Re: [R-SIG-Mac] rJava stops loading since I upgraded R to 3.4.0

2017-05-23 Thread Duncan Murdoch
f the only change is in the patch level z, where the version number is x.y.z, you can usually use the old version). Duncan Murdoch R version : R version 3.4.0 (2017-04-21) -- "You Stupid Darkness" Copyright (C) 2017 The R Foundation for Statistical Computing Platform: x86_64-ap

Re: [R-SIG-Mac] istate CRAN mirror not working - unable to use .Rprofile to change

2017-06-08 Thread Duncan Murdoch
If you are using R.app, you can also set the mirror in the Preferences menu. Perhaps this setting overrides the .Rprofile setting. Duncan Murdoch On 08/06/2017 5:05 AM, Michael Hall wrote: I started getting errors installing packages using my default repository instate… Warning: unable to

Re: [R-SIG-Mac] istate CRAN mirror not working - unable to use .Rprofile to change

2017-06-08 Thread Duncan Murdoch
On 08/06/2017 5:50 PM, Michael Hall wrote: On Jun 8, 2017, at 5:53 AM, Duncan Murdoch wrote: If you are using R.app, you can also set the mirror in the Preferences menu. Perhaps this setting overrides the .Rprofile setting. I was using the app and wasn’t aware of the preference, so

Re: [R-SIG-Mac] Permanently fix R to open Help page in html

2017-07-10 Thread Duncan Murdoch
= ‘html’) However after that when I start R (from Terminal) I get below error on loading R Error: 1:20: unexpected input 1: options(help_type = ? ^ Those don't look like ASCII quotes. Use the R.app editor, not Textedit, and it won't put in funny "smart qu

Re: [R-SIG-Mac] segfault on R v. 3.4.1

2017-09-14 Thread Duncan Murdoch
ic part of your system. Four years old doesn't seem old, but it's long enough for hardware problems to develop. Duncan Murdoch Do any of you folks know what might’ve happened? I’ve d/l’d and installed the 3.4.1. Mac binary from CRAN three times, and each time I get the text bel

Re: [R-SIG-Mac] ifelse script

2017-10-25 Thread Duncan Murdoch
rrcond16 == 1 | icdfrrcond17 == 1 | icdfrrcond18 == 1 | icdfrrcond19 == 1 | icdfrrcond20 == 1, 1, 0) Duncan Murdoch This is the script generated by R Commander: mortprres0515sle$icdfrischhrtdis <- with(mortprres0515sle, ifelse(icdfrrcond1 == 1 | icdfrrcond2 == 1 | icdfrrcond3 == 1 |

Re: [R-SIG-Mac] package or namespace load failed for ‘ks’

2017-11-13 Thread Duncan Murdoch
x27;s available from xquartz.org. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Updating some packages fails

2018-01-15 Thread Duncan Murdoch
le to follow Ben's instructions, you'll just have to wait until Simon's binary build makes it onto CRAN. Duncan Murdoch Manuel 2018-01-15 10:40 GMT-06:00 Ben Tupper : Hi, sf (and many other spatial packages) depend upon gdal ( http://www.gdal.org/) being installed on

Re: [R-SIG-Mac] R 3.4.4 and 3.5 (Mac) crash when loading a .R file

2018-07-05 Thread Duncan Murdoch
ad and execute it. load() is for binary images of workspaces, typically called something like .RData. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Blank help window

2018-10-17 Thread Duncan Murdoch
ot;aqua.custom.print", "help-files", x) invisible(x) } If I debug this and try browseURL(x) after x is modified, I see help in my usual browser. If I continue to the .Call(), it appears in the usual R.app browser. Do you see something similar? Duncan Murdoch R version 3.5.1 (20

Re: [R-SIG-Mac] Blank help window

2018-10-18 Thread Duncan Murdoch
to R.app, and type "c". This should open the same help page in the internal browser. It might show a blank page, or the regular help page: either one would tell us something. Duncan Murdoch debug(utils:::print.help_files_with_topic) help("help") debugging in: print.h

Re: [R-SIG-Mac] Blank help window

2018-10-18 Thread Duncan Murdoch
iting from: browser(if (encodeIfNeeded) URLencode(url) else url) ... opens the blank help window. That's the issue then. Your system doesn't support "localhost", and R.app assumes it will. I don't know enough about MacOS to guess a cause or a remedy, but that's

Re: [R-SIG-Mac] legend function and Inf warnings

2018-10-20 Thread Duncan Murdoch
me value that you can distinguish from a real minimum... Sorry, no comment on your other question. Duncan Murdoch 2. I use the following legend that returns a plot that I am happy with and no errors: legend("topright", title = "", legen

Re: [R-SIG-Mac] How can I find the "sh" application used by "R CMD check" on a Mac?

