r-devel@r-project.org discussions for October 2015

28	[Rd] authorship and citation

Dear R developers, This is a rather peculiar question, but nevertheless I would still need an answer for. It is about an R package which I created (namely QCA), and from versions 1.0-0 to 1.1-4 I had ...

Adrian Dușa
Oct 5, 2015 at 9:02 pm
Oct 8, 2015 at 3:15 pm

14	[Rd] Error generated by .Internal(nchar) disappears when debugging

Hi all, I have a puzzling problem related to nchar. In R 3.2.1, the internal nchar gained an extra argument (see https://stat.ethz.ch/pipermail/r-announce/2015/000586.html) I've been testing code ...

Joris Meys
Oct 5, 2015 at 2:22 pm
Oct 7, 2015 at 10:53 pm

9	[Rd] Best way to implement optional functions?

I'm planning on adding some new WebGL functionality to the rgl package, but it will pull in a very large number of dependencies. Since many people won't need it, I'd like to make the new parts ...

Duncan Murdoch
Oct 22, 2015 at 7:55 pm
Nov 23, 2015 at 10:24 am

9	[Rd] Building R for AIX in 64-bit mode

Hi. Just wanted to let you know I am getting close to packaging R for AIX in 64.bit mode. One comment - the libtool.m4 I see used is quite old. The one I have on my system is 2.4.6, and what I see in ...

Michael Felt
Oct 15, 2015 at 12:32 pm
Nov 6, 2015 at 2:41 pm

8	[Rd] (no subject)

------------------ You can try all kind of code on this *too* simple example and do experiments. But let's approach this a bit more scientifically and hence systematically: Look at rank {the R ...

Suharto Anggono Suharto Anggono
Oct 22, 2015 at 5:44 am
Oct 22, 2015 at 7:06 am

7	[Rd] R CMD BATCH vs R CMD batch

Hi, Out of laziness I just used "R CMD batch" instead of "R CMD BATCH". I didn't get an error so didn't think about the consequences... One consequence is (at least on Mac OS X 10.11 but probably in ...

Marius Hofert
Oct 29, 2015 at 1:39 am
Oct 29, 2015 at 11:17 am

7	[Rd] identical(..., ignore.environment=TRUE)

It seems odd/inconvenient to me that the "ignore.environment" argument of identical() only applies to closures (which I read as 'functions' -- someone can enlighten me about the technical differences ...

Ben Bolker
Oct 12, 2015 at 12:05 am
Oct 13, 2015 at 4:38 pm

6	[Rd] R 3.2.2 64 bit compilation error on AIX

Dear list, I'm following the instructions provided here to compile R 64 bit on AIX 6.1. I did export OBJECT_MODEd export CC="gcc -maix64 -pthread" export CXX="g++ -maix64 -pthread" export ...

Vinh Nguyen
Oct 9, 2015 at 1:50 am
Oct 19, 2015 at 9:51 am

6	[Rd] A where() functions that does what exists() does but return the environment when object lives?

Hi, exists("foo", inherits=TRUE) check whether an object named "foo" exists, and get("foo", inherits=TRUE) retrieves it. I'm looking for a similar function to exists() that returns the environment ...

Henrik Bengtsson
Oct 9, 2015 at 11:18 pm
Oct 14, 2015 at 3:09 am

5	[Rd] Changed behaviour when passing a function?

Hi all, When teaching this year's class, I was quite amazed that one of my examples didn't work any longer. I wanted to illustrate the importance of match.fun() with following code: myfun <- ...

Joris Meys
Oct 22, 2015 at 5:59 pm
Oct 23, 2015 at 9:33 am

4	[Rd] Conditional importFrom (roxygen?)

Folks: I am getting a build failure when I: #' @importFrom utils shortPathName which roxygenizes it to the NAMESPACE. I suspect this is because this particular function is Windows-only, but I'm a bit ...

