Hi all,
Several people have noticed that gregexpr is very slow for large subject
strings when perl=TRUE is specified.
-
https://stackoverflow.com/questions/31216299/r-faster-gregexpr-for-very-large-strings
-
http://r.789695.n4.nabble.com/strsplit-perl-TRUE-gregexpr-perl-TRUE-very-slow-for-long-str
Hi all, (and especially hi to Tomas Kalibera who accepted my patch sent
yesterday)
I believe that I have found another bug, this time in the substring
function. The use case that I am concerned with is when there is a single
(character scalar) text/subject, and many substrings to extract. For exam
-substring-bug.R
To me this is a clear indication of a bug in substring, but again it would
be nice to have some feedback/confirmation before posting on bugzilla.
Also this suggests a fix -- just need to copy whatever stringi::stri_sub is
doing.
On Wed, Feb 20, 2019 at 11:16 AM Toby Hocking wrote
Hi all,
I am having an issue related to installing packages on windows with
R-3.6.0. When installing a package that is in use, I expected R to stop
with an error. However I am getting a warning that the DLL copy was not
successful, but the overall package installation IS successful. This is
quite
rr_0.3.2 munsell_0.5.0
[21] abind_1.4-7 compiler_3.6.0 pkgconfig_2.0.2 colorspace_1.4-1
[25] tidyselect_0.2.5 tibble_2.1.1
>
>
]0;MINGW64:/c/Users/th798/projects/max-generalized-auc
th798@cmp2986 MINGW64 ~/projects/max-generalized-auc (master)
$
On Wed, May 29, 2019 at 8:15 PM
> Hence the
>
>error: "make_RAW_from_NA_LLINT" not available for .Call() for package
> "S4Vectors"
>
> later on when trying to load the package.
>
> Cheers,
> H.
>
>
> On 5/30/19 16:31, Toby Hocking wrote:
> > thanks for the tip Jan.
If anybody else has this issue, please add a comment on
https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17478 so we are more
likely to get R-core to address this.
Thanks
Toby
On Tue, Jun 4, 2019 at 2:58 PM Pages, Herve wrote:
> On 5/31/19 08:41, Toby Hocking wrote:...
> > In m
if you want "to extract regex matches into a new column in a data.frame"
then there are some package functions which do exactly that. three examples
are namedCapture::df_match_variable, rematch2::bind_re_match, and
tidyr::extract. For a more detailed discussion see my R journal submission
(under re
Hi all,
Today I had an R CMD build that failed while building a vignette because
the vignette needs tidyr (>= 1.0, declared in DESCRIPTION Suggests) but my
system had a previous version installed.
It did not take me too long to figure out the issue (solved by upgrading
tidyr) but it would have be
Hi R-core,
I have been performance testing R packages for wide-to-tall data reshaping
and for the most part I see they differ by constant factors.
However in one test, which involves converting into multiple output
columns, I see that stats::reshape is in fact quadratic in the number of
input col
Hi R-core, I was wondering if somebody could please add jsslogo.jpg to the
R sources? (as I reported yesterday in this bug)
https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17687
R already includes jss.cls which is the document class file for Journal of
Statistical Software. Actually, for the
hi there, thanks for the feedback, sorry about the cross-posting, and that
makes sense given the nojss option, which I was not aware of.
On Wed, Jan 8, 2020 at 9:16 AM Achim Zeileis
wrote:
> On Wed, 8 Jan 2020, Iñaki Ucar wrote:
>
> > On Wed, 8 Jan 2020 at 19:21, Toby Ho
Can someone please add documentation for that environment variable to
Writing R Extensions? An appropriate place would be section
https://cloud.r-project.org/doc/manuals/r-release/R-exts.html#Suggested-packages
which already discusses _R_CHECK_DEPENDS_ONLY_=true
[[alternative HTML version
at https://cran.r-project.org/doc/manuals/r-devel/R-ints.html#Tools
>>
>> Gabor
>>
>> On Wed, May 13, 2020 at 7:05 PM Toby Hocking wrote:
>> >
>> > Can someone please add documentation for that environment variable to
>> > Writing R Extension
Dear R-devel,
I am running mclapply with many iterations over a function that modifies
nothing and makes no copies of anything. It is taking up a lot of memory,
so it seems to me like this is a bug. Should I post this to
bugs.r-project.org?
