[R-SIG-Mac] List of unnecessary messages when I plot something in R from Terminal
Christofer Bogaso
bog@@o@chr|@to|er @end|ng |rom gm@||@com
Sun Feb 12 15:20:22 CET 2023
Thanks for all your inputs.
However I now installed latest version of R and still facing the same
problem. Normally these messages don't come, but they appear when I
make Quartz active window (i.e. bring this front)
> sessionInfo()
R version 4.2.2 (2022-10-31)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur ... 10.16
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib
locale:
[1] C/UTF-8/C/C/C/C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] compiler_4.2.2
On Sun, Feb 12, 2023 at 5:14 PM Calboli Federico (LUKE)
<federico.calboli using luke.fi> wrote:
>
> Brian,
>
> I can then report that on R 4.2.2 on aarch64-apple-darwin20 (64-bit), MacOS 13.2
>
> plot(1:4)
>
> returns a plot with no warnings nor other unexpected output, so Christofer’s problem is limited to the x86 achitecture.
>
>
>
>
>
> > On 12. Feb 2023, at 13.33, Prof Brian Ripley <ripley using stats.ox.ac.uk> wrote:
> >
> > Please do read ?sessionInfo
> >
> > Where R was compiled under macOS 10.x (as the CRAN Intel
> > distributions have been) but running under ‘Big Sur’ or later,
> > macOS reports itself as ‘10.16’ (which R recognizes as ‘Big Sur
> > ...’) and not ‘11.x’ or later.
> >
> > This is only an issue on Intel binary distributions: the arm64 ones are built on macOS 11.
> >
> > On 12/02/2023 09:48, Calboli Federico (LUKE) wrote:
> >> Pretty use R does disinguish MacOS versions:
> >>> sessionInfo()
> >> R version 4.2.2 (2022-10-31)
> >> Platform: aarch64-apple-darwin20 (64-bit)
> >> Running under: macOS Ventura 13.2
> >> for me. So if one is on Ventura but R thinks it is running on a different OS, that’s a starting point right there.
> >> BW
> >> F
> >>> On 11. Feb 2023, at 23.53, Jeff Newmiller <jdnewmil using dcn.davis.ca.us> wrote:
> >>>
> >>> Operating systems are designed to be as backward-compatible as possible... R Core doesn't generally know what distinguishing features will identify a new OS until it is released, nor what it will be called, so R has a handicap.
> >>>
> >>> On February 11, 2023 1:12:42 PM PST, Christofer Bogaso <bogaso.christofer using gmail.com> wrote:
> >>>> Actually when I check from the Apple icon, then I see that I am
> >>>> actually running Ventura
> >>>>
> >>>> For some reason, R's sessionInfo() is reporting that I am running Big Sur.
> >>>>
> >>>> Not sure why R is reporting wrong. Thanks,
> >
> > 'macOS Big Sur ...' is not 'wrong'.
> >
> >>>> On Sun, Feb 12, 2023 at 2:38 AM Christofer Bogaso
> >>>> <bogaso.christofer using gmail.com> wrote:
> >>>>>
> >>>>> Hi,
> >>>>>
> >>>>> I am running Big Sur. Below is my sessionInfo()
> >>>>>
> >>>>>> sessionInfo()
> >>>>>
> >>>>> R version 4.2.1 (2022-06-23)
> >>>>>
> >>>>> Platform: x86_64-apple-darwin17.0 (64-bit)
> >>>>>
> >>>>> Running under: macOS Big Sur ... 10.16
> >>>>>
> >>>>>
> >>>>> Matrix products: default
> >>>>>
> >>>>> BLAS: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
> >>>>>
> >>>>> LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib
> >>>>>
> >>>>>
> >>>>> locale:
> >>>>>
> >>>>> [1] C/UTF-8/C/C/C/C
> >>>>>
> >>>>>
> >>>>> attached base packages:
> >>>>>
> >>>>> [1] stats graphics grDevices utils datasets methods base
> >>>>>
> >>>>>
> >>>>> loaded via a namespace (and not attached):
> >>>>>
> >>>>> [1] compiler_4.2.1
> >>>>>
> >>>>> On Sun, Feb 12, 2023 at 1:55 AM Simon Urbanek
> >>>>> <simon.urbanek using r-project.org> wrote:
> >>>>>>
> >>>>>> Christofer,
> >>>>>>
> >>>>>> yes, unfortunately this is a known bug in macOS Ventura affecting a lot of command-line programs that use GUI. Do not upgrade to Ventura (usually a good advice given the long list of known bugs in Ventura) or wait for a fix from Apple.