2019-02-19 Thread Duncan Murdoch
allow this once but not permanently.  To allow it permanently, I need to know where it is on my hard drive. From a console, run "which sh". I get "/bin/sh". Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] segfault with raster package

2019-12-16 Thread Duncan Murdoch
ommon in macOSX or if there is something special for me. library(raster) works fine for me. This loads 3.0-7. I'm on MacOS 10.13.6, likely older than whatever you are using. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://

Re: [R-SIG-Mac] damned Catalina

2019-12-18 Thread Duncan Murdoch
I'm still on High Sierra). Duncan Murdoch Thanks for the collaboration Bruno Il giorno 18 dic 2019, alle ore 14:37, Rainer M Krug ha scritto: Just works out of the box, i.e. the cloud repo. PS: please CC the list in - thanks On 18 Dec 2019, at 14:34, bruno apolloni mailto:apoll...@di.u

Re: [R-SIG-Mac] How to add variables to a vector

2020-03-28 Thread Duncan Murdoch
On 28/03/2020 4:17 p.m., David wrote: If I have a vector created like x <- c(5,1,9,3), how can I add values to it later?  That seems simple, but I don't find the answer in either of my Dalgaard or Crawley books, or in the help functions.  Thanks. This question belongs on R-help: nothing to do

Re: [R-SIG-Mac] Transitioning from Mac to LInux?

2020-04-01 Thread Duncan Murdoch
l working, try installing Ubuntu or some other Linux on it. I think at that age Apple is no longer providing upgrades, but I just put Ubuntu on a 2008 iMac, and it works well. (I needed to upgrade the memory, but that just cost $40 for 4 GB.) So I got a $40 desktop,

Re: [R-SIG-Mac] Homebrew

2020-04-02 Thread Duncan Murdoch
there, and run update.packages(checkBuilt = TRUE) R will re-install everything that was originally installed under an earlier version. Duncan Murdoch I could then construct the below file automagically, and if I was really bothered and bored find out how to make Homebrew pre/post install scripts

Re: [R-SIG-Mac] R-SIG-Mac Digest, Vol 205, Issue 13

2020-04-02 Thread Duncan Murdoch
That lists "base" as a package, as well as the other base and recommended packages. That's not what Dr. Lisse was looking for: he wanted "all user installed (additional) packages, ie not the ones that come with R?". Duncan Murdoch On 02/04/2020 10:47 a.m., Colin A

[R-SIG-Mac] R CMD check warning in 4.0.0 RC

2020-04-20 Thread Duncan Murdoch
7;t supply that, it's the default, so probably this note should not appear (even though the message is true). Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] obsolete LaTeX software in "R CMD check" on Mac?

2020-05-12 Thread Duncan Murdoch
and Sweave.sty since 2013, so it's nothing new on R's end. Duncan Murdoch         * "In a current tex system \textasciigrave should work with your families - they don't have the glyph but latex will fall back without error. In older systems it could give an error.&q

Re: [R-SIG-Mac] crash due to rgl and base graphics conflict

2020-05-29 Thread Duncan Murdoch
27;m not seeing rgl in the call stack, but libXplugin is there. Mine is "XQuartz 2.7.11 (xorg-server 1.18.4)". Duncan Murdoch On 29/05/2020 11:44 a.m., Richard M. Heiberger wrote: R version 4.0.0 (2020-04-24) -- "Arbor Day" Copyright (C) 2020 The R Foundation for Stat

Re: [R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict

2020-05-29 Thread Duncan Murdoch
ue is most likely to help, but if it doesn't, I'm not sure what I could suggest: I don't have Catalina. Duncan Murdoch from the Terminal App: The Apple Crash Report is in the attached tmp.txt I didn't send it to Apple. R version 4.0.0 (2020-04-24) -- "Arbor Day"

Re: [R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict

2020-05-29 Thread Duncan Murdoch
d only use the null device. It won't display anything in R, but allows you to call rglwidget() for a display in a browser. Duncan Murdoch On Fri, May 29, 2020 at 1:51 PM Duncan Murdoch wrote: On 29/05/2020 12:35 p.m., Richard M. Heiberger wrote: I have the same Xquartz as you. I'