A minimal reproducible example can be obtained by first
ector touches objects, as pointed out by Radford Neal
> here:
> http://r.789695.n4.nabble.com/Re-R-devel-Digest-Vol-149-Issue-22-td4710367.html
>
> If so, I don't think this would be easily avoidable, but there may be
> mitigation strategies.
>
> ~G
>
> On Wed, Sep 2,
N <- length(X)
i.list <- splitIndices(N, N/maxjobs)
result.list <- list()
for(i in seq_along(i.list)){
i.vec <- i.list[[i]]
result.list[i.vec] <- mclapply(X[i.vec], FUN)
}
result.list
}
On Thu, Sep 3, 2015 at 5:27 PM, Simon Urbanek
wrote:
> Toby,
>
&g
I am getting the following on CRAN windows and winbuilder
https://www.r-project.org/nosvn/R.check/r-devel-windows-ix86+x86_64/penaltyLearning-00check.html
Apparently there is an error in re-building vignettes, but I do not have
any idea what it is, because all that is listed is three dots (...). I
Hi all,
I'm on Ubuntu 18.04, running R-4.0.0 which I compiled from source, and
using valgrind I am always seeing the following message. Does anybody
else see that? Is that a known false positive? Any ideas how to
fix/suppress? Seems related to TRE, do I need to upgrade that?
(base) tdhock@maude-M
mtests/README.txt . Set
> suppressions in ~/.valgrindrc, e.g. the CRAN check machine has
>
> --suppressions=/data/blackswan/ripley/wcsrtombs.supp
>
> It is an issue in your OS (glibc), not TRE nor R.
>
> On 10/06/2020 00:21, Toby Hocking wrote:
> > Hi all,
> >
> >
Hi all,
I'm getting the following error from substring:
> substr("Jens Oehlschl\xe4gel-Akiyoshi", 1, 100)
Error in substr("Jens Oehlschl\xe4gel-Akiyoshi", 1, 100) :
invalid multibyte string at 'gel-A<6b>iyoshi'
Is that normal / intended? I've tried setting the Encoding/locale to
Latin-1/UTF-8 b
AM Ivan Krylov wrote:
> On Fri, 26 Jun 2020 15:57:06 -0700
> Toby Hocking wrote:
>
> >invalid multibyte string at 'gel-A<6b>iyoshi'
>
> >https://stat.ethz.ch/pipermail/r-devel/1999-November/author.html
>
> The server says that the text is UTF-8:
Hi Luke,
I just wanted to say thanks for taking the time to add this tag. That is
very helpful to know which bugs are worth working on and need help. Keep up
the good work!
Toby
On Wed, Aug 5, 2020 at 7:23 AM wrote:
> Just a quick note to mention that we have added a HELPWANTED keyword
> on bugs
Hi the reference to R Internals
https://cran.r-project.org/doc/manuals/r-release/R-ints.html#Tools
in ?check (PkgUtils.Rd in utils package) is stale. Here is my proposed
patch (use named reference rather than numeric reference to avoid any
similar broken links in the future).
Index: src/library/ut
Hi win-builder certificate expired on Aug 15. My student on the other side
of the world is also seeing this problem so I think it needs to be fixed...
> download.file("https://win-builder.r-project.org";, "/tmp/wb.html")
trying URL 'https://win-builder.r-project.org'
Error in download.file("https:/
WRE explains for C++11 14 etc standards but I don't know about C
https://cran.r-project.org/doc/manuals/r-release/R-exts.html#Using-C_002b_002b11-code
BTW I believe this question would be more appropriate for R-package-devel.