> >>>>>>
> >>>>>> Cheers,
> >>>>>> Simon
> >>>>>>
> >>>>>>
> >>>>>>
> >>>>>>> On Feb 11, 2023, at 11:28 PM, Christofer Bogaso <bogaso.christofer using gmail.com> wrote:
> >>>>>>>
> >>>>>>> Hi,
> >>>>>>>
> >>>>>>> When I plot something in R, then it open Quartz and in the console I
> >>>>>>> see below messages
> >>>>>>>
> >>>>>>>> plot(1:4)
> >>>>>>>
> >>>>>>>> 1 HIToolbox 0x00007ff8229a2726 _ZN15MenuBarInstance22EnsureAutoShowObserverEv + 102
> >>>>>>>
> >>>>>>> 2 HIToolbox 0x00007ff8229a22b8
> >>>>>>> _ZN15MenuBarInstance14EnableAutoShowEv + 52
> >>>>>>>
> >>>>>>> 3 HIToolbox 0x00007ff822946908
> >>>>>>> SetMenuBarObscured + 408
> >>>>>>>
> >>>>>>> 4 HIToolbox 0x00007ff8229464ca
> >>>>>>> _ZN13HIApplication15HandleActivatedEP14OpaqueEventRefhP15OpaqueWindowPtrh
> >>>>>>> + 164
> >>>>>>>
> >>>>>>> 5 HIToolbox 0x00007ff822940996
> >>>>>>> _ZN13HIApplication13EventObserverEjP14OpaqueEventRefPv + 252
> >>>>>>>
> >>>>>>> 6 HIToolbox 0x00007ff822908bd2
> >>>>>>> _NotifyEventLoopObservers + 153
> >>>>>>>
> >>>>>>> 7 HIToolbox 0x00007ff8229403e6
> >>>>>>> AcquireEventFromQueue + 494
> >>>>>>>
> >>>>>>> 8 HIToolbox 0x00007ff82292f3ec
> >>>>>>> ReceiveNextEventCommon + 285
> >>>>>>>
> >>>>>>> 9 HIToolbox 0x00007ff82292f2b3
> >>>>>>> _BlockUntilNextEventMatchingListInModeWithFilter + 70
> >>>>>>>
> >>>>>>> 10 AppKit 0x00007ff81c136f33 _DPSNextEvent + 909
> >>>>>>>
> >>>>>>> 11 AppKit 0x00007ff81c135db4
> >>>>>>> -[NSApplication(NSEvent)
> >>>>>>> _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1219
> >>>>>>>
> >>>>>>> 12 grDevices.so 0x00000001086f7a3b input_handler + 155
> >>>>>>>
> >>>>>>> 13 libR.dylib 0x0000000108b142cf
> >>>>>>> Rstd_ReadConsole + 2127
> >>>>>>>
> >>>>>>> 14 libR.dylib 0x0000000108a15b74
> >>>>>>> Rf_ReplIteration + 100
> >>>>>>>
> >>>>>>> 15 libR.dylib 0x0000000108a174b1 R_ReplConsole + 161
> >>>>>>>
> >>>>>>> 16 libR.dylib 0x0000000108a17402 run_Rmainloop + 82
> >>>>>>>
> >>>>>>> 17 libR.dylib 0x0000000108a1753e Rf_mainloop + 14
> >>>>>>>
> >>>>>>> 18 R 0x000000010847af5b main + 27
> >>>>>>>
> >>>>>>> 19 dyld 0x00007ff818bde310 start + 2432
> >>>>>>>
> >>>>>>> 1 HIToolbox 0x00007ff822aa952b
> >>>>>>> _ZN15MenuBarInstance21IsAutoShowHideAllowedEv + 259
> >>>>>>>
> >>>>>>> 2 HIToolbox 0x00007ff8229a233e
> >>>>>>> _ZN15MenuBarInstance24UpdateAutoShowVisibilityE5Pointh + 34
> >>>>>>>
> >>>>>>> 3 HIToolbox 0x00007ff8229117a4
> >>>>>>> _ZN15MenuBarInstance16ForEachMenuBarDoEU13block_pointerFvPS_E + 46
> >>>>>>>