Re: [R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict

2020-08-03 Thread Duncan Murdoch
I just got a message from someone else using Catalina 10.15.5 who still gets a crash from library(rgl) plot(1:10) I don't have Catalina, and haven't seen it. Has anyone else? Duncan Murdoch On 31/05/2020 4:44 p.m., Richard M. Heiberger wrote: I upgraded last night to Catali

Re: [R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict

2020-08-03 Thread Duncan Murdoch
Thanks. Looks like I should update. I'm looking forward to the crashes... Duncan Murdoch On 03/08/2020 9:21 a.m., Marc Schwartz wrote: Hi, Just installed rgl and I get the same crash and error message from the original post below, running R from the CLI. If I run R from within ESS (w

Re: [R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict

2020-08-03 Thread Duncan Murdoch
With great trepidation, I installed Catalina. I saw the same crash as reported. Then I reinstalled Xquartz, shut down the Xquartz that was still running (should have done that in the other order!), and tried again: no crash. Hope it stays fixed! Duncan Murdoch On 03/08/2020 9:25 a.m

Re: [R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict

2020-08-03 Thread Duncan Murdoch
It didn't stay fixed. I get crashes about half the time now. I'll see if I can figure out what's going wrong. My guess would be that rather than an rgl bug this is an Xquartz bug, but maybe I can find a way to prevent it. Duncan Murdoch On 03/08/2020 12:54 p.m., Dunca

Re: [R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict

2020-08-03 Thread Duncan Murdoch
will be supported for a few more years. Right now I don't even have svn running (the Catalina update broke it), but eventually things should get back to normal here. Duncan Murdoch On 03/08/2020 4:34 p.m., Simon Urbanek wrote: Duncan, I have seen crashes in rgl with X11 before, in f

[R-SIG-Mac] "cannot run mixed C/Fortran code"

2020-08-04 Thread Duncan Murdoch
) 8.2.0 Copyright (C) 2018 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. If those are the right versions, any other suggestions on how to fix the configure probl

Re: [R-SIG-Mac] "cannot run mixed C/Fortran code"

2020-08-04 Thread Duncan Murdoch
I found the problem. /usr/local/lib had old copies of libgfortran* and libquadmath* from 2015, and removing these allowed things to proceed. The current copies are in /usr/local/gfortran/lib. That directory contains a lot of old junk; I'll probably find more needs to go too. Duncan Mu

[R-SIG-Mac] Workaround for crash due to rgl and base graphics conflict

2020-08-04 Thread Duncan Murdoch
is asynchronous with the main R thread, and in Catalina something about rgl makes it so slow that the window isn't ready when R starts plotting there. But I don't know the quartz() device code, so this might not be right at all. Duncan Murdoch

Re: [R-SIG-Mac] Workaround for crash due to rgl and base graphics conflict

2020-08-04 Thread Duncan Murdoch
ncan Cheers, Simon On 5/08/2020, at 8:51 AM, Duncan Murdoch wrote: I seem to have a workaround for the rgl-related crash. If I insert a one second delay after the first quartz() device is opened but before anything is plotted, then I don't see the crash. This script does that if

[R-SIG-Mac] Running R with lldb

2020-08-05 Thread Duncan Murdoch
tting DYLD_LIBRARY_PATH or LD_LIBRARY_PATH to point there doesn't help (either on the bin/R command line or exported). Is there some other way to run it from whatever directory I happen to be in? Duncan Murdoch On 02/05/2020 11:26 p.m., Simon Urbanek wrote: Vince, Apple no longer allow

Re: [R-SIG-Mac] Running R with lldb

2020-08-05 Thread Duncan Murdoch
<+20>: retq Target 0: (R) stopped. Duncan Murdoch On 05/08/2020 10:16 a.m., Prof Brian Ripley wrote: One of the suggestions in https://cran.r-project.org/doc/manuals/r-devel/R-exts.html#Debugging-on-macOS should help. Both worked for my build of R-devel yesterday On 05/08/2020 14

[R-SIG-Mac] bzip2 configure error

2020-08-28 Thread Duncan Murdoch
g library function 'strcmp' with type 'int (const char *, const char *)' [-Werror,-Wimplicit-function-declaration] exit(strcmp(ver, "1.0.6") < 0); ^ conftest.c:251:10: note: include the header or explicitly

Re: [R-SIG-Mac] bzip2 configure error

2020-08-29 Thread Duncan Murdoch
I seem to have got past this error by reinstalling Xcode. I'm not sure what went wrong with the old install; I'm pretty sure I did an R-devel build since installing Catalina. Duncan Murdoch On 28/08/2020 10:41 a.m., Duncan Murdoch wrote: I'm trying to build R-devel in Catalin

Re: [R-SIG-Mac] plot window not showing most recent plot?

