Re: [Rd] CRAN policies

2012-03-28 Thread Uwe Ligges
ss if it seems to be sensible. Another Note such as "empty section" or "partial argument match" can quickly be fixed, hence just do it and don't waste our time. Best, Uwe Ligges Jeff P.S. I meant to also thank all of CRAN volunteers for the momentous efforts involv

Re: [Rd] CRAN policies

2012-03-28 Thread Uwe Ligges
On 27.03.2012 20:36, Gabor Grothendieck wrote: 2012/3/27 Uwe Ligges: On 27.03.2012 19:10, Jeffrey Ryan wrote: Is there a distinction as to NOTE vs. WARNING that is documented? I've always assumed (wrongly?) that NOTES weren't an issue with publishing on CRAN, but that they may

Re: [Rd] --as-cran / BuildVignettes: false

2012-03-28 Thread Uwe Ligges
On 28.03.2012 18:07, Paul Gilbert wrote: I have packages where I know CRAN and other test platforms do not have all the resources to build the vignettes, for example, access to databases. Previously I think putting BuildVignettes: false in the DESCRIPTION file resolved this, by preventing CR

Re: [Rd] CRAN policies

2012-03-28 Thread Uwe Ligges
On 28.03.2012 16:30, Gabor Grothendieck wrote: 2012/3/28 Uwe Ligges: On 27.03.2012 20:33, Jeffrey Ryan wrote: Thanks Uwe for the clarification on what goes and what stays. Still fuzzy on the notion of "significant" though. Do you have an example or two for the list? We ha

Re: [Rd] r-forge build failure bafflement

2012-03-29 Thread Uwe Ligges
On 29.03.2012 22:54, Ben Bolker wrote: I am attempting to build a package on r-forge and running into a weird error. I have been in correspondence with the R-forge admins and am turning to r-devel on the remote chance that someone might have a guess as to what is going wrong or a suggestio

Re: [Rd] Vignette questions

2012-04-12 Thread Uwe Ligges
On 12.04.2012 01:16, Paul Gilbert wrote: On 12-04-11 04:41 PM, Terry Therneau wrote: Context: R2.15-0 on Ubuntu. 1. I get a WARNING from CMD check for "Package vignette(s) without corresponding PDF: In this case the vignettes directory had both the pdf and Rnw; do I need to move the pdf to

Re: [Rd] Vignette questions

2012-04-12 Thread Uwe Ligges
On 11.04.2012 23:28, Yihui Xie wrote: For 1, you should run R CMD check on the tar ball (pkg_x.x.tar.gz) from R CMD build instead of the source directory. R CMD build will build the PDF vignette into the tar ball. Just move vignette sources to :/vignettes in your package? Uwe For 2, I hav

Re: [Rd] Vignette questions

2012-04-12 Thread Uwe Ligges
On 12.04.2012 00:23, beleites,claudia wrote: Very quick& short answer: I made the transition to ./vignettes for hyperSpec (you can look at the source at r-forge) - it was a mess. It is almost working now (compression is missing, I'll have to figure out how to invoke ghostscript in an OS id

Re: [Rd] Vignette questions

2012-04-12 Thread Uwe Ligges
On 12.04.2012 16:42, Paul Gilbert wrote: On 12-04-12 03:15 AM, Uwe Ligges wrote: On 12.04.2012 01:16, Paul Gilbert wrote: On 12-04-11 04:41 PM, Terry Therneau wrote: Context: R2.15-0 on Ubuntu. 1. I get a WARNING from CMD check for "Package vignette(s) without corresponding PD

Re: [Rd] R-2.15.0 and Exporting Methods Converted To S4 Generic

2012-04-13 Thread Uwe Ligges
You have to export the new generic as well. Uwe Ligges On 12.04.2012 20:41, Roebuck,Paul L wrote: Late to the show on this release, unfortunately. One of our production packages no longer builds under R-2.15.0 with the following message. ** testing if installed package can be loaded Error

Re: [Rd] no carriage returns in BATCH output from 2.15.0

2012-04-15 Thread Uwe Ligges
On 15.04.2012 18:55, Patrick Burns wrote: It seems like I must be missing something since I haven't been able to find mention of this. Under Windows 7 I'm not getting carriage returns in the output of BATCH files using 2.15.0 (both 64-bit and 32-bit). They are in the startup messages, but not

Re: [Rd] Strange bug in my package

2012-04-26 Thread Uwe Ligges
is that the packages compiles on my Ubuntu 10.10 machine with R 2.15.0. Therefore I can't reproduce the error. I don't see any error on the R-forge check results. Uwe Ligges I have traced the problem at residuals(outliers(data)) outliers(data) gives an AFLP.outlier object (S4)