On Mon, Sep 28, 2020 at 4:44 AM Andreas Kersting
wrote:
> Hi,
>
> wha
Hi all, Today I noticed bug(s?) in R-4.0.5, which seem to be fixed in
R-devel already. I checked on
https://developer.r-project.org/blosxom.cgi/R-devel/NEWS and there is no
mention of these changes, so I'm wondering if they are intentional? If so,
could someone please add a mention of the bugfix in
would prefer some stricter checks of strings validity and
> perhaps disallowing the "C" encoding in R, so yet another behavior where
> it would be clearer that this cannot really work, but that would require
> more thought and effort.
>
> Best
> Tomas
>
>
> On 4/27
Apr 28, 2021 at 9:04 AM Tomas Kalibera
wrote:
>
> On 4/28/21 5:22 PM, Martin Maechler wrote:
> >>>>>> Toby Hocking
> >>>>>> on Wed, 28 Apr 2021 07:21:05 -0700 writes:
> > > Hi Tomas, thanks for the thoughtful reply. That makes se
By the way, where is the documentation for INTEGER_ELT, REAL_ELT, etc? I
looked in Writing R Extensions and R Internals but I did not see any
mention.
REAL_ELT is briefly mentioned on
https://svn.r-project.org/R/branches/ALTREP/ALTREP.html
Would it be possible to please add some mention of them to
_t i, SEXP v);
>
> So the indexing is with R_xlen_t and they return the value itself as one
> would expect.
>
> Cheers,
> Simon
>
>
> > On Jun 17, 2021, at 2:22 AM, Toby Hocking wrote:
> >
> > By the way, where is the documentation for INTEGER_ELT, REAL_ELT,
na.omit is documented as "na.omit returns the object with incomplete cases
removed." and "At present these will handle vectors," so I expected that
when it is used on a list, it should return the same thing as if we subset
via is.na; however I observed the following,
> L <- list(NULL, NA, 0)
> str
ass")= chr "AsIs"
> is.na(f)
L
[1,] FALSE
[2,] TRUE
[3,] FALSE
> na.omit(f)
L
1
2 NA
3 0
On Wed, Aug 11, 2021 at 9:58 PM Toby Hocking wrote:
> na.omit is documented as "na.omit returns the object with incomplete cases
> removed." and "At present these
imilar where
> what types of objects are supported seems justified, though, imho, as the
> current documentation is either ambiguous or technically incorrect,
> depending on what we take "vector" to mean.
>
> Best,
> ~G
>
> On Wed, Aug 11, 2021 at 10:16 PM Toby Hocking wr
LSE TRUE FALSE
> >
> > Following Toby's argument, it's clear to me: the first and the last.
> >
> > Iñaki
> >
> > > (in the sense of is.atomic returning \code{TRUE})" in front of
> "vectors"
> > > or similar where what types of object
task is not
> equivalent to the conceptual task na.omit is doing, in my opinion, as
> illustrated by what the data.frame method does.
>
> Thus what i was getting at above about it not being clear that lst[is.na(lst)]
> being the correct thing for na.omit to do
>
> ~G
>
> ~G
Another option is to use https://emacspeak.sourceforge.net/ (version of
emacs editor/ide which can speak letters/words/lines -- has a blind
maintainer) with https://ess.r-project.org/ (interface for editing and
running R code from within emacs)
On Thu, Sep 22, 2022 at 9:42 AM Duncan Murdoch
wrote
Hi Aidan, I think you are on the right email list.
I'm not R-core, but this looks like an interesting/meaningful/significant
contribution to base R.
