Re: [R-SIG-Mac] Transitioning from Mac to LInux?
As you are asking about R experience from Unix-alike OS users, I think you would clearly do better to ask on the - debian and/or -fedora sigs. Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Wed, Apr 1, 2020 at 11:49 AM Carl Witthoft wrote: > > > If I should ask over at r-sig-debian instead of here, please tell me. > I don't wish to clog r-sig-mac with off-topic stuff. > > > I've been watching the massive headaches people are dealing with trying > to keep R fully compatible with each MacOS X upgrade, I'm wondering > whether replacing my iMac (2009) with a new Mac really makes sense from > an R - user point of view, as opposed to getting some inexpensive > desktop and installing Linux. I know I can run R and RStudio under > Linux, for example, but don't know what limitations, if any there are > when it comes to building packages from source, getting compatible > compilers, and so on. > > What have some of you 'power R users' discovered when/if you tried to > build , or incorporate Bioconductor or other repository's packages under > Linux? > > > -- > Carl Witthoft > c...@witthoft.com > resume: https://app.box.com/file/498153801347 > > ___ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] Finding "bash" and "mv" on my hard drive?
As a minor note, Sys.which is vectorized, so
Sys.which(c("bash", "mv"))
will do.
Bert Gunter
"The trouble with having an open mind is that people keep coming along and
sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
On Fri, Jan 17, 2020 at 3:20 PM Bob Rudis wrote:
> R does not ship bash or bin with the program distribution on macOS. It
> uses the ones that come along for the ride with the system (which will
> be interesting when Apple removes bash completely in 10.16).
>
> If you've used MacPorts or Homebrew, you may have installed version of
> those shells/tools there which R is picking up.
>
> This:
>
> sapply(c("bash", "mv"), Sys.which)
>
> should tell you where R is picking up those binaries.
>
> -boB
>
> On Fri, Jan 17, 2020 at 6:01 PM Spencer Graves
> wrote:
> >
> > Hello:
> >
> >
> >How can I find the version of "bash" and "mv" that are used by "R
> > CMD check" under macOS 10.15.2 Catalina?
> >
> >
> >I ask, because my "Bitdefender for Mac" has been interrupting "R
> > CMD check" for a couple of years now, saying, "Bitdefender Safe Files
> > blocked a new process, bash, from accessing your protected files." Each
> > time it happens, Bitdefender allows me to tell it to "Remember this
> > action: For 5 minutes" or "For this time only" or to "Keep blocking".
> > Their "Safe Files" feature allows me to give access to certain
> > applications. I've already "allowed" 36 different applications using
> > that feature, including "/bin/bash", "/bin/mv",
> > "/Library/Frameworks/R.framework/Versions/3.6/Resources/exec/R", and two
> > different versions of "git". I'm not sure, but I believe that "R CMD
> > check" uses versions of "bash" and "mv" different from "/bin/bash" and
> > "/bin/mv".
> >
> >
> >Thanks,
> >Spencer Graves
> >
> > ___
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> > R-SIG-Mac@r-project.org
> > https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
> ___
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> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
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Re: [R-SIG-Mac] Error message reading files in R Commander
I suggest that you contact the package maintainer (and author), John Fox if you don't get a useful answer here. -- Bert On Fri, Nov 22, 2019 at 11:23 AM Jose G Conde Santiago via R-SIG-Mac < r-sig-mac@r-project.org> wrote: > Hi, > > I am using R Commander in combination with RStudio. I configured RStudio > to display the output on the RStudio console. > > If I open a file in R Commander, then view the data file in R Commander > and then try to read the same file again using R Commander, the following > error message is displayed in the console and I cannot read the file with R > Commander: > > > Error in structure(.External(.C_dotTcl, ...), class = "tclObj") : > > [tcl] bad window path name “.29”. > > The message is always the same, except that the number at the end changes. > Here are a few more examples: > > > Error in structure(.External(.C_dotTcl, ...), class = "tclObj") : > > [tcl] bad window path name ".35". > > > Error in structure(.External(.C_dotTcl, ...), class = "tclObj") : > > [tcl] bad window path name ".51". > > > Error in structure(.External(.C_dotTcl, ...), class = "tclObj") : > > [tcl] bad window path name ".56". > > > Initially, I thought there could be a problem between R Commander and > RStudio, but I got the same error message under the same conditions when I > tested using R Commander with R alone (without RStudio). > > The files seem to be fine, since I can access them directly with R or with > RStudio. > > My computer is an iMac (27-inch, late 2012) > MacOS High Sierra version 10.13.6. > R version 3.6.1 > RStudio version 1.2.5001 > R Commander version 2.6-0 > XQuartz 2.7.11 > > Thanks. > > José > > José G. Conde, MD, MPH > Professor, School of Medicine > Medical Sciences Campus > University of Puerto Rico > > Tel (787) 763-9401 Fax (787) 758-5206 > > Email: jose.con...@upr.edu > > ___ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac > [[alternative HTML version deleted]] ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] Problem generating an SVG file from a CSV file on the Mac