Re: [Rd] R package dependency issues when namespace is not attached

2012-05-13 Thread Uwe Ligges
On 13.05.2012 10:59, Duncan Murdoch wrote: On 12-05-13 3:15 AM, Jeroen Ooms wrote: I have always assumed that having a package in the 'Depends' field would automatically also import the namespace. However, it seems that in R 2.15, dependencies do not become available until the package is actua

Re: [Rd] Problem compiling package LogicReg - make Error 255

2012-05-14 Thread Uwe Ligges
It works for us, and hence install.packages("LogicRec") will install the precompiled binary for you. Best, Uwe Ligges On 13.05.2012 11:11, E.D. Gutierrez wrote: Hello all, I've been using the R package LogicReg, but ended up having to change a certain parameter in the

Re: [Rd] Problem compiling package LogicReg - make Error 255

2012-05-14 Thread Uwe Ligges
? Uwe Ligges On 14.05.2012 14:47, E.D. Gutierrez wrote: Thanks for your reply, Uwe. Unfortunately there is a hard-coded parameter in the Fortran code of the package that I must change in order to perform my analysis, so the pre-compiled package can't solve my problem. The pre-compiled pa

Re: [Rd] Package does not have a NAMESPACE and should be re-installed

2012-05-17 Thread Uwe Ligges
0 and install the package from its source version. Uwe Ligges -- View this message in context: http://r.789695.n4.nabble.com/Package-does-not-have-a-NAMESPACE-and-should-be-re-installed-tp4630059p4630313.html Sent from the R devel mailing list archive at Nabble.com. ___

Re: [Rd] test suites for packages

2012-05-17 Thread Uwe Ligges
ing R Extension and read about a package's test directory. I prefer frameworks that do not obfuscate failing test results on the CRAN check farm (as most other frameworks I have seen). Best, Uwe Ligges Thanks, Whit __ R-devel@r-project.org ma

Re: [Rd] test suites for packages

2012-05-17 Thread Uwe Ligges
On 17.05.2012 16:52, Brian G. Peterson wrote: On Thu, 2012-05-17 at 16:32 +0200, Uwe Ligges wrote: Yes: R CMD check does the trick. See Writing R Extension and read about a package's test directory. I prefer frameworks that do not obfuscate failing test results on the CRAN check farm (as

Re: [Rd] test suites for packages

2012-05-17 Thread Uwe Ligges
On 17.05.2012 17:56, Matthew Dowle wrote: Uwe Ligges statistik.tu-dortmund.de> writes: On 17.05.2012 16:52, Brian G. Peterson wrote: On Thu, 2012-05-17 at 16:32 +0200, Uwe Ligges wrote: Yes: R CMD check does the trick. See Writing R Extension and read about a package's test dire

Re: [Rd] Cannot Install Custom Package On Windows7 64-bit

2012-05-18 Thread Uwe Ligges
shell after changing the PATH environment variable. Best, Uwe Ligges make: *** [getLogFC.o] Error 127 ERROR: compilation failed for package 'BMEA' * removing 'C:/R/R-2.15.0/library/BMEA' It looks to me like it can't find the compiler, but I'm stumped as to ho

Re: [Rd] bug in R version 2.15.0 (2012-03-30)?

2012-05-19 Thread Uwe Ligges
ypo of URL? Thanks. It was forgotten to update this part of the text, will do shortly. Uwe Ligges __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel

Re: [Rd] Dependencies on recommended packages

2012-06-01 Thread Uwe Ligges
Does it still happen with R-2.15.0 patched? Maybe an old version of Matrix in a library that is first in the search path? Unfortunately glmnet does not import from Matrix and search path issues are likely to happen. This needs to be sorted out on R-forge , I think. Best, Uwe Ligges On

Re: [Rd] Have download.packages consider non-CRAN repositories

2012-06-21 Thread Uwe Ligges
st be a complete repository, i.e. packages in subdir "./src/contrib". A user can use install.packages(., type="source") if you do not provide binaries in case they are expected by default. Uwe Ligges Duncan Murdoch _

Re: [Rd] Build fails with sysdata.rda in R dir

2012-06-23 Thread Uwe Ligges
end us an example how to create an sysdata.rda that causes R to fail? If this is done vy roxygen, please ask the roxygen maintainers. If plainR, I am happy to look into it. Best, Uwe Ligges Vitalie. R version 2.15.0 (2012-03-30) Copyright (C) 2012 The R Foundation for Statistical Computing IS

Re: [Rd] Have download.packages consider non-CRAN repositories

2012-06-23 Thread Uwe Ligges
tRepositories()? 3. Why don't you just set the repositories at startup, e.g. in Rprofile.site or your personal .Rprofile via: local({ r <- getOption("repos") r["myCRAN"] <- "file:store/ligges/public_html/CRAN" options(repos=r) }) works fo

Re: [Rd] installing spam package is failing (spam_0.29-1)

2012-07-16 Thread Uwe Ligges
d the full output follows. Any thoughts on what may be happening and/or how to work around the problem? Is the R-2.15.1 and are all other packages updated? We do not see this problem in the CRAN checks: http://cran.r-project.org/web/checks/check_results_spam.html Uwe Ligges Thanks! install.