> >>>>>>> 4 HIToolbox 0x00007ff8229a293d
> >>>>>>> _ZN15MenuBarInstance20AutoShowHideObserverEjP14OpaqueEventRefPv + 165
> >>>>>>>
> >>>>>>> 5 HIToolbox 0x00007ff822908bd2
> >>>>>>> _NotifyEventLoopObservers + 153
> >>>>>>>
> >>>>>>> 6 HIToolbox 0x00007ff82293afb8
> >>>>>>> PostEventToQueueInternal + 700
> >>>>>>>
> >>>>>>> 7 HIToolbox 0x00007ff82293c871
> >>>>>>> _ZL29CreateAndPostEventWithCGEventP9__CGEventjhP17__CFMachPortBoost +
> >>>>>>> 404
> >>>>>>>
> >>>>>>> 8 HIToolbox 0x00007ff822948ee9
> >>>>>>> _ZL15Convert1CGEventh + 246
> >>>>>>>
> >>>>>>> 9 HIToolbox 0x00007ff822948d91
> >>>>>>> _ZL16MainLoopObserverjP14OpaqueEventRefPv + 41
> >>>>>>>
> >>>>>>> 10 HIToolbox 0x00007ff822908bd2
> >>>>>>> _NotifyEventLoopObservers + 153
> >>>>>>>
> >>>>>>> 11 HIToolbox 0x00007ff82292f726
> >>>>>>> RunCurrentEventLoopInMode + 228
> >>>>>>>
> >>>>>>> 12 HIToolbox 0x00007ff82292f396
> >>>>>>> ReceiveNextEventCommon + 199
> >>>>>>>
> >>>>>>> 13 HIToolbox 0x00007ff82292f2b3
> >>>>>>> _BlockUntilNextEventMatchingListInModeWithFilter + 70
> >>>>>>>
> >>>>>>> 14 AppKit 0x00007ff81c136f33 _DPSNextEvent + 909
> >>>>>>>
> >>>>>>> 15 AppKit 0x00007ff81c135db4
> >>>>>>> -[NSApplication(NSEvent)
> >>>>>>> _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1219
> >>>>>>>
> >>>>>>> 16 grDevices.so 0x00000001086f7a3b input_handler + 155
> >>>>>>>
> >>>>>>> 17 libR.dylib 0x0000000108b142cf
> >>>>>>> Rstd_ReadConsole + 2127
> >>>>>>>
> >>>>>>> 18 libR.dylib 0x0000000108a15b74
> >>>>>>> Rf_ReplIteration + 100
> >>>>>>>
> >>>>>>> 19 libR.dylib 0x0000000108a174b1 R_ReplConsole + 161
> >>>>>>>
> >>>>>>> 20 libR.dylib 0x0000000108a17402 run_Rmainloop + 82
> >>>>>>>
> >>>>>>> 21 libR.dylib 0x0000000108a1753e Rf_mainloop + 14
> >>>>>>>
> >>>>>>> 22 R 0x000000010847af5b main + 27
> >>>>>>>
> >>>>>>> 23 dyld 0x00007ff818bde310 start + 2432
> >>>>>>>
> >>>>>>> 1 HIToolbox 0x00007ff82292f0c2
> >>>>>>> _ZN15MenuBarInstance22RemoveAutoShowObserverEv + 30
> >>>>>>>
> >>>>>>> 2 HIToolbox 0x00007ff8229467e3
> >>>>>>> SetMenuBarObscured + 115
> >>>>>>>
> >>>>>>> 3 HIToolbox 0x00007ff82294d29e
> >>>>>>> _ZN13HIApplication11FrontUILostEv + 34
> >>>>>>>
> >>>>>>> 4 HIToolbox 0x00007ff822946622
> >>>>>>> _ZN13HIApplication15HandleActivatedEP14OpaqueEventRefhP15OpaqueWindowPtrh
> >>>>>>> + 508
> >>>>>>>
> >>>>>>> 5 HIToolbox 0x00007ff822940950
> >>>>>>> _ZN13HIApplication13EventObserverEjP14OpaqueEventRefPv + 182
> >>>>>>>
> >>>>>>> 6 HIToolbox 0x00007ff822908bd2
> >>>>>>> _NotifyEventLoopObservers + 153
