an output (attached below) in which valgrind does not
complain anymore about the use of an uninitialised value.
Cheers,
Berwin
--AZaLVt6Pw+
Content-Type: text/plain
Content-Description: Sample Program
Content-Disposition: inline;
filename="spline.R"
Content-Transfer-Encodi
{Numerical Linear Algebra with Applications in Statistics},
publisher ={Springer-Verlag},
year = 1998,
series = {Statistics and Computing},
address = {New York}
}
Cheers,
Berwin
== Full address
Berwi
ages --- the R input/output given above is cut and
paste. I am not aware of any fiddling with ptions regarding warning
messages by any configurations files anywhere on my linux system; and I
ran the same commands using `R --vanilla' on the linux box and did not
get any warning messages.
,
Berwin
--please do not edit the information below--
Version:
platform = i686-pc-linux-gnu
arch = i686
os = linux-gnu
system = i686, linux-gnu
status =
major = 2
minor = 2.0
year = 2005
month = 10
day = 06
svn rev = 35749
language = R
Locale:
C
Search Path:
.GlobalEnv
--MP_/kvy20nVajVG/n.8m=_ZjLAX
Content-Type: text/plain; charset=US-ASCII
Content-Transfer-Encoding: 7bit
Content-Disposition: inline
On Tue, 7 Oct 2008 19:31:03 +0800
Berwin A Turlach <[EMAIL PROTECTED]> wrote:
> The attached patch (against the current SVN version of R) implements
>
2731787
R>
R> # these should all be 0
R> splfun( seq(0,1, 0.1), deriv=2 )
[1] 0 0 0 0 0 0 0 0 0 0 0
R> splfun( seq(0,1, 0.1), deriv=3 )
[1] 0 0 0 0 0 0 0 0 0 0 0
HTH.
Cheers,
Berwin
=== Full address =
Berwin A Tur
is already sorted
but you reassign the names. Then the partytotal is sorted again and
the plot is produced. But that re-assigning of names lead to the
disconnect between values and names.
Hope this helps.
Cheers,
Berwin
====== Full address
help page of round (?round or
help(round)) suggests yes.
Cheers,
Berwin
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also if I
attach a package. So should may understanding rather be "attaching
a package implies loading it and, hence, if I attach a package,
then .onLoad and .onAttach are both run (with .onLoad presumably
run first?)"?
Cheers,
Berwin
___
t failed on MASS, it terminated with an error and did not update
any of the other packages. Would it be possible to robustify
update.packages behaviour such that it would continue in such
situations with updating the remaining packages?
Cheers,
Berwin
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C? Would patches that do
that be accepted?
answered:
Hmm, I think we'd tend to disagree here. But in any case that
would be a wide issue. Can you address this question to R-core,
please? (or I forward?)
Cheers,
Berwin
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cture was mirrored, but not the files. That was when I decided to
(temporarily) change mirrors.
BDR> Perhaps you (or another user of the unreliable mirror) could
BDR> contribute suitable fixes.
I will look into this when I find some time.
Cheers,
Berwin
__
ate of a package has failed. But then,
shouldn't in that case (by the same argument) all the updates that
have been done already be undone again?
Cheers,
Berwin
++ Transcript of R session
R : Copyright 2005, The R Foundation for St
G'day Luke,
>>>>> "LT" == Luke Tierney <[EMAIL PROTECTED]> writes:
>> On Sat, 27 Aug 2005, Berwin A Turlach wrote:
>>> 3) The final sentence in the section on `Registering S3
>>> methods' is:
>>>
>
tandardize to FALSE. If you
still want to standardize your non constant regressor variables, then
you have to do it yourself and pass the variables as you want them to
gl1ce.
IMO, there is no bug here, the functions were designed to work in this
way.
Cheers,
Berwin
===
le also includes the patch corresponding
to my bugreport #8218
Cheers,
Berwin
Index: src/library/base/man/complex.Rd
===
--- src/library/base/man/complex.Rd (revision 36285)
+++ src/library/base/man/complex.Rd (working co
enlighten me why this
code is working?