2020-09-05 Thread Duncan Murdoch
Which front end are you using? The cmd-] and cmd-[ don't do anything in the ones I'm using. Duncan Murdoch On 05/09/2020 8:23 a.m., Timothy Bates wrote: In R version: R version 4.0.2 (2020-06-22), I’m seeing the plot window not advance when a new ggplot is drawn. calls to plot() a

Re: [R-SIG-Mac] R 4.0.2 GUI does not terminate with Cmd+Q

2020-10-29 Thread Duncan Murdoch
, if I type the command q() it seems it's doing the expected thing. Any advice? I'm not seeing that with the current release, 4.0.3 R.app GUI 1.73 (7892) x86_64-apple-darwin17.0. So I'd suggest updating. Duncan Murdoch ___ R-SIG-Mac

[R-SIG-Mac] Recommended version of Xcode?

2020-11-02 Thread Duncan Murdoch
The https://mac.r-project.org/ page says that R is now built with Xcode 11.4. Is this still correct? There are several newer versions available (11.5, 11.6, 11.7, 12, 12.0.1, 12.1). Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org

Re: [R-SIG-Mac] Recommended version of Xcode?

2020-11-03 Thread Duncan Murdoch
Thanks for pointing that out. Which version are you using? Duncan Murdoch On 03/11/2020 2:08 a.m., Adrian Dușa wrote: For some reason, I was recently unable to update my Xcode and digged a little bit. One solution was to completely uninstall it and do a fresh install, a process in which I

Re: [R-SIG-Mac] CRAN package checks on M1 Mac

2020-12-21 Thread Duncan Murdoch
) To see what it looks like without OpenGL on Windows, try Sys.setenv(RGL_NO_OPENGL = TRUE) before the install, or on a Unix-alike, install.packages("rgl", repos="http://R-Forge.R-project.org";, INSTALL_opts = '--configure-args="--disable-opengl"&#x

Re: [R-SIG-Mac] CRAN package checks on M1 Mac

2020-12-22 Thread Duncan Murdoch
Symbol not found: _XAllocClassHint. But even if this is eventually fixed, these changes make installing rgl a lot easier. Duncan Murdoch Best,X Taras On 21 Dec 2020, at 17:32, Duncan Murdoch wrote: Along the same lines: I have been working with Prof Ripley to get rgl to work on

Re: [R-SIG-Mac] R for macOS Big Sur

2021-01-14 Thread Duncan Murdoch
ttps://cran.r-project.org/bin/macosx/ contains a build of R 4.0.3 that is "for macOS 10.13 (High Sierra) and higher". That's what Jean Thiolouse was referring to. It's possible that the package on CRAN doesn't work on your system, but it doe

Re: [R-SIG-Mac] Missing R and RScript on /usr/bin/ on Big Sur

2021-01-17 Thread Duncan Murdoch
from homebrew to the binary form cran. I'm not on Big Sur, but I see this: $ which R /usr/local/bin/R So maybe you're looking in the wrong place? Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

[R-SIG-Mac] rgl and x11 failures on MacOS

2021-02-09 Thread Duncan Murdoch
t what needs to be deleted so that the XQuartz install will work. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] [External] Please test R 4.0.4 RC

2021-02-13 Thread Duncan Murdoch
at setting Sys.setenv(DISPLAY=":0.0") fixes it. Others say that didn't work. I'm still running the beta, and haven't seen any issues. Maybe I'll try going back to 2.7.11 to see if I can trigger things. Duncan Murdoch __

Re: [R-SIG-Mac] How to find the path for a file to be read with read.table() in a Mac

2021-02-13 Thread Duncan Murdoch
ace in my Mac that I can put the file so I could enter just the file name, and not the whole path? It doesn't make sense to use backslashes in the path: macOS will see those as part of the name, not as path separators. Just use read.table("/Users/DFP/Desktop/moabsitechm") if t

Re: [R-SIG-Mac] How to find the path for a file to be read with read.table() in a Mac

2021-02-13 Thread Duncan Murdoch
ace in my Mac that I can put the file so I could enter just the file name, and not the whole path? Sorry, forget to answer your actual question: You can use getwd() to find the working directory. If you put the file there, you won't need to specify the path

Re: [R-SIG-Mac] [External] Re: [External] Please test R 4.0.4 RC

2021-02-13 Thread Duncan Murdoch
Have you tried the change to DISPLAY, i.e. Sys.setenv(DISPLAY=":0.0") before running X11()? Duncan Murdoch On 13/02/2021 3:50 p.m., Richard M. Heiberger wrote: I tried this. It made no difference. Both before and after running sudo xcode-select —install I ran (in both cases, in a