Re: [Rd] [BUG?] utils::prompt(name=f)

2012-07-30 Thread Uwe Ligges
On 30.07.2012 21:13, R. Michael Weylandt wrote: Just for the record, I don't see that error with 2.15.0 or with R-Devel 60040-someodd. .. nor do I see it with R-release. Uwe Both display foo <- function(x) cat(x, "\n") prompt(name = "foo") Created file named ‘foo.Rd’. Edit the file and

Re: [Rd] help with install.packages

2012-08-02 Thread Uwe Ligges
.vars = getOption("configure.vars"), clean = FALSE, Ncpus = getOption("2", 1L), libs_only = FALSE, INSTALL_opts, --verbose ) #--- advice would be appreciated Please ask basic questions on R-help and do not misuse R-devel. And following th

Re: [Rd] virus and malicious code

2012-08-06 Thread Uwe Ligges
precautions with downloaded executables. Best, Uwe Ligges I do not expect any kind of response about picking up R code from any other source, like gitHub. Thanks. Dave [[alternative HTML version deleted]] __ R-devel@r-project.org mailing list

Re: [Rd] Defining Version in R Package

2012-08-07 Thread Uwe Ligges
can expect it to appear on the master within 72 hours. Best, Uwe Ligges Thanks. -- View this message in context: http://r.789695.n4.nabble.com/Defining-Version-in-R-Package-tp4639281.html Sent from the R devel mailing list archive at Nabble.

Re: [Rd] Build from Source fails on Loading required package Matrix

2012-08-15 Thread Uwe Ligges
sion checkout method. Please read the R Installation and Administration manual that explains how to set up your environment under Windows to build R yourself and what tools are needed. Note that a binary is available from CRAN. Uwe Ligges This is my first try building R from source. T

Re: [Rd] Compressing data for package builds

2012-08-17 Thread Uwe Ligges
On 17.08.2012 07:24, steven mosher wrote: " R CMD build is how you preferably should be creating your package tar ball, so you simply add the --resave-data argument to your already existing R CMD build call which creates the tar ball from your source directory. So can you elaborate on "doesn't

Re: [Rd] R package compilation: files in src directory should be ignored if C library is not available

2012-08-17 Thread Uwe Ligges
onality you are using. In that case, you just need to suggest the gsl package an load it for the one function on demand only. Best, Uwe ligges Is there a practical way to test this? Both of the computers I have access to have GSL available, and installation works whether I set HAVE_GSL=TRUE or

Re: [Rd] R package compilation: files in src directory should be ignored if C library is not available

2012-08-17 Thread Uwe Ligges
uch a function. If GSL is not available, this function will give an ERROR, but the rest of the package works. Uwe Ligges Thanks again Erika On 17 Aug 2012, at 12:35, Uwe Ligges wrote: On 17.08.2012 11:11, Cule, Erika wrote: I have written an R package which contains C source code (in

Re: [Rd] R package compilation: files in src directory should be ignored if C library is not available

2012-08-17 Thread Uwe Ligges
On 17.08.2012 13:49, Cule, Erika wrote: But will package compilation fail if GSL is not installed? No, not this way: since the gsl package can be in the Suggests now (rather than the Depends). Best, Uwe Ligges (There are files in the src directory that are needed for the code to run

Re: [Rd] Package "datasets" not exporting anything on a recent R-2.15.1-patched

2012-08-27 Thread Uwe Ligges
ally passed to functions (to use an example from MASS, "huber(chem)"). In that case, you do not want to have it in your NAMESPACE, since you just pass those data in a function call. Uwe Ligges I thought a bit about it, but still do no see where exactly this would be

Re: [Rd] Need to tell R CMD check that a function qr.R is not a method

2012-09-07 Thread Uwe Ligges
On 07.09.2012 17:05, Tim Hesterberg wrote: When creating a package, I would like a way to tell R that a function with a period in its name is not a method. You can't. There are few exception for historic names (S definitions) hardcoded in R. Best, Uwe I'm writing a package now with a