Cheers,
Berwin
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. :)
Actually, I am not clear on the following two questions:
1) Should such patches be sent to r-devel, r-bugs or both?
2) Should such patches be sent at all, or should users just wait till
R-core fixes it itself?
Cheers,
Berwin
Index: do
numbers, respectively. Should it
rather be something like (also in view of the next sentence):
When just one parameter is queried, the value of that parameter
is returned as a vector. When two or more parameters are
queried, their values are returned in a list, with the list names
And this had us stunned for some time. On the
other hand:
> ( foo(3) )
[1] 1.442250
So my question is why does R, when "foo(3)" is issued on the command
line, not print the value returned by the function?
Any enlightening comments
G'day Brian,
>>>>> "BDR" == Prof Brian Ripley <[EMAIL PROTECTED]> writes:
BDR> On Fri, 2 Dec 2005, Berwin A Turlach wrote: [...]
>> The second behaviour that I cannot explain was produced by code
>> written by somebody else, nam
ng in the call to g()
within f(). Exactly the situation about which the R language
definition is warning, so this seems to be a different trap than the
one I stepped into
Cheers,
Berwin
Index: src/library/base/man/on.exit.Rd
=
ce load failed for '%s'",
libraryPkgName(package)),call. = FALSE, domain = NA)
1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose =
FALSE)
Execution halted
See section 'System and foreign language interface
ed to gcc 4.0.3 and gfortran. Indeed, running "R CMD
check" with R 2.3.0 produces a 00install.out file in the SCSS.Rcheck
directory that says:
* Installing *source* package 'SCSS' ...
** libs
make[2]: Entering directory `/home/berwin/lang/R/Develop/SCSS/src'
gfortran -f
rs, I am configuring R to be compiled using Openblas and this test
fails for the 64 bit installation, the 32 bit installation seems to
pass all tests.
Happy to provide any more information/context that might be needed.
Cheers,
Berwin
__
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our of round() has changed between R 3.6.2
and the development version. But I do not understand why this test all
of a sudden failed if the results from the last successfully installed
development version of R suggest that the test should be passed.
Thanks in advance for any insight and tips.
C
ommand line with out error to the end, and every day
since then at this crontab'd time.
Looks as if it would be good indeed if R's autoconf script would enable
sse on 32-bit unix systems. :)
Thank you for the solution.
Cheers,
Berwin
___
-09-17
And I have Matrix_0.999375-44.tar.gz in src/library/Recommended of my
source directory.
As you refer to 2.12/recommended, you and Thomas might talk about
different versions when talking about R-devel.
Cheers,
Berwin
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ially, does the PROTECT mechanism and
R_CheckUserInterrupt() play together nicely? Can I call the latter
from code that has objects PROTECT'd? If yes, and the code gets
interrupted, is the worse that happens a warning about a stack
imbalance, or will the R session become &
in
Imports when checking whether all packages used in library() or
require() commands in examples are declared.
Cheers,
Berwin
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G'day all,
sorry, should proof-read better before hitting the send button...
On Mon, 11 Oct 2010 06:06:46 +0800
Berwin A Turlach wrote:
> But then I noticed that for another package I have on R-forge a
> similar note is issued:
> https://r-forge.r-project.org/R/?gr
e, I will think about what versions of
R I want to have installed on my main machine... should probably
also write some scripts that regularly check my packages...
Cheers,
Berwin
ber...@goodenia:/opt/src/R-2-12-branch/src/library/tools/R$
t;
Well, as the part of "Writing R Extensions" that Martin quoted states,
the normal search path is part of the search path used by packages with
name spaces. So if you attach another package via library(), the
normal search path changes and, hence,
`parents(getNamespace("devtools"))' has one more location to report.
Cheers,
Berwin
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same
package will be resolved to the package, and objects cannot be
masked by objects of the same name in the global environment or
in other packages.
I hope this clarifies your remaining doubts about the process.