I'm not sure what the original dendrapply looks like in terms of code style
(variable names/white space formatting/etc) but in my experience it is
imp
Dear R-devel,
A number of people have observed anecdotally that read.csv is slow for
large number of columns, for example:
https://stackoverflow.com/questions/7327851/read-csv-is-extremely-slow-in-reading-csv-files-with-large-numbers-of-columns
I did a systematic comparison of read.csv with similar
Dear R-devel,
I did a systematic comparison of write.csv with similar functions, and
observed two asymptotic inefficiencies that could be improved.
1. write.csv is quadratic time (N^2) in the number of columns N.
Can write.csv be improved to use a linear time algorithm, so it can handle
CSV files
BTW this is documented here
http://pcre.org/current/doc/html/pcre2api.html#infoaboutpattern with a
helpful example, copied below.
As a simple example of the name/number table, consider the following
pattern after compilation by the 8-bit library (assume PCRE2_EXTENDED
is set, so white space - incl
Hi Michael, it sounds like you don't want to use a CRAN package for
this, but you may try re2, see below.
> grepl("(invalid","subject",perl=TRUE)
Error in grepl("(invalid", "subject", perl = TRUE) :
invalid regular expression '(invalid'
In addition: Warning message:
In grepl("(invalid", "subject
Hi Hilmar and Ivan,
I have used your code examples to write a blog post about this topic,
which has figures that show the asymptotic time complexity of the
various approaches,
https://tdhock.github.io/blog/2023/df-partial-match/
The asymptotic complexity of partial matching appears to be quadratic
Hi Hilmar and Ivan,
I have used your code examples to write a blog post about this topic,
which has figures that show the asymptotic time complexity of the
various approaches,
https://tdhock.github.io/blog/2023/df-partial-match/
The asymptotic complexity of partial matching appears to be quadratic
My opinion is that the proposed feature would be greatly appreciated by users.
I had always wondered if I was the only one doing paste(readLines(f),
collapse="\n") all the time.
It would be great to have the proposed, more straightforward way to
read the whole file as a string: readChar("my_file.tx
directly (following a very
> nice substring approach that I've seen implemented by Toby Hocking
> in the nc package - nc::capture_first_vec).
>
> strcapture2 <- function(pattern, x, proto, perl = FALSE, useBytes = FALSE) {
> if (isTRUE(perl)) {
> m &l
Hi Ivan
Can you please clarify what input files should be used with your
proposed function? I tried a few files in r-svn/src/include and one of
them gave me an error.
> getdecl("~/R/r-svn/src/include/R.h")
[1] "R_FlushConsole" "R_ProcessEvents" "R_WaitEvent"
> getdecl("~/R/r-svn/src/include/Rdefi
Hi! I expected that t.test should report a very large p-value (close
to 1), even when using paired=TRUE, for the data below (which are very
similar). However, I observe p-value = 0.02503 which indicates a
significant difference, even though there is none. Can this be fixed
please? This is with R-4.
I am the author of R package animint which uses testthat for unit tests.
This means that there is a single test file (animint/tests/testthat.R) and
during R CMD check we will see the following output
* checking tests ...
Running ‘testthat.R’
I run these tests on Travis, which has a policy that i
Thanks for the detailed analysis and proposition Ivan. The patch you
are proposing to base R is
https://github.com/Rdatatable/data.table/issues/6566#issuecomment-2428912338
right?
On Thu, Oct 24, 2024 at 8:48 AM Ivan Krylov via R-devel
wrote:
>
> Hello,
>
> The "[" primitive operator currently ha
Hi Greg thanks for your interest!
I plan to submit an application next week, on behalf of R project.
Our wiki with a timeline is
https://github.com/rstats-gsoc/gsoc2025/wiki#status-and-timeline
If you would like to mentor, please add your project idea to
https://github.com/rstats-gsoc/gsoc2025/wiki
Hi all,
I'm not sure if this is an issue with conda or R.
I expected that I should be able to build R from source, with a conda
environment active.
However, I observe that with conda 23.9.0, in an environment with libcurl
package installed, I get a link error.
The configure works fine:
(base) hoct
52 matches
Mail list logo