Re: [R-SIG-Mac] [External] Re: [External] Re: [External] Please test R 4.0.4 RC

2021-02-13 Thread Duncan Murdoch
tenv(DISPLAY=":0.0") again in future sessions, and I would guess the socket will be recreated the next time you restart the system (or maybe on login). Duncan Murdoch On 13/02/2021 4:21 p.m., Richard M. Heiberger wrote: That is next. Again a fresh session. setwd('/Use

Re: [R-SIG-Mac] [External] Re: [External] Please test R 4.0.4 RC

2021-02-13 Thread Duncan Murdoch
lar version during my build, or at least detect that the wrong version is installed? Duncan Murdoch Cheers, Simon On Feb 14, 2021, at 9:50 AM, Richard M. Heiberger wrote: I tried this. It made no difference. Both before and after running sudo xcode-select —install I ran (in both cases, in

Re: [R-SIG-Mac] [External] Re: [External] Please test R 4.0.4 RC

2021-02-13 Thread Duncan Murdoch
is present, but it only works for users that have dev tools installed, so not a good idea in general. Okay, thanks. I already have a no-X11 workaround; I'll just change the error message if the dyn.load() fails. Duncan Cheers, Simon On Feb 14, 2021, at 11:32 AM, Duncan Murdoch w

Re: [R-SIG-Mac] [External] Re: [External] Re: [External] Re: [External] Please test R 4.0.4 RC

2021-02-13 Thread Duncan Murdoch
. Relogin, and things seem fine. Duncan Murdoch On 13/02/2021 7:22 p.m., Richard M. Heiberger wrote: It is looking for: missing xcrun at: /Library/Developer/CommandLineTools/usr/bin/xcrun This is the entirety of /Library/Developer/CommandLineTools/usr/share/ /Library/Developer

Re: [R-SIG-Mac] [External] Re: [External] Re: [External] Re: [External] Please test R 4.0.4 RC

2021-02-14 Thread Duncan Murdoch
current CRAN binary (0.104.16) was already compiled for 2.7.11, so it's also fine now. If you install rgl from source after the XQuartz version change, you should be okay. Duncan Murdoch Peter — p...@ehealth.id.au <mailto:p...@ehealth.id.au> Moved with pity, he stretched out h

Re: [R-SIG-Mac] more rgl problems

2021-02-18 Thread Duncan Murdoch
unchAgents/org.xquartz.startx.plist and /Library/LaunchDaemons/org.xquartz.startx.plist files and reboot, but I haven't tried that. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] more rgl problems

2021-02-18 Thread Duncan Murdoch
() error: xp_attach_gl_context returned: 2 *** caught segfault *** address 0x18, cause 'memory not mapped' but that might just be a different way of reporting the same underlying issue. It's clearly some kind of interaction between the Quartz device and rgl. I'll see if I can tra

Re: [R-SIG-Mac] more rgl problems

2021-02-18 Thread Duncan Murdoch
On 18/02/2021 6:14 a.m., Peter West wrote: Yes, I went through that process. I have no org.xquartz.* files in /Library Launch* now. If you run x11(), does it cause the same issue? What about not starting R at all, and just running some X11 app like xclock from the terminal? Duncan Murdoch

Re: [R-SIG-Mac] more rgl problems

2021-02-18 Thread Duncan Murdoch
On 18/02/2021 7:15 a.m., Peter West wrote: I’ve enabled /opt/X11/libexec/launchd_startx for full disk access in Security & Privacy, but it hasn’t fixed the problem. In any case, it's a generic XQuartz problem, not related to R or rgl. Duncan ___ R-

Re: [R-SIG-Mac] more rgl problems

2021-02-18 Thread Duncan Murdoch
iles with older install dates, especially dates around Feb 2, when I had installed 2.8.0beta. The /Library/Launch* files showed up that way. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] more rgl problems

2021-02-18 Thread Duncan Murdoch
stroyed, but I still don't like it. I'll try it out a bit, and then push it to Github for others to test. Duncan Murdoch On 18/02/2021 6:28 a.m., Duncan Murdoch wrote: I can reproduce this on a Catalina machine, working in R from the terminal. This definitely looks similar to

Re: [R-SIG-Mac] [External] Re: more rgl problems

2021-02-20 Thread Duncan Murdoch
y; that won't really test the workaround. In that case I'll try to build a binary for your R version. Duncan Murdoch On 18/02/2021 6:07 p.m., Richard M. Heiberger wrote: This is from my MacBook Air mid-2012 running Catalina 10.15.7 with Xquartz 2.7.11 I never placed the beta on this ma

Re: [R-SIG-Mac] R CMD …

2021-02-20 Thread Duncan Murdoch
thin the GUI using system("R CMD ...") Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] [External] tcltk on M1 mac?

