You asked, "Where and what is Bioconductor... ." See: www.bioconductor.org

spencer graves

Ross Boylan wrote:
Thanks for your response.  Is good to know that copying is lazy, but I
don't think that fully solves my problems.  See below.

On Thu, 2003-09-11 at 17:40, Thomas Lumley wrote:
.....

you see that unpacking b from a didn't result in a copy, and that b must
just be a reference to a$m.  When b is modified it must be copied, but
this is true whether or not it is in a list. What matters is whether there
is another reference to it somewhere [actually, whether R thinks there
*might* be another reference: we try to be a bit conservative about this].



I'm thinking of a situation like
a <- array(0, dim=c(10000, 10))
and then I modify a one row at a time.
a[34,] <- newrow
So if I write directly to a, I just overwrite the row.
But if I make a copy, even a lazy one, when I change the row I have to
make a copy of the whole array (unless the laziness is really clever,
and your figures suggest that a single write causes the whole thing to
be copied).

Hmm, now that I think of it I suppose I could just return newrow from
the inner function... except I have inner functions that produce several
rows, with inner inner functions that do single rows...


Now, it is certainly possible that you could have a situation where
assigning with <<- was really faster than passing back a list, by enough
to matter.  I think this situation is unusual enough that there may not be
a firm idea of `good R style', since it assumes that the objects are small
enough to fit easily in memory but large enough that it's worth going to
some effort to reduce copying. You might get more useful input from the
Bioconductor list, where people tend to spend a lot of time doing
computationally expensive things to medium-sized data sets.


Where and what is the Bioconductor list?

I suppose optimization is one traditional reason to break style
guidelines.

______________________________________________
[EMAIL PROTECTED] mailing list
https://www.stat.math.ethz.ch/mailman/listinfo/r-help

______________________________________________ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help

Reply via email to