Re: [Rd] Rcmd check problem

2012-09-19 Thread Uwe Ligges
e.zip You cannot run R CMD check on a binary package. Just run it on the source package. Uwe Ligges Error in rawToChar(block[seq_len(ns)]) : embedded nul in string: 'PK\003\004\n\0\0\0\0\0}?1A\0\0\0\0\0\0\0\0\0\0\0\0\f\ 0\0\0myPackageName/PK\003\004\n\0\0\0\0\0y?1A\0\0\0\0\0\0\0\0\0\0

Re: [Rd] license

2012-09-24 Thread Uwe Ligges
ls on this). Yes, that's why it has been introduced: Describing non trivial license situations. Best, Uwe Ligges However, this situation - including an external piece of software - seems to me to be increasingly common. It may be worthwhile to have the possibility of specifying this in

Re: [Rd] Problems with install.packages when Ncpus > 1

2012-10-06 Thread Uwe Ligges
rectly declared. R CMD check finds (at least most of) such declaration errors nowadays. Uwe Ligges Has anyone else run into this issue before? Yes. It is due to missing dependencies between packages. I find this works well on CRAN *provided* that the BioC repositories are also select

Re: [Rd] problem with OSX binary package build?

2012-10-15 Thread Uwe Ligges
there when I follow that link. Uwe Ligges __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel

Re: [Rd] R 64bit for Windows on Windows 2012 server running Microsoft’s Hyper-V 2012?

2012-10-19 Thread Uwe Ligges
up a 64 core VM. We have not built this yet, we are seeking advice on whether R will run in this environment. Probably yes, but untested. Those who develop the Windows part of R do not have access to such a system, so do not know. Uwe Ligges Thank you; Matthew Schall matt

Re: [Rd] Mac and Windows binaries of rJava broken for R-devel?

2012-10-19 Thread Uwe Ligges
Thanks for letting me know. Currently the ./2.16 Window binary tree on CRAN is still a link to ./2.15. We will work to get binaries up within a week. Uwe Ligges On 19.10.2012 07:52, Hervé Pagès wrote: Hi, Here is a problem we see with the Mac and Windows binaries of rJava (0.9-3

Re: [Rd] Rcmd_environ and R_LIBS_{USER,SITE}

2012-10-19 Thread Uwe Ligges
Dirk, if you ask R to R CMD check foo_1.2-3.tar.gz and the output is "no package called 'foo'" then something went wrong with your setup or your package. Can we have details? Best, Uwe On 19.10.2012 15:21, Dirk Eddelbuettel wrote: On 19 October 2012 at 12:39, Gavin Simpson wrote: | O

Re: [Rd] Rcmd_environ and R_LIBS_{USER,SITE}

2012-10-20 Thread Uwe Ligges
Dirk, if you are checking "foo", then "foo" is found in the examples (on all OSs), even if it is NOT installed at all! Can you make the sources available for me? Uwe On 19.10.2012 23:58, Dirk Eddelbuettel wrote: Hi Uwe, On 19 October 2012 at 19:25, Uwe Ligges w

Re: [Rd] install.packages() fails if .libPaths() set

2012-10-30 Thread Uwe Ligges
If I don't set .libPaths() it installs without error. Yes, since your package set is installed in a library that is not "test". And you have omitted that library from the search path by changing .libPaths(). Uwe Ligges This is on a fairly re

Re: [Rd] install.packages() fails if .libPaths() set

2012-10-30 Thread Uwe Ligges
On 30.10.2012 15:01, Hadley Wickham wrote: * installing *source* package ‘relations’ ... ... ** testing if installed package can be loaded *** arch - i386 Error : package ‘sets’ required by ‘relations’ could not be found Error: loading failed Execution halted *** arch - x86_64 Error : package ‘

Re: [Rd] Depends/Imports/Suggest/Enhence

2012-11-06 Thread Uwe Ligges
use often No, better make use of Namespace imports all the time and only use "Depends" if you really need the other package to be installed. This is rarely needed. Uwe Ligges - 'Imports:foo2' if there is a function in foo2 that my package might use rarely -

Re: [Rd] Depends/Imports/Suggest/Enhence

2012-11-06 Thread Uwe Ligges
On 06.11.2012 21:17, Simon Urbanek wrote: On Nov 6, 2012, at 2:44 PM, Davor Cubranic wrote: On 2012-11-06, at 9:49 AM, Uwe Ligges wrote: On 06.11.2012 17:55, Christophe Genolini wrote: "Imports" means that symbols are imported form the namespace, so they are mandatory for t

Re: [Rd] Comments in the DESCRIPTION file

2012-12-06 Thread Uwe Ligges
urposes only, hence we call it X-CRAN- so we are assuming nobody else uses it. Thanks, Uwe Ligges Does it mean that the 'X-CRAN-Comment' field is not actually used by CRAN or it is used but not shown on the CRAN web page of the package ? Thanks

Re: [Rd] R-2.15.2 changes in computation speed. Numerical precision?