Jonathan Greenberg
Oct 4, 2015 at 2:10 pm
Oct 20, 2015 at 3:39 pm

4	[Rd] R 3.2.2 - make check and install package hang

Hello Everyone, After trying several ways to compile R 3.2.2 without luck, I?m reaching out for help. The ?make check? does not hanges for some reason and when trying to install a package it cannot ...

McCully, Dwayne (NIH/NIAMS) [C]
Oct 17, 2015 at 7:04 pm
Oct 19, 2015 at 1:15 pm

3	[Rd] Linking to documentation from a vignette using markdown?

Hello: What's the preferred way to link to package documentation from a vignette using markdown? My current draft includes ...

Spencer Graves
Oct 18, 2015 at 9:51 pm
Oct 19, 2015 at 10:08 am

3	[Rd] Package integrity check via SHA256 or OpenPGP possible?

Dear list, I'm using R in a corporate environment and was interested how R checks integrity of packages during an installation. I saw (and verified my suspicion in the code[1]) that the verification ...

Philip Gillißen
Oct 15, 2015 at 7:11 am
Oct 15, 2015 at 2:52 pm

3	[Rd] reverse object creation

Dear all, this is my first message to this mailing list - please advise if it is not the right place for the subject I've been using R very intensively the last 3-4 years and one of the most tedious ...

Bo Werth
Oct 9, 2015 at 9:55 am
Oct 9, 2015 at 3:06 pm

3	[Rd] read.table reads "i" as NA_complex_

I just noticed that read.table() and type.convert() interpret the string "i" as a missing value of type complex. 'data.frame': 4 obs. of 1 variable: $ V1: cplx NA NA NA ... cplx NA If there are other ...

William Dunlap
Oct 7, 2015 at 8:22 pm
Oct 7, 2015 at 9:25 pm

2	[Rd] C_LogLin (stats/loglin)

Hi everyone, I have a question regarding a C function of the "stats" package in R. I tried to understand the ?loglin? basic function of the ?stats? package implemented in R. The implemented function ...

Kai Nitschke
Oct 22, 2015 at 4:59 pm
Oct 23, 2015 at 6:02 am

2	[Rd] gcc ubsan alignement test --minimal gcc version?

Dear All, I'm trying to implement the section of the manual pertaining to the gcc-ubsan test carried by CRAN on my local computer (ubuntu 14.04) ...

Kaveh
Oct 13, 2015 at 1:46 pm
Oct 14, 2015 at 8:36 am

2	[Rd] Building manuals are failing now that MikTex 2.9 has removed texi2dvi.exe

According to the MikTex bug reports [1], MikTex 2.9 has removed texi2dvi.exe last week (on 2015-09-29) as "it was not compatible (anymore) with the original shell script texi2dvi (GNU Texinfo)." I ...

Avraham Adler
Oct 9, 2015 at 5:24 am
Oct 9, 2015 at 5:54 am

1	[Rd] Example input data with example output using relative pathway in vignette of R package?

I'm putting together an R package. I would like to show example code in the vignette, where example data files (included in the package) are used to generate an (example) output file. I read about ...

Luck Buttered
Oct 31, 2015 at 8:14 pm
Oct 31, 2015 at 8:59 pm

1	[Rd] Missing parenthesis in R-exts.texi

Line 1204 (right now) of svn/r-devel/doc/manual/R-exts.texi has dest <- file.path(R_PACKAGE_DIR, paste0('bin', R_ARCH) which lacks a closing ) -- two open, only one close right now. Dirk [1] I would ...

Dirk Eddelbuettel
Oct 22, 2015 at 6:38 pm
Oct 22, 2015 at 6:45 pm

1	[Rd] R CMD check --as-cran without qpdf

Today, a package that has an HTML vignette (but no PDF vignette) failed R CMD check --as-cran on a system without qpdf. I think the warning originates here [1], due to a premature check for the ...