2021-05-25 Thread Duncan Murdoch
may not be relevant. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

[R-SIG-Mac] Minor bug in R.app GUI

2021-06-07 Thread Duncan Murdoch
soon as I type anything else, it pops back up. Duncan Murdoch Sessioninfo: R version 4.0.5 Patched (2021-04-30 r80294) Platform: x86_64-apple-darwin17.0 (64-bit) Running under: macOS Catalina 10.15.7 Matrix products: default BLAS: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib

Re: [R-SIG-Mac] Minor bug in R.app GUI

2021-06-08 Thread Duncan Murdoch
Just updated to R 4.1.0 and R.app 1.76 (7976), and this has apparently been fixed. Sorry for the noise! Duncan Murdoch On 07/06/2021 10:07 a.m., Duncan Murdoch wrote: When running in R.app (sessionInfo below; this is not quite the latest, sorry) I see the following minor issue: When typing

Re: [R-SIG-Mac] r-sig-mac@r-project.org - "You can’t open the application “R” because this application is not supported on this Mac"

2021-07-17 Thread Duncan Murdoch
27;t want the arm64 download, you want https://cran.r-project.org/bin/macosx/base/R-4.1.0.pkg It is listed on the web site as "High Sierra and higher", so it should work on Big Sur, but only if you have an Intel chip. Duncan Murdoch Your support is much appreciated. Lindsay Fore

Re: [R-SIG-Mac] rgl in R version 4.1.1 Patched (2021-08-13 r80752)

2021-08-19 Thread Duncan Murdoch
amespace in /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library/rgl/libs/rgl.so That looks like a symbol in the harfbuzz lib. rgl doesn't reference it directly, I think FreeType does. I don't know what you need to do to fix this, but maybe that's enough

Re: [R-SIG-Mac] rgl in R version 4.1.1 Patched (2021-08-13 r80752)

2021-08-19 Thread Duncan Murdoch
::install_github("dmurdoch/rgl@configpatch") Duncan Murdoch On 19/08/2021 6:08 p.m., Simon Urbanek wrote: R (and the CRAN builds) use more recent static freetype with harfbuzz support so it does not depend for those in XQuartz. The issue is that rgl doesn't use sufficient flags to compile a

Re: [R-SIG-Mac] rgl in R version 4.1.1 Patched (2021-08-13 r80752)

2021-08-20 Thread Duncan Murdoch
1971542] surface notify updated 0 2021-08-20 08:00:47.470340-0400 R[79608:1971542] caller is the same thread for uid 49 They don't seem to lead to any problems, but maybe on an ARM they're more serious. Anyway, so if you can post the fixed release I'd be happy the recomp

Re: [R-SIG-Mac] rgl in R version 4.1.1 Patched (2021-08-13 r80752)

2021-08-21 Thread Duncan Murdoch
The rgl patch was accepted by CRAN an hour ago, so you should see it soon. Duncan Murdoch On 19/08/2021 8:57 p.m., Simon Urbanek wrote: Duncan, using that checkout I get * checking package dependencies ... ERROR Package suggested but not available: ‘webshot2’ but otherwise it works as

Re: [R-SIG-Mac] .libPaths and library directory

2021-09-05 Thread Duncan Murdoch
l - In Other Location - As defined by .libPaths() Which of those are you choosing? Duncan Murdoch I don't remember at which exact version this started to happen (it was also present in 4.1.0), and could not find any particular setting that I should tweak to make these equal. This is the

Re: [R-SIG-Mac] Retrieving Script Path in R.app

2021-10-10 Thread Duncan Murdoch
doesn't call source(). My conclusion would be to use RStudio rather than the R.app editor. I prefer R.app for interactive use, but not at all for code development. Duncan Murdoch On 09/10/2021 11:23 p.m., Andrew Simmons wrote: Hello, I'd like to programmatically retrieve the pat

Re: [R-SIG-Mac] Rmpfr crashes on Mac

2021-11-28 Thread Duncan Murdoch
On 28/11/2021 7:05 a.m., Erich Neuwirth wrote: I checked, and I also get the crash in Rstudio. In Rgui, it works. I don't get the crash, using R 4.1.0 in MacOS 10.15.7, with the same Rmpfr version in RStudio or R.app. Duncan Murdoch On 27.11.2021, at 21:46, Dev Chakraborty wrot

