performance? What is the reason
for the slower speed?
I'll happily provide the code if somebody wants it.
thank you.
Jose
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Dr. Jose I. de las Heras Email: j.delashe...@ed.ac.uk
The Wellcome Trust Centre for Cell Biology Phone: +44 (0)131 6513374
Institute for Cell & Molecular Biology Fax: +44 (0)131 6507360
Swann Building, Mayfield Road
University of Edinburgh
Edinburgh EH9 3JR
UK
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