Kirill Müller
Oct 10, 2015 at 10:30 am
Oct 22, 2015 at 6:13 pm

1	[Rd] Confusing print method for Inf dates

x <- as.Date(Inf, origin = "1970-01-01") x # [1] NA str(x) # Date[1:1], format: NA unclass(x) # [1] Inf It's not clear what the correct behaviour is. The documentation for ?Date has: "It is intended ...

Hadley Wickham
Oct 21, 2015 at 9:57 pm
Oct 21, 2015 at 10:18 pm

1	[Rd] MiKTeX's withdrawal of texi2dvi.exe

MiKTeX has abruptly removed texi2dvi.exe from its distribution. (MiKTeX broke its updating process earlier and an attempted update trashed the updater on my installation so I was forced to make a ...

Prof Brian Ripley
Oct 10, 2015 at 6:02 am
Oct 10, 2015 at 11:52 am

1	[Rd] R-core package cross compilation help

Hi, I am a beginner to R language and currently exploring R to use it for machine learning use case. My requirement is to include R-core package in my embedded linux box which runs on customized ...

Sasikumar Kandhasamy
Oct 8, 2015 at 8:58 pm
Oct 8, 2015 at 9:47 pm

1	[Rd] library() in .Rd Examples (Depends vs. Imports)?

I'm a little confused when documenting my code using Imports vs. Depends. If I have an example in my .Rd that uses a library that is listed under Imports, it doesn't work, but if it is listed under ...

Jonathan Greenberg
Oct 8, 2015 at 5:51 pm
Oct 8, 2015 at 6:12 pm

1	[Rd] Typo in ?Memory

I noticed a small typo in ?Memory. See the diff at the bottom of the message. - Mikko Index: src/library/base/man/Memory.Rd =================================================================== --- ...

Mikko Korpela
Oct 2, 2015 at 2:33 pm
Oct 2, 2015 at 3:15 pm

0	[Rd] cut.default labels when short range

Hello: I stumbled across an anomaly when running cut(4,4) in that the rightmost level's right endpoint did not display the expansion of the range as per ?cut.default. Modifying the last example there ...

Dan Murphy
Oct 30, 2015 at 8:15 pm
Oct 30, 2015 at 8:15 pm

0	[Rd] match.call enhancements in 3.2.2

Returns: Instead of: This is better than what used to happen before we had access to the `envir` parameter: The `installDDVAL(i)` generates the `..X` symbols.? I'm sure there is a very good reason ...

Brodie gaslam
Oct 30, 2015 at 6:34 pm
Oct 30, 2015 at 6:34 pm

0	[Rd] alternative read.arff function for the package foreign

?Hello everyone, I guess this is really directed to the R Core Team, but I understand that this is the best channel to submit this (please correct me if I'm wrong!). I would like to submit a function ...

Juan Manuel Barreneche
Oct 22, 2015 at 12:45 am
Oct 22, 2015 at 12:45 am

0	[Rd] Improvement of R_orderVector() via orderVector1()

Hi, I think R_orderVector() can be improved by calling orderVector1() if possible. In a problem we had, this gave us a run time improvement factor of 4.... so my hope is that this can be included ...

Marius Hofert
Oct 9, 2015 at 11:53 am
Oct 9, 2015 at 11:53 am

0	[Rd] A new CSS file for the offline documentation

I have made a new CSS file for the R offline documentation. It's far easier to read, it's lightweight, looks good, cross-browsers, responsive, and without any bug. Now my problem is where should I ...

Nicolas Drouin
Oct 7, 2015 at 2:59 pm
Oct 7, 2015 at 2:59 pm

0	[Rd] BUG: emacs orgmode ob-R.el function org-babel-R-evaluate-session over aggressively performs "; ; cleanup extra prompts left in output" and a possible workaround

Hello , I am not sure what the best solution is, but, in my hands using Org-mode version 8.3.2-elpa org-20150929 the reg-expt used to "cleanup extra prompts left in output" is over-aggressive and ...

Cook, Malcolm
Oct 1, 2015 at 7:59 pm
Oct 1, 2015 at 7:59 pm

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