similar to: Compilation error with R-devel_2007-08-12.tar.gz snapshot

Hi, On Windows, with last R-devel tarball (r40647) from ftp://ftp.stat.math.ethz.ch/Software/R/R-devel_2007-02-04.tar.gz I get the following build error: E:\biocbld\bbs-2.0-bioc\R\src\gnuwin32> make ... ... ---------- Making package utils ------------ adding build stamp to DESCRIPTION installing NAMESPACE file and metadata installing R files Error in namespaceExport(ns, exports) :

Hi, I'm part of the team that runs the Bioconductor project http://bioconductor.org/ and we've used rsync successfully so far for a lot of different things in particular for moving the hundreds of packages that we build and check every day thru our build system pipe (which is made of several build nodes running different OSes, see our daily build report here:

Hi, I was playing around with inotifywait (great tool!) to see the new staged installation of source packages in action. In one terminal I'm monitoring the create/delete/move events of the installation library with: ? inotifywait -m --timefmt '%F %T' --format '%T -- %w %e %f' -e create -e delete -e move path/to/R/library/ While in another terminal I install CRAN package

Hi, cbind() doesn't seem to like raw vectors: > df <- cbind(a=integer(4000), b=raw(4000)) > df *** glibc detected *** /home/hpages/R-2.13.1/bin/exec/R: malloc(): memory corruption: 0x0000000002d73ca0 *** ======= Backtrace: ========= /lib/x86_64-linux-gnu/libc.so.6(+0x79d7a)[0x7f3592b91d7a] /lib/x86_64-linux-gnu/libc.so.6(__libc_malloc+0x6e)[0x7f3592b9431e]

On 4/25/19 04:57, Tomas Kalibera wrote: > On 4/25/19 3:11 AM, Pages, Herve wrote: >> Hi, >> >> I was playing around with inotifywait (great tool!) to see the new >> staged installation of source packages in action. In one terminal I'm >> monitoring the create/delete/move events of the installation library >> with: >> >> ? ? inotifywait -m

Fine with me as long as eliminating the inconveniences associated with it can be put on the roadmap. The alias instability and the fact that the user has no way to know if s/he should do ?`foo,numeric-method` or ?`foo,numeric,ANY-method` to find the method has been a long-standing problem. H. On 3/21/19 21:29, Michael Lawrence wrote: If we started over, I'd try to avoid this sort of

Gabe, It's the current behavior of paste() that is a major source of bugs: ## Add "rs" prefix to SNP ids and collapse them in a ## comma-separated string. collapse_snp_ids <- function(snp_ids) paste("rs", snp_ids, sep="", collapse=",") snp_groups <- list( group1=c(55, 22, 200), group2=integer(0), group3=c(99,

Hi Michael, Thanks for looking into this. I suspect that truncation of ANY suffixes from method signatures is also the culprit behind the sudden breakage of aliases of the form \alias{foo,numeric-method} when a method without the ANY suffix in its signature gets added to the ecosystem. See my post about this to the Bioc-devel mailing list a couple of months ago:

Hi, Recently added to doc/NEWS.Rd: 'R CMD check' now gives a warning rather than a note if it finds inefficiently compressed datasets. With 'bzip2' and 'xz' compression having been available since R 2.10.0, there is no excuse for not using them. Why isn't a note enough for this? Generally speaking, warnings are for things that are dangerous, or unsafe,

On 3/27/20 15:19, Hadley Wickham wrote: > > > On Fri, Mar 27, 2020 at 4:01 PM Herv? Pag?s <hpages at fredhutch.org > <mailto:hpages at fredhutch.org>> wrote: > > > > On 3/27/20 12:00, Hadley Wickham wrote: > > > > > > On Fri, Mar 27, 2020 at 10:39 AM Herv? Pag?s > <hpages at fredhutch.org <mailto:hpages at

On 03/19/2016 01:22 AM, Michael Lawrence wrote: > > > On Sat, Mar 19, 2016 at 12:10 AM, Herv? Pag?s <hpages at fredhutch.org > <mailto:hpages at fredhutch.org>> wrote: > > On 03/18/2016 03:28 PM, Michael Lawrence wrote: > > > On Fri, Mar 18, 2016 at 2:53 PM, Herv? Pag?s > <hpages at fredhutch.org <mailto:hpages at

I just meant that the minimal contract for as.list() appears to be that it returns a VECSXP. To the user, we might say that is.list() will always return TRUE. I'm not sure we can expect consistency across methods beyond that, nor is it feasible at this point to match the semantics of the methods package. It deals in "class space" while as.list() deals in "typeof() space".

Hi, With recent versions of R-devel, "R CMD check" complains about some "Rd files with unknown sections". hpages at gladstone:~> R CMD check multtest_1.9.4.tar.gz ... ... * checking Rd files ... WARNING Rd files with unknown sections: /home/hpages/multtest.Rcheck/00_pkg_src/multtest/man/boot.resample.Rd: notes

I agree with Herve, processing collapse happens last so collapse=non-NULL always leads to a single character string being returned, the same as paste(collapse=""). See the altPaste function I posted yesterday. Bill Dunlap TIBCO Software wdunlap tibco.com On Fri, May 22, 2020 at 9:12 AM Herv? Pag?s <hpages at fredhutch.org> wrote: > I think that > >

Hi Mehmet, On 11/29/2017 11:22 AM, Suzen, Mehmet wrote: > Hi Herve, > > I think you are confusing subclasses and classes. There is no > contradiction. `is` documentation > is very clear: > > `With one argument, returns all the super-classes of this object's class.` Yes that's indeed very clear. So if "list" is a super-class of "data.frame" (as

Hi Gabe, On 09/29/2015 02:51 PM, Gabriel Becker wrote: > Herve, > > The problem then would be that for A a refClass whose fields take up N > bytes (in the sense that you mean), if we do > > B <- A > > A and B would look like the BOTH take up N bytes, for a total of 2N, > whereas AFAIK R would only be using ~ N + 2*56 bytes, right? Yes, but that's still a *much*

>>>>> Herv? Pag?s >>>>> on Fri, 3 Nov 2023 15:10:40 -0700 writes: > Hi list, > Here is an example: > ??? hpages at XPS15:~$ R CMD INSTALL CoreGx ??? * installing > ??? hpages at XPS15:~$ R CMD INSTALL CoreGx > ??? * installing to library ?/home/hpages/R/R-4.4.r85388/site-library?

Because functions get called and therefore, the calling sequence matters. It?s just protecting you from yourself, but as someone pointed out, there?s a way to silence such notes. G From: Herv? Pag?s <hpages.on.github at gmail.com> Sent: Tuesday, February 6, 2024 2:40 PM To: Izmirlian, Grant (NIH/NCI) [E] <izmirlig at mail.nih.gov>; Duncan Murdoch <murdoch.duncan at gmail.com>;

by() does not always return a list. In Gabe's example, it returns an integer, thus it is coerced to a list. as.list() means that it should be a VECSXP, not necessarily with "list" in the class attribute. Michael On Tue, Jan 30, 2018 at 2:41 PM, Herv? Pag?s <hpages at fredhutch.org> wrote: > Hi Gabe, > > Interestingly the behavior of as.list() on by objects seem to

Hi list, Here is an example: ??? hpages at XPS15:~$ R CMD INSTALL CoreGx ??? * installing to library ?/home/hpages/R/R-4.4.r85388/site-library? ??? * installing *source* package ?CoreGx? ... ??? ** using staged installation ??? ** R ??? ** data ??? *** moving datasets to lazyload DB ??? ** inst ??? ** byte-compile and prepare package for lazy loading ??? Error : in method for