Re: [R-SIG-Mac] Compiling Cairo package

2021-12-26 Thread Duncan Murdoch
type = "source", configure.args = "--x-includes=/opt/X11/include --x-libraries=/opt/X11/lib") Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Contributing to documentation [Was: Installing gfortran]

2022-04-30 Thread Duncan Murdoch
f making helpful contributions: they like help, they don't like arguments about how to do things. (I'm saying this as a former member of R Core.) Duncan Murdoch The problem is that generally they cannot. You are looking something up, because you don't know about it s

Re: [R-SIG-Mac] Contributing to documentation [Was: Installing gfortran]

2022-04-30 Thread Duncan Murdoch
but that's not what they should be editing. Often problems there were dealt with months ago, and just weren't seen as important enough to backport to the R-patched branch so they never made it into a release. Duncan Murdoch The bigger impedance is that people who are good with do

Re: [R-SIG-Mac] CRAN installer for macOS - directory permissions

2022-06-03 Thread Duncan Murdoch
ge in the personal library if it is already installed in the system library. Duncan Murdoch On 03/06/2022 12:45 p.m., Henrik Bengtsson wrote: I see two fairly big problems with users installing R packages to .Library by default. One is related to package checking and CRAN, and one is relat

Re: [R-SIG-Mac] CRAN installer for macOS - directory permissions

2022-06-03 Thread Duncan Murdoch
on a specific proposal to make. Duncan Murdoch /Henrik On Fri, Jun 3, 2022 at 10:38 AM Duncan Murdoch wrote: On 03/06/2022 1:21 p.m., Peter Dalgaard wrote: Eek! No, just no... That way users can't upgrade a package for himself on a multi-user system if the sysop won't do it f

Re: [R-SIG-Mac] CRAN installer for macOS - directory permissions

2022-06-03 Thread Duncan Murdoch
roup, and that group has permission to change the system library. That's the point that Patrick made in his original message. He was asking to change the installer so that privilege escalations *would* be required. Duncan Murdoch On June 3, 2022 10:01:25 AM PDT, Duncan Murdoch wro

Re: [R-SIG-Mac] CRAN installer for macOS - directory permissions

2022-06-08 Thread Duncan Murdoch
, they could modify the second lib, but only reinstalls of R would change the first one. On a multi-user system there would typically be another lib in the user account. Duncan Murdoch On 03/06/2022 12:45 p.m., Henrik Bengtsson wrote: I see two fairly big problems with users installing R packag

Re: [R-SIG-Mac] Cannot open PDF Vignettes on Ventura

2023-02-06 Thread Duncan Murdoch
] called within transaction Kevin Hi Kevin. If you just run `open some.pdf` in a terminal, does it open properly in Preview? Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Cannot open PDF Vignettes on Ventura

2023-02-06 Thread Duncan Murdoch
On 06/02/2023 6:01 p.m., Kevin Thorpe wrote: When I try to open a PDF vignette (say a vignette from the survival package)from the help system in R it does not open Preview. I cannot actually open any PDF vignettes. All I get is a finder window with the error I previously described. It asks me

Re: [R-SIG-Mac] Cannot open PDF Vignettes on Ventura

2023-02-06 Thread Duncan Murdoch
That worked for me. I deleted two plugins from the global /Library/Internet\ Plug-Ins folder named AdobePDFViewer.plugin AdobePDFViewerNPAPI.plugin and dated from 2020. Now things are fine. Duncan Murdoch On 06/02/2023 7:36 p.m., Simon Urbanek wrote: Kevin, oh, that's some

Re: [R-SIG-Mac] List of unnecessary messages when I plot something in R from Terminal

2023-02-11 Thread Duncan Murdoch
That's right. The releases are based on what's known when they are released, not what will be known in the future. And statisticians are supposed to be good at prediction... Duncan Murdoch On 11/02/2023 4:53 p.m., Jeff Newmiller wrote: Operating systems are designed to be a

Re: [R-SIG-Mac] Please test R 4.3.0 RC, more information below

2023-04-18 Thread Duncan Murdoch
ar 2023 month 04 day13 svn rev84266 language R version.string R version 4.3.0 RC (2023-04-13 r84266) nickname Already Tomorrow but when I choose "About R" in the GUI, I see 4.2.3 reported. Maybe I've got both installed, and that'