Cheers,
Berwin
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t the end of a successful INSTALL/check?
Cheers,
Berwin
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th:
R version 2.13.0 Under development (unstable) (2010-12-02 r53747)
and
R version 2.12.0 Patched (2010-12-02 r53747)
and I did not see any different behaviour. The subdirectories src-32/
and src-64/ are created and not deleted.
Thank you very much for your comments/insights.
Cheers,
Berwin
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--arch=name CMD INSTALL --libs-only'
installs only libraries for the specified architecture (as an unwary
user might expect).
Cheers,
Berwin
== Full address
A/Prof Berwin A Turlach Tel.: +61 (8) 6488 3338 (secr)
School of Ma
n the directory vignettes that
Sweave successfully processed. If the directory vignettes contains a
Makefile and subdirectories in which the actual vignettes are, 'R CMD
build' does not run make.
Cheers,
Berwin
__
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G'day Duncan,
On Tue, 12 Jan 2016 07:32:05 -0500
Duncan Murdoch wrote:
> On 11/01/2016 11:59 PM, Berwin A Turlach wrote:
> > G'day all,
> >
> > In Chapter 1.4 (Writing package vignettes) the Writing R Extensions
> > manual states:
> >
> > By
e to be adapted to contain the following
line at the end among the "Hardcoded dependencies":
survival.ts: Matrix.ts
Cheers,
Berwin
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consequence of the match() bug; check here too:
> dv <- data.frame(varé1 = 1:3, varé2 = 3); dv[,"varé2"] <- 2
Error: unexpected input in "dv <- data.frame(var�"
Execution halted
Cheers,
Berwin
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ture):
> XXL <- c(1:9, c(-1,1)*1e300)
> hh <- hist(XXL, "FD")
Error in pretty.default(range(x), n = breaks, min.n = 1) :
invalid 'n' argument
In addition: Warning message:
In pretty.default(range(x), n = breaks, min.n = 1) :
NAs introduced by
G'day all,
On Sat, 18 Jun 2022 22:58:19 +0800
Berwin A Turlach wrote:
> [...] I attach the relevant file from trying to compile R-patched
> during last night's run.
Mmh, on the web-interface to the mailing list I see that the attachment
might have been deleted. Perhaps be
identical(textConnectionValue(out)[2L], "LaTeX"));
close(out)
> ## empty output in R <= 4.2.x
>
>
> ## as.POSIXlt() gave integer overflow
> stopifnot(as.POSIXlt(.Date(2^31 + 10))$year == 5879680L)
Error: as.POSIXlt(.Date(2^31 + 10))$year == 5879680L is not TRUE
d directly, I don't think they can be
taken seriously.
Just my 0.02 (Australian of course).
Cheers,
Berwin
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on't think they can be
taken seriously.
Just my 0.02 (Australian of course).
Cheers,
Berwin
[[alternative HTML version deleted]]
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eturned when an INTEGER is expected creates some confusion. Somewhere
at the start of your routine you have to add a "DOUBLE PRECISION ddot"
statement.
HTH.
Cheers,
Berwin
== Full address
A/Prof Berwin A Turlach
d was missing.
HTH.
Cheers,
Berwin
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ere a way of installing Rcmdr only for the 64-bit primary
sub-architecture? Or do I really have to install the 32-bit versions
of the TCL/Tk libraries and then reinstall R from scratch?
Cheers,
Berwin
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Could kick myself. Well, it is always easier to
find something when one knows what one is looking for... :)
Cheers,
Berwin
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ghts=c(0,rep(1,14),0),
+ start = list(Asym = 3, xmid = 0, scal = 1))
R> nobs(fm3DNase2)
[1] 16
> logLik(fm3DNase2)
'log Lik.' 42.62777 (df=4)
> nobs(logLik(fm3DNase2))
[1] 14
Cheers,
Berwin
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d values for the observations that received a zero weight.
Cheers,
Berwin
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ototype.