> >>>>>>>
> >>>>>>> 7 HIToolbox 0x00007ff8229403e6
> >>>>>>> AcquireEventFromQueue + 494
> >>>>>>>
> >>>>>>> 8 HIToolbox 0x00007ff82292f3ec
> >>>>>>> ReceiveNextEventCommon + 285
> >>>>>>>
> >>>>>>> 9 HIToolbox 0x00007ff82292f2b3
> >>>>>>> _BlockUntilNextEventMatchingListInModeWithFilter + 70
> >>>>>>>
> >>>>>>> 10 AppKit 0x00007ff81c136f33 _DPSNextEvent + 909
> >>>>>>>
> >>>>>>> 11 AppKit 0x00007ff81c135db4
> >>>>>>> -[NSApplication(NSEvent)
> >>>>>>> _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1219
> >>>>>>>
> >>>>>>> 12 grDevices.so 0x00000001086f7a77 input_handler + 215
> >>>>>>>
> >>>>>>> 13 libR.dylib 0x0000000108b142cf
> >>>>>>> Rstd_ReadConsole + 2127
> >>>>>>>
> >>>>>>> 14 libR.dylib 0x0000000108a15b74
> >>>>>>> Rf_ReplIteration + 100
> >>>>>>>
> >>>>>>> 15 libR.dylib 0x0000000108a174b1 R_ReplConsole + 161
> >>>>>>>
> >>>>>>> 16 libR.dylib 0x0000000108a17402 run_Rmainloop + 82
> >>>>>>>
> >>>>>>> 17 libR.dylib 0x0000000108a1753e Rf_mainloop + 14
> >>>>>>>
> >>>>>>> 18 R 0x000000010847af5b main + 27
> >>>>>>>
> >>>>>>> 19 dyld 0x00007ff818bde310 start + 2432
> >>>>>>>
> >>>>>>> I am using R through Terminal in my Mac
> >>>>>>>
> >>>>>>>> sessionInfo()
> >>>>>>>
> >>>>>>> R version 4.2.1 (2022-06-23)
> >>>>>>>
> >>>>>>> Platform: x86_64-apple-darwin17.0 (64-bit)
> >>>>>>>
> >>>>>>> Running under: macOS Big Sur ... 10.16
> >>>>>>>
> >>>>>>>
> >>>>>>> Matrix products: default
> >>>>>>>
> >>>>>>> BLAS: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
> >>>>>>>
> >>>>>>> LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib
> >>>>>>>
> >>>>>>>
> >>>>>>> locale:
> >>>>>>>
> >>>>>>> [1] C/UTF-8/C/C/C/C
> >>>>>>>
> >>>>>>>
> >>>>>>> attached base packages:
> >>>>>>>
> >>>>>>> [1] stats graphics grDevices utils datasets methods base
> >>>>>>>
> >>>>>>>
> >>>>>>> loaded via a namespace (and not attached):
> >>>>>>>
> >>>>>>> [1] compiler_4.2.1
> >>>>>>>
> >>>>>>> Is there any way to stop/hide these messages?
> >>>>>>>
> >>>>>>> Thanks for your time.
> >>>>>>>
> >>>>>>> _______________________________________________
> >>>>>>> R-SIG-Mac mailing list
> >>>>>>> R-SIG-Mac using r-project.org
> >>>>>>> https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-sig-mac&data=05%7C01%7Cfederico.calboli%40luke.fi%7C2545a878fd4f452ed61f08db0cecefa0%7C7c14dfa4c0fc47259f0476a443deb095%7C0%7C0%7C638117983997435219%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=TIW9D9MUWNyVczTdxDMF0U79yrB%2FlVd3P7rZ%2FVQdY%2FM%3D&reserved=0
> >>>>>>