2012-12-13 Thread Uwe Ligges
Long message, but as far as I can see, this is not about base R but the contributed package Amelia: Please discuss possible improvements with its maintainer. Best, Uwe Ligges On 12.12.2012 19:14, Paul Johnson wrote: Speaking of optimization and speeding up R calculations... I mentioned

Re: [Rd] R-2.15.2 changes in computation speed. Numerical precision?

2012-12-14 Thread Uwe Ligges
On 14.12.2012 07:55, Paul Johnson wrote: On Thu, Dec 13, 2012 at 3:33 AM, Uwe Ligges wrote: Long message, but as far as I can see, this is not about base R but the contributed package Amelia: Please discuss possible improvements with its maintainer. Thanks for answering, but I'm r

Re: [Rd] R-2.15.2 changes in computation speed. Numerical precision?

2012-12-14 Thread Uwe Ligges
On 14.12.2012 18:11, Dirk Eddelbuettel wrote: On 14 December 2012 at 18:07, Uwe Ligges wrote: | without overhead of packages. The CRAN check times of > 4000 packages | are typically a good indicator, and they are a bit slower for R-2.15.2 Please do not quote only parts of my sentences, t

Re: [Rd] small issue with over-zealous clean.

2012-12-14 Thread Uwe Ligges
g off-topic svn/git/linux disdains on the *R*-devel list among R developers. Uwe Ligges __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel __ R-devel@r-project.org ma

Re: [Rd] Found explanation for R-2.15.2 slowdown in one case; caution for any users of La_chol

2012-12-15 Thread Uwe Ligges
On 14.12.2012 23:31, Paul Johnson wrote: 2 days ago, I posted my long message about the observed slowdown in a package between R-2.15.0 and R-2.15.2. Uwe Ligges urged me to make a self-contained R example. That was the encouragement I needed. I tracked the problem down to a failing use of a

Re: [Rd] Missing /share/dictionaries/en_stats.rds

2013-01-07 Thread Uwe Ligges
On 07.01.2013 09:47, Martin Maechler wrote: Henrik Bengtsson on Sun, 6 Jan 2013 17:07:12 -0800 writes: > Hi. I'm on Windows 7 64-bit with latest R devel with and > Rtools (2.16.0.1926). When I try to enable spell checking > for 'R CMD check' by setting environment varia

Re: [Rd] R-forge, package dependencies

2013-01-15 Thread Uwe Ligges
On 15.01.2013 20:47, Thomas Lumley wrote: I have a project on R-forge (sqlsurvey.r-forge.r-project.org) with two packages, RMonetDB and sqlsurvey. At the moment, sqlsurvey is listed as failing to build. The error is on the Linux package check, which says that RMonetDB is not available: * ch

Re: [Rd] assignInNamespace to create a setwd() replacement: how to use unlockBinding()?

2013-02-08 Thread Uwe Ligges
Replacing base functionality is bad practice, since some packages may rely on the actual functionality from base. Why not provide such functions in a private package that masks the base functionality for your interactive work only (and keeps base clean to be used by other packages). Finall

Re: [Rd] How to use summary.mer inside a package?

2013-02-08 Thread Uwe Ligges
27;summary' is not exported by 'namespace:lme4' ERROR: lazy loading failed for package 'papeR' Linux however builds the project as desired. I now did check my package using Uwe Ligges' winbuilder project and got positive results i.e. no errors for Windows there.

Re: [Rd] r-forge

2013-02-08 Thread Uwe Ligges
On 08.02.2013 16:41, Edzer Pebesma wrote: On 02/08/2013 03:22 PM, Uwe Ligges wrote: Perhaps the R-forge results are outdated? Looks like the R-forge builds (and hence probably also the checks) are stuck since some days. Nice understatement. Several of my packages don't build on r-

Re: [Rd] trouble with accentuated characters in \title tag in Rd file

2013-02-09 Thread Uwe Ligges
See Writing R Extensions: "Since R version 2.12.0 markup has been supported in the text, but use of characters other than English text and punctuation (e.g., ‘<’) may limit portability." So the answer is: Don't do that. Best, Uwe Ligges On 09.02.2013 19:27, LaurentRde

Re: [Rd] large sysdata.rda file --- strategies?