The F77_ macros seem to be defined in /include/R_ext/RS.h, and
their sole purpose seems to be to append a _ to the argument if
needed.
Cheers,
Berwin
Index: src/include/R_ext/BLAS.h
===
--- src/include/R_e
broutine to
double complex zdotc
everything works fine and I get as result 14.0, 0.0.
It is long time ago that I was taught (and studied) the FORTRAN 77
standard. But flipping through some books from that time I thing I
have some inkling on what is going on. The "exter
n from the
stack (heap?), that real is than coerced to a double complex when
assigned to retval. Note that while I am pretty sure about the above,
this last paragraph is more speculative. :) But it would explain why
the erroneous code returns 0 on little-endian machines.
HTH.
Che
ystem to find the help
pages on an object, the package that contains the help pages has to be
on the search path AFAIK.
Cheers,
Berwin
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Dear all,
When installing the usual packages that I use, after installing R
3.0.1, I noticed that the installation of some packages that query R about
its configuration did not succeed. The problem is exemplified by:
berwin@bossiaea:~$ R-3.0.1 CMD config CC
/opt/R/R-3.0.1/lib/R/bin/config: 222
s
something stronger than 'make distclean'? Or should the 'r_arch=32' be
dropped in step 1 but step 3 should use 'r_arch=64'?
Essentially, I would like to install 32bit and 64bit builds on my
machines, with one or both as sub-architectures (to
to
install my usual selection of packages in either of those versions.
Loading under correct (and existing) architectures is tested and
packages that query the configuration get the correct answers from `R
CMD config'.
Thank you very much for the help.
Cheers,
, "a"), levels=c("a", "b", "c"))
R> f2 <- factor(c("a", "b", "c", "c", "b", "a"), levels=c("c", "b", "a"))
R> f1==f2
[1] TRUE TRUE TRUE TRUE TRUE TRUE
R&
with version 2.6.0 it
started to do so. The relvant NEWS entry is:
o R CMD check now (by default) attempts to latex the
vignettes rather than just weave and tangle them: this will give a
NOTE if there are latex errors.
Cheers,
Berwin
__
tion as
INTEGER?
Cheers,
Berwin
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G'day Brian,
On Thu, 8 Apr 2010 12:40:45 +0100 (BST)
Prof Brian Ripley wrote:
> On Thu, 8 Apr 2010, Berwin A Turlach wrote:
[...]
> > Thus, given that the port of quadprog existed for quite some time, I
> > am wondering whether it is o.k. to pass R objects with storage m
which contains pertinent examples; in
your case:
R> model.matrix(lm(seq(15) ~ fac, contrasts = list(fac="contr.sum")))
(Intercept) fac1 fac2
1110
2110
3110
4110
5110
61
t i can be numeric, logical, character or empty.
Indexing by factors is allowed and is equivalent to indexing by the
numeric codes (see factor) and not by the character values which are
printed (for which use [as.character(i)]).
Cheers,
Berwin
__
R-d
o colMeans since that provides the
> missing column-wise analog to sd.
That's probably a good idea. What would you suggest should be
mentioned to provide the column-wise analog of `var'?
Cheers,
Berwin
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ents on r-help, I wonder whether this package is one
of those on his list of downright dangerous packages. LOL.
Hope this helps.
Cheers,
Berwin
=== Full address =
Berwin A TurlachTel.: +65 6516 4416 (secr)
D
option is
FALSE.
Perhaps that will help. :)
Cheers,
Berwin
=== Full address =
Berwin A TurlachTel.: +65 6516 4416 (secr)
Dept of Statistics and Applied Probability+65 6516 6650 (self)
Faculty
Linux distribution. (Presumably the same holds for Debian and all
other distributions derived from Debian.)
Cheers,
Berwin
=== Full address =
Berwin A TurlachTel.: +65 6515 4416 (secr)
Dept of Statistics and Ap
whether a warning should be issued in this case too.