1. No reprex (we don't have WeightThru2018.csv) !
2. Please post in plain text, not html . (did no har here, but could).
3. The following worked fine on my mac.
> svg()
> plot(1:5)
> dev.off()
> sessionInfo()
R version 3.6.1 (2019-07-05)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Mojave 10.14.6
Matrix products: default
BLAS:
/System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK:
/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
... etc.
Cheers,
Bert Gunter
"The trouble with having an open mind is that people keep coming along and
sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
On Tue, Aug 20, 2019 at 3:18 PM Richard Fuhr wrote:
> I have encountered a problem generating an SVG file from a CSV file using R
> on the Mac.
> When I invoke the exact same script on two different Linux machines things
> work fine.
> Here is the script
>
> Sys.setenv(TZ="US/Pacific")
> w<-read.csv("WeightThru2018.csv")
> x<-as.Date(w$Date, "%m/%d/%y")
> y<-w$Weight
> For some reason svg combined with plot do not work on the Mac
> svg("WeightThrough2018.svg")
> plot(x,y, type="l")
> pdf("WeightThrough2018.pdf")
> plot(x,y, type="l")
> jpeg("WeightThrough2018.jpg")
> plot(x,y, type="l")
> png("WeightThrough2018.png")
> plot(x,y, type="l")
> dev.off()
>
> The file, WeightThru2018.csv, consists of lines, each of which has a date
> followed by a weight.
> Here is the very beginning of the file
>
> Date,Weight
> 6/4/00,189
> 6/5/00,191
> 6/6/00,191
> 6/7/00,191
> 6/9/00,190
>
> When I run the script on the Mac, the system hangs with the first plot
> command (after the call to the sag function)
> When I comment out the line with the svg function and the first plot
> command, things run fine on the Mac and the PDG, JPG and PNG files are
> generated.
>
> When I run the script with no lines commented out on my Linux machines,
> things work fine.
>
> When I enter the commands interactively on the Mac, the system hangs (no
> error messages) with the first plot command.
>
> On the Mac I did verify that the variables x and y were being extracted
> properly.
>
> Has anyone else out there tried to generate an SVG file that was a plot of
> (x,y) data?
>
> I also found that, on the Mac, just running the plot command without
> preceding it will a call to sag, pdf, jpeg, or plot, worked fine and I
> could see the plot.
>
> SVG is a nice format, and I would like to be able to generate SVG files on
> the Mac.