2013-02-10 Thread Uwe Ligges
On 07.02.2013 15:41, Dr. Peter Ruckdeschel wrote: Hi, to speed up computations in our RobASt family of packages, we use interpolation on a grid of precomputed values which we save together with the interpolating functions (results of splinefun essentially) in sysdata.rda in the R folder of our

Re: [Rd] Regression stars

2013-02-12 Thread Uwe Ligges
On 12.02.2013 14:54, Ben Bolker wrote: Duncan Murdoch gmail.com> writes: [snip] Regarding stringsAsFactors: I'm not going to defend keeping it as is, I'll let the people who like it defend it. Would someone (anyone) like to come forward and give us a defense of stringsAsFactors=TRU

Re: [Rd] Regression stars

2013-02-12 Thread Uwe Ligges
aller than 0.5" they did not find it too funny. Best, Uwe And when a clinical researcher puts a sentence in a study protocol that P<0.05 will be considered "significant" I get them to take it out. Frank Uwe Ligges-3 wrote On 12.02.2013 14:54, Ben Bolker wrote: Duncan M

Re: [Rd] Regression stars

2013-02-12 Thread Uwe Ligges
On 12.02.2013 16:40, Ben Bolker wrote: On 13-02-12 09:20 AM, Uwe Ligges wrote: On 12.02.2013 14:54, Ben Bolker wrote: Duncan Murdoch gmail.com> writes: [snip] Regarding stringsAsFactors: I'm not going to defend keeping it as is, I'll let the people who like

Re: [Rd] two typos in NEWS.Rd

2013-02-23 Thread Uwe Ligges
On 23.02.2013 08:11, Scott Kostyshak wrote: Regarding: "\pkg{parallle} (as in e.g. \code{mclapply()}." Two typos: "parallle" -> "parallel" "\code{mclapply()}." -> "\code{mclapply()})" Patch is attached. Thanks, fixed, Uwe Ligges

Re: [Rd] Submitting packages with weak circular dependencies to CRAN.

2013-03-09 Thread Uwe Ligges
They will tell you to go ahead, submit A and mention in the submission mail that the Suggested B which Depends on A will be uploaded once A has been accepted. Best, Uwe Ligges Cheers, H. Thanks in advance, Pavel Kriv

Re: [Rd] question on why Rigroup package moved to Archive on CRAN

2013-03-10 Thread Uwe Ligges
oints" you got on January 20. You never answered nor fixed the package, hence the package has been archived. Best, Uwe Ligges On 10.03.2013 02:43, Kevin Hendricks wrote: Hi Dan, In case this catches anyone else ... FWIW, I found the issue ... in my Rinit.c, my package uses the .Ext

Re: [Rd] question on why Rigroup package moved to Archive on CRAN

2013-03-10 Thread Uwe Ligges
OK, the original message will be resend privately in a minute. Best, Uwe Ligges On 10.03.2013 16:54, Kevin Hendricks wrote: Sorry if you considered this a waste of bandwidth. I did not know CRAN had its own mailing list. The reason I never responded to any mail is that I never received

Re: [Rd] Windows R-3.0.0 and Tcl/tkrplot issue

2013-03-19 Thread Uwe Ligges
This has been fixed already, as far as I know, Uwe On 18.03.2013 12:10, wayne.w.jo...@shell.com wrote: Greetings R Developers, I've been testing the alpha release of R-3.0.0 and I noticed that the plotting functionality in package tkrplot was not working correctly. Further diagnosis found the

Re: [Rd] preparing for R 3.0.0

2013-03-19 Thread Uwe Ligges
(and moved to the main part once R-3.0.0 is released), the other one should have a dependency on R < 3.0.0. Best, Uwe Ligges Thanks, Richard __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/li

Re: [Rd] mean.data.frame: R 3.0.0 help page wrong?

2013-03-27 Thread Uwe Ligges
On 27.03.2013 05:07, David Winsemius wrote: The help page for mean still says there is a method for data.frame although this has been deprecated for several versions and in R 3.0.0 beta I get: mean(data.frame(x=rnorm(10), y=rnorm(10)) ) [1] NA Warning message: In mean.default(data.frame(x

Re: [Rd] savePlot() under Windows

2013-04-11 Thread Uwe Ligges
>The log shows that Duncan Murdoch fixed it already 3 days ago. Best, Uwe Ligges -- View this message in context: http://r.789695.n4.nabble.com/savePlot-under-Windows-tp4663712p4663903.html Sent from the R devel mailing list archive

Re: [Rd] savePlot() under Windows

2013-04-11 Thread Uwe Ligges
evice, filename, type, restoreConsole) : Incorrect number of arguments (4), expecting 3 for 'savePlot' That is the latest release, i.e. the 3.0.0 release rather than R-patched, I guess? http://cran.r-project.org/bin/windows/base/rpatched.html Uwe Ligges Thanks, Wayne -O

Re: [Rd] Publishing my Package on CRAN

2013-04-20 Thread Uwe Ligges
. -- and how long will it take to get through the process? How selective is it? Depends on how well the package is prepared. Best, Uwe Ligges I have never published a package before, so I am wondering whether you guys think this is a reasonable thing for me to promise in the paper that the