Best wishes,
Berwin
Index: src/main/random.c
===
--- src/main/random.c (revision 44639)
+++ src/main/random.c (working copy)
@@ -123,7 +123,7 @@
#def
G'day Martin,
On Mon, 3 Mar 2008 10:16:45 +0100
Martin Maechler <[EMAIL PROTECTED]> wrote:
> >>>>> "BAT" == Berwin A Turlach <[EMAIL PROTECTED]>
> >>>>> on Fri, 29 Feb 2008 18:19:40 +0800 writes:
>
> BAT> while
Dear all,
since a day or two "make dvi" and "make pdf" fails on my machine when I
try to install the latest version of R from scratch. The attached
patch seems to solve this problem.
Cheers,
Berwin
=== Full address ======
On Wed, 5 Mar 2008 21:02:34 +0800
Berwin A Turlach <[EMAIL PROTECTED]> wrote:
> since a day or two "make dvi" and "make pdf" fails on my machine when
> I try to install the latest version of R from scratch. The attached
> patch seems to solve this problem.
Sor
r you want to replace the
(new) R_FINITE()'s rather by ISNA()'s (or something else). One could
also discuss in which order the checks should be made (first generated
number then parameters of distribution or vice versa). But I will
leave this to R-core to decide. :)
> >
G'day Martin and others,
On Mon, 10 Mar 2008 12:06:01 +0100
Martin Maechler <[EMAIL PROTECTED]> wrote:
> >>>>> "BAT" == Berwin A Turlach <[EMAIL PROTECTED]>
> >>>>> on Fri, 7 Mar 2008 23:54:06 +0800 writes:
>
> BAT&
G'day Martin,
On Tue, 11 Mar 2008 18:07:35 +0100
Martin Maechler <[EMAIL PROTECTED]> wrote:
> >>>>> "BAT" == Berwin A Turlach <[EMAIL PROTECTED]>
> >>>>> on Tue, 11 Mar 2008 13:19:46 +0800 writes:
[...]
> BAT&g
0:0)
[1] NA
> prod(rev(0:1000))
[1] NA
It might be better to educate useRs on finite precision arithmetic
than trying to catch such situations. Note, I am saying "better", not
"easier". :-)
Cheers,
Berwin
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t
function is part of the sources that you believe make up your package
source. At the moment, I am leaning towards agreeing with Brian that
the most likely reason for your problem is that the PermTest function
got lost from your sources and is not installed.
Best wishes,
Berwin
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ttp://www.wiwi.uni-bielefeld.de/~wolf/software/relax/relax.html
Cheers,
Berwin
======= Full address =
Berwin A TurlachTel.: +65 6515 4416 (secr)
Dept of Statistics and Applied Probability+65 6515 6650 (s
excluded from lasso2_x.y-z.tar.gz via an
entry in .Rbuildignore but the vignette is distributed and listed under
vignette(). And "R CMD check" on works the .tar.gz file too.
Cheers,
Berwin
=== Full address =
Berwin A Turl
On Tue, 7 Oct 2008 19:31:03 +0800
Berwin A Turlach <[EMAIL PROTECTED]> wrote:
> The attached patch (against the current SVN version of R) implements
> the latter strategy. With this patch applied, "make check
> FORCE=FORCE" passes on my machine. The version of R that
should all be the same
R> splfun( seq(0,1, 0.1), deriv=1 )
[1] 0.2731787 0.2731787 0.2731787 0.2731787 0.2731787 0.2731787
[7] 0.2731787 0.2731787 0.2731787 0.2731787 0.2731787
R>
R> # these should all be 0
R> splfun( seq(0,1, 0.1), deriv=2 )
[1] 0 0 0 0 0 0 0 0 0 0 0
R> splfun( seq(
ial patch that introduced
it. :)
Apologies also for not realising that the bug repository truncates
over long subject line and having thus filed two additional reports.
Will remember that in future.
Best wishes,
Berwin
__
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ot; is spelt "color" (e.g. lines in package:graphics) and
such patches would be applied?
Sorry, couldn't resist. :)
Cheers,
Berwin
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0)
> X-squared = 138.2898, df = NA, p-value = 1e-06
> ...