>
> [[alternative HTML version deleted]]
>
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> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
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Re: [R-SIG-Mac] [External] Re: Xcode 10.2.1
?installed.packages (Sometimes trying the obvious works) Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Sun, Apr 28, 2019 at 4:11 PM wrote: > Is there a command to list installed packages? > > I currently keep track manually and just run a script. > > el > > — > Sent from Dr Lisse’s iPhone Xs > > [[alternative HTML version deleted]] > > ___ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac > [[alternative HTML version deleted]] ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] [R] character set problem
Oops, you already seem to have done this! My bad. -- Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Tue, Feb 19, 2019 at 11:36 AM Bert Gunter wrote: > You might try posting this on r-sig-mac if you don't get resolution here. > > -- Bert > > Bert Gunter > > "The trouble with having an open mind is that people keep coming along and > sticking things into it." > -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) > > > On Tue, Feb 19, 2019 at 10:55 AM bretschr wrote: > >> Dear R-users, >> >> >> Last week I installed R 3.5.2 on a new MacBook Air. >> >> I got error messages for the wrong locale (character set). >> And simple math proved not to work: >> Upon typing this, I got: >> > 2ˆ2 >> Error: unexpected input in "2À" >> > >> >> The character visible as a caret is apparently coded as something very >> different. >> >> Then I changed things according to the FAQ, chapter 7, (switching all >> settings to English), >> and executed the recommended line: >> >> defaults write org.R-project.R force.LANG en_US.UTF-8 >> >> The error messages disappeared, but the problem remained. >> >> A fresh install of R 3.5.2 also didn't help: >> >> Here its startup messages, then a line testing the caret: >> >> > R version 3.5.2 (2018-12-20) -- "Eggshell Igloo" >> > Copyright (C) 2018 The R Foundation for Statistical Computing >> > Platform: x86_64-apple-darwin15.6.0 (64-bit) >> > >> > R is free software and comes with ABSOLUTELY NO WARRANTY. >> > You are welcome to redistribute it under certain conditions. >> > Type 'license()' or 'licence()' for distribution details. >> > >> > Natural language support but running in an English locale >> > >> > R is a collaborative project with many contributors. >> > Type 'contributors()' for more information and >> > 'citation()' on how to cite R or R packages in publications. >> > >> > Type 'demo()' for some demos, 'help()' for on-line help, or >> > 'help.start()' for an HTML browser interface to help. >> > Type 'q()' to quit R. >> > >> > [R.app GUI 1.70 (7612) x86_64-apple-darwin15.6.0] >> > >> > [History restored from /Users/fb/.Rapp.history] >> > >> >> 2ˆ2 >> > Error: unexpected input in "2À" >> >> >> >> >> >> Does anyone know how to get R (R.app) to interpret a caret as a caret? >> >> Thanks in advance, >> >> >> >> Franklin Bretschneider >> Utrecht University >> Utrecht, The Netherlands >> >> __ >> r-h...@r-project.org mailing list -- To UNSUBSCRIBE and more, see >> https://stat.ethz.ch/mailman/listinfo/r-help >> PLEASE do read the posting guide >> http://www.R-project.org/posting-guide.html >> and provide commented, minimal, self-contained, reproducible code. >> > [[alternative HTML version deleted]] ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Re: [R-SIG-Mac] [R] character set problem
You might try posting this on r-sig-mac if you don't get resolution here. -- Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Tue, Feb 19, 2019 at 10:55 AM bretschr wrote: > Dear R-users, > > > Last week I installed R 3.5.2 on a new MacBook Air. > > I got error messages for the wrong locale (character set). > And simple math proved not to work: > Upon typing this, I got: > > 2ˆ2 > Error: unexpected input in "2À" > > > > The character visible as a caret is apparently coded as something very > different. > > Then I changed things according to the FAQ, chapter 7, (switching all > settings to English), > and executed the recommended line: > > defaults write org.R-project.R force.LANG en_US.UTF-8 > > The error messages disappeared, but the problem remained. > > A fresh install of R 3.5.2 also didn't help: > > Here its startup messages, then a line testing the caret: > > > R version 3.5.2 (2018-12-20) -- "Eggshell Igloo" > > Copyright (C) 2018 The R Foundation for Statistical Computing > > Platform: x86_64-apple-darwin15.6.0 (64-bit) > > > > R is free software and comes with ABSOLUTELY NO WARRANTY. > > You are welcome to redistribute it under certain conditions. > > Type 'license()' or 'licence()' for distribution details. > > > > Natural language support but running in an English locale > > > > R is a collaborative project with many contributors. > > Type 'contributors()' for more information and > > 'citation()' on how to cite R or R packages in publications. > > > > Type 'demo()' for some demos, 'help()' for on-line help, or > > 'help.start()' for an HTML browser interface to help. > > Type 'q()' to quit R. > > > > [R.app GUI 1.70 (7612) x86_64-apple-darwin15.6.0] > > > > [History restored from /Users/fb/.Rapp.history] > > > >> 2ˆ2 > > Error: unexpected input in "2À" > >> > > > > Does anyone know how to get R (R.app) to interpret a caret as a caret? > > Thanks in advance, > > > > Franklin Bretschneider > Utrecht University > Utrecht, The Netherlands > > __ > r-h...@r-project.org mailing list -- To UNSUBSCRIBE and more, see > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > [[alternative HTML version deleted]] ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