Re: [Rd] vignettes: problems with PDF compaction

2013-04-21 Thread Uwe Ligges
CMD build that would run gs+qpdf to correct it? Yes, see R CMD build --help that tells you --compact-vignettes= try to compact PDF files under inst/doc: "no" (default), "qpdf", "gs", "gs+qpdf", "both" Best, U

Re: [Rd] vignettes: problems with PDF compaction

2013-04-22 Thread Uwe Ligges
On 22.04.2013 17:59, Michael Friendly wrote: On 4/21/2013 1:28 PM, Michael Friendly wrote: [Env: OS: Win Xp; R 2.15.2; IDE: eclipse/StatET] Each time I update my heplots package, I get warnings from R CMD check on R-Forge, * checking sizes of PDF files under ‘inst/doc’ ... WARNING ‘gs+qpd

Re: [Rd] Line breaks in rd files

2013-04-23 Thread Uwe Ligges
On 23.04.2013 11:34, Knut Krueger wrote: How can I add a new line in an rd file f.e between references? Keep a blank line between references. Uwe Ligges Knut __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel

Re: [Rd] Help: Where can I find the code for 'C_Cdqrls'?

2013-04-23 Thread Uwe Ligges
/lm.c:z <- .Fortran("dqrls", ./src/library/stats/src/lm.c:SEXP Cdqrls(SEXP x, SEXP y, SEXP tol) ./src/library/stats/src/lm.c:F77_CALL(dqrls)(REAL(qr), &n, &p, REAL(y), &ny, &rtol, ./src/library/stats/src/statsR.h:SEXP Cdqrls(SEXP x, SEXP y,

Re: [Rd] dyn.load inside a package in R >= 3.0

2013-04-28 Thread Uwe Ligges
Do I need to change the structure of my project to still be able to use my dll? If you need an example for such an ugly hack, see how we did it in the BRugs package. Best, Uwe Ligges Thanks Adrian [[alternative HTML version deleted]] __

Re: [Rd] lsfit: Error in formatting error message

2013-04-29 Thread Uwe Ligges
d variable", "but only %d variables"), nry, ncx), domain = NA) 1: lsfit(matrix(runif(nobs * nvar), ncol = nvar), runif(nobs), intercept = FALSE) Thanks, fixed in R-patched and R-devel (plus the wording which was inappropriate for more than 10 years, at least). Best,

Re: [Rd] Package update for old version of R

2013-05-03 Thread Uwe Ligges
and R-release/R-devel which would be accepted, of course. Best, Uwe Ligges They're usually helpful in getting you to fix the errors, though. -p __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel

Re: [Rd] Please check link for R-patched.tar.gz

2013-05-03 Thread Uwe Ligges
ran.r-project.org/src/base-prerelease/ Uwe Ligges Best regards, John Minter [[alternative HTML version deleted]] __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel ___

Re: [Rd] Can we generate exe file using R? What is the maximum file size valid?

2009-05-07 Thread Uwe Ligges
? No. You won't find many machines around that support more than 400 Gb for a single process. Uwe Ligges Thank you very much! Min [[alternative HTML version deleted]] __ R-devel@r-project.org mailing list https://stat.et

Re: [Rd] Problem building (binary) packages for Windows

2009-05-15 Thread Uwe Ligges
AFAICS I have not tried to build a bundle ... Searching the help archives, I found a posting by Uwe Ligges, http://article.gmane.org/gmane.comp.lang.r.general/64574/ saying that R CMD INSTALL --build was preferable to R CMD build --binary --- in which respect? Would this avoid t

Re: [Rd] Strange install key for R

2009-05-23 Thread Uwe Ligges
t the batchfiles assume. So you have not been on 64-bit Windows before - and you still you those batchfiles? Anyway, it does redirect the entries for (almost?) all 32-bit Software. You might want to read MS Documentation if you feel this is an important issue. Best, Uwe Ligges Has there been

Re: [Rd] remez (signal) causes unhandled exception (PR#13713)

2009-05-23 Thread Uwe Ligges
calls an entry point in compiled code of the package signal. Please report bugs of contributed packages to the package maintainer rather than to R-bugs. Uwe Ligges require("signal") f1 = remez(17,c(0,0.1,0.0625,1),c(1,1,0.001,0.001)) and the R clashes. The possible cause of t

Re: [Rd] Vista authorization issues (PR#13718)

2009-05-26 Thread Uwe Ligges
There is no bug in R, or can you tell us what is not working in R? You just told us that JGR and Tinn-R are not working. But you need to report that to the corresponding maintainers. Uwe Ligges dpkesl...@juno.com wrote: Full_Name: David Kesling Version: 2.9.0 OS: Windows Vista & XP