>
> Also tested the same R version under Windows XP and got the same
> results.
Cheers,
Berwin
=== Full address =
Berwin A Turlach
be
nice if the name of the .Rd files that produces the problem is actually
mentioned. :)
Don't ask me how I found this, let us just say that long live
find-grep-dired in emacs and perseverance (or should that be
stubbornness?)
HTH.
Cheers,
Berwin
===
G'day Brian,
On Fri, 5 Dec 2008 15:35:00 + (GMT)
Prof Brian Ripley <[EMAIL PROTECTED]> wrote:
> On Mon, 1 Dec 2008, Berwin A Turlach wrote:
>
> > G'day Spencer,
> >
> > On Sun, 30 Nov 2008 22:31:54 -0800
> > Spencer Graves <[EMAIL PROTEC
languages
where they matter (Python, makefiles, &c), and some projects (including
R) have style-guides, usually a developer is left with a lot of
flexibility to suit her or his style. But I guess only Spencer knows
why a whitespace at this place was desirable and/or improved
readability.
Cheers,
Berwin
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understand why the order matters for R
code. I could not find anything in the documentation that would
explain this behaviour, or indicate that this is the intended
behaviour.
Enlightening comments and/or pointers to where this behaviour is
documented would be welcome.
Cheers,
Berwin
==
al library and that "make build" first modifies the DESCRIPTION in
the opposite way. But this would still leave concern a).
Cheers,
Berwin
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out. I was aware of cacheSweave, but
that package seems to require that each chunk has a label which I find
kind of inconvenient. weaver does not seem to have such a requirement.
Cheers,
Berwin
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is set up, your PDF file will show up in
library(help=myPackage) and your package will pass "R CMD check" on
CRAN.
HTH.
Cheers,
Berwin
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he above cite part
of GPL-2 and the explicit `"The Program" refers to any copyrightable
work' in GPL-3 seem to indicate that it is possible. Though, I guess
you would still have to state *within* the (source of) vignette that it
is under the GPL.
But then IANAL.
Cheers,
Ber
=rnorm(6))
R> sort(cc)
Error in sort.list(cc) : 'x' must be atomic for 'sort.list'
Have you called 'sort' on a list?
Thus, to make sort(list()) work, you would have to rename the existing
sort.list and then change every call to that function to th
On Mon, 23 Feb 2009 08:52:05 +0100
Wacek Kusnierczyk wrote:
> Berwin A Turlach wrote:
> > G'day Stavros,
>
> >> In many cases, the orthogonal design is pretty straightforward.
> >> And in the cases where the operation is currently an error (e.g.
> >&
On Mon, 23 Feb 2009 11:31:16 +0100
Wacek Kusnierczyk wrote:
> Berwin A Turlach wrote:
> > On Mon, 23 Feb 2009 08:52:05 +0100
> > Wacek Kusnierczyk wrote:
[...]
> >> and you mean that sort.list not being applicable to lists is a)
> >> good design, and b) some
On Mon, 23 Feb 2009 13:27:08 +0100
Wacek Kusnierczyk wrote:
> Berwin A Turlach wrote:
>
>
>
> >> can you give one concrete example, and suggest how to estimate how
> >> much old code would involve the same issue?
> >>
> >
> > Check
On Mon, 23 Feb 2009 20:27:23 +0100
Wacek Kusnierczyk wrote:
> Berwin A Turlach wrote:
> >> [...]
> >> judging from your question, you couldn't possibly see sorting
> >> routines in other languages.
> >>
> >
> > Quite likely, or the ot
On Tue, 24 Feb 2009 09:39:51 +0100
Wacek Kusnierczyk wrote:
> Berwin A Turlach wrote:
[...]
> why not read some fortunes?
I am well aware of those fortunes and maybe you missed the one:
> fortune("Watson")
Getting flamed for asking dumb questions on a public mailing
reform of the
German grammar rules.
Cheers,
Berwin
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