Re: [R-SIG-Mac] Please test R 4.3.0 RC, more information below

2023-04-18 Thread Duncan Murdoch
On 18/04/2023 12:58 p.m., Duncan Murdoch wrote: Hi Simon. I'm seeing crashes when I try to compile rgl and run it in the new R on my Intel notebook. I only installed R, I didn't update all the libs/tools/etc. The crash report is copied below. One oddity I notice on the 4th line of

Re: [R-SIG-Mac] question about using edit() function on mac

2023-04-21 Thread Duncan Murdoch
#x27;t think so: that wouldn't really be compatible with maintaining the size. (3) Finally, and less importantly to me, is there any way to select the font style and the font size that is used in the edit window? As far as I can see, no. Duncan Murdoch _

Re: [R-SIG-Mac] [R-pkg-devel] 'Default' macos (x86) download URL now gone?

2023-04-23 Thread Duncan Murdoch
ld be created. Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Problems compiling with R CMD build and devtools::build()

2023-05-17 Thread Duncan Murdoch
I think the simplest solution is to remove the gfortran you installed, and then install it back using the installer on https://mac.r-project.org/tools/ Duncan Murdoch On 17/05/2023 1:26 p.m., Jarrett Phillips wrote: Hi Rodney, When I paste the directories into the Terminal, I get no such

Re: [R-SIG-Mac] Problems compiling with R CMD build and devtools::build()

2023-05-17 Thread Duncan Murdoch
where yours had -L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.6.0/12.0.1 -L/opt/R/arm64/gfortran/lib -lgfortran i.e. gfortran is in /opt/gfortran, not /opt/R/arm64/gfortran. But I don't know if that difference is expected or not. Duncan Murdoch On 17/05/2023 2:43 p.m., Jarret

Re: [R-SIG-Mac] Issue with Installer on Mac OS Ventura 13.4

2023-05-25 Thread Duncan Murdoch
Adrian's comment reminded me of a post from Simon on Feb 8: Apparently there is a bug in Ventura that prevents software installation from the Downloads folder. Once the installer package is moved someplace else - the home or Desktop - it works. So if you see "Installation failed", make sure yo

Re: [R-SIG-Mac] Serious problem with R on macOS

2023-06-08 Thread Duncan Murdoch
ework/Versions/4.3-x86_64/Resources/library" but maybe not identical to that. Running ls on that directory in the terminal should list all the installed packages (including datasets and everything else that is supposed to be installed). Duncan Murdoch On 08/06/2023 3:16 p.m., John Helly via R-

Re: [R-SIG-Mac] R 4.3.1 fails to load

2023-07-22 Thread Duncan Murdoch
o see which line in it is causing this (if it is actually .Rprofile that is the problem). Duncan Murdoch On 22/07/2023 4:29 p.m., Carl Witthoft wrote: Neither R.app Gui nor R from command line will work. This is 4.3.1 , MacOS 13.4 on an x86 (and yes, that's the version I installed).

Re: [R-SIG-Mac] 4.3.1 fails to load

2023-07-23 Thread Duncan Murdoch
it work in x.y.(z+1), but not in x.(y+1).z'. Errors like that are what "checkBuilt" is looking for. I don't know what "Update All" is doing; that's some front end calling R. Duncan Murdoch The problem remains not-solved, because (prior to updating everyt

Re: [R-SIG-Mac] R

2023-10-17 Thread Duncan Murdoch
CRAN, but in case they messed up this time, you might try downloading from the main site instead: https://cran.r-project.org/bin/macosx/ Duncan Murdoch On 17/10/2023 8:25 a.m., nina.moel...@uni-jena.de wrote: Hello, I wanted to Download R for a Seminar at FSU Jena and read the posting Guid

Re: [R-SIG-Mac] Graphics in R, version 4.3.2, does not work well in MacOS

2024-02-16 Thread Duncan Murdoch
I don't think you have described how you installed R. Did you use the installer from CRAN, or build it yourself, or get it from some other source like Homebrew or MacPorts? Duncan Murdoch On 16/02/2024 4:25 a.m., María de los Ángeles Casares de Cal via R-SIG-Mac wrote: Dear Simo

[R-SIG-Mac] Permission issues running R in terminal

2024-02-18 Thread Duncan Murdoch
ng it? Duncan Murdoch ___ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Permission issues running R in terminal

2024-02-19 Thread Duncan Murdoch
: getcwd: cannot access parent directories: No such file or directory ... (because BUILD-dist is wiped and re-created by the automatic builds, but the shell still refers to the unlinked directory.) -pd On 18 Feb 2024, at 23:57 , Duncan Murdoch wrote: I wanted to see the options to R CMD INSTALL

<    1   2   3   >