Re: [Rd] as.numeric(levels(factor(x))) may be a decreasing sequence

2009-05-30 Thread Uwe Ligges
hes. Thank you very much for that! But I think it is not fair to blame the inventors and developers of the language again and again. I mean the language that has become so famous and indispensable among statisticians for some very good reasons. Best, Uwe Ligges no patch attached, you need to c

Re: [Rd] install.packages hangs RGui with frozen rpwd process at bottom of process tree (PR#13734)

2009-06-01 Thread Uwe Ligges
Uwe Ligges wrote: asto...@esica.com wrote: Full_Name: Allan Stokes Version: 2.8.1 OS: XP Submission from: (NULL) (24.108.0.245) I've just spent a hellish six hours trying to create my own R package with a bare bones "hello world" R function inside. I was able to create a

Re: [Rd] iconv.dll needed in addition to Riconv.dll for package XML to load (PR#13747)

2009-06-08 Thread Uwe Ligges
Please install from the "CRAN extras" repository (where you will find a working copy) and do NOT report a bug in R that is not a bug in R but in a contributed package / the package repository. Best, Uwe Ligges osiander.meix...@hp.com wrote: Full_Name: Osiander Meixner Version: 2.9.

Re: [Rd] ylim (PR#13753)

2009-06-12 Thread Uwe Ligges
= c(0, 1)) : "xlim" is not a graphical parameter But ?par links prominently to ?plot.default which explains them. Uwe Ligges help.search("ylim") No help files found with alias or concept or title matching ‘ylim’ using regular expression matching.

Re: [Rd] loadNamespace and useDynLib

2009-06-24 Thread Uwe Ligges
Kasper Daniel Hansen wrote: I am considering a package with a namespace (Rgraphviz from Bioc). I essentially want to have some error handling for loading the dll, something like wrapping it into tryCatch or similar (reason: see below). Right now I am loading the dynamic libraries by useDynLib

Re: [Rd] install.packages with R 2.9.1 under Vista?

2009-06-30 Thread Uwe Ligges
spencerg wrote: What do I need to do to get "install.packages" to work properly for me in R 2.9.1 under Vista? Currently, install.packages in Rgui 2.9.1 by default goes to "C:\\Users\\sgraves\\Documents/R/win-library/2.9". This is a problem for me, because R running under Emacs

Re: [Rd] install.packages with R 2.9.1 under Vista?

2009-07-01 Thread Uwe Ligges
S" nor any other special thing like that, so I was confused. Thanks again. Best Wishes, Spencer Uwe Ligges wrote: spencerg wrote: What do I need to do to get "install.packages" to work properly for me in R 2.9.1 under Vista? Currently, install.packages in

Re: [Rd] Installation of R_2.9.1 & readline (PR#13805)

2009-07-07 Thread Uwe Ligges
ite a bug report and read what a bug report is intended to be. Answer: Install readline-devel to your OS. Uwe Ligges Thanks! __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel

Re: [Rd] Starting R Commander doesn't work (PR#13806)

2009-07-07 Thread Uwe Ligges
Peter Cowan wrote: On Mon, Jul 6, 2009 at 1:25 AM, wrote: Full_Name: Noyb Version: 2.9.1 OS: Ubuntu 9.04 Submission from: (NULL) (141.53.34.152) Hello, I installed the GUI R Commander and tried to open it out of R by Noyb, It looks like your new to R, welcome to the community. A couple

Re: [Rd] Bug in seq() (PR#13849)

2009-07-24 Thread Uwe Ligges
Please read how to report bugs (with recent version of R!) and read the FAQs (in thsi case FAQ "Why doesn't R think these numbers are equal?") and the mailing list archives before. Uwe Ligges jeremiah.co...@gmail.com wrote: Full_Name: Jeremiah Cohen Version: 2.9.0 OS: Window

Re: [Rd] Wishlist: install.packages to look for the newest version of a package (PR#13851)

2009-07-25 Thread Uwe Ligges
difficult. Best wishes, Uwe Regards, Ulrike Uwe Ligges schrieb: Ulrike, if you install from source, you always get the most recent version of the package given it does not depend on a newer version of R. If you want a binary package, you also get the newest version - that was newest at t

Re: [Rd] Wishlist: install.packages to look for the newest version (PR#13852)

2009-07-25 Thread Uwe Ligges
rsion is out, e.g. at the time of the R-2.9.1 release the binary builds for R-2.8.x had been stopped). So please upgrade your version of R or compile yourself from sources for the R version you need the particular package for. Best wishes, Uwe Ligges groemp...@bht-berlin.de wrote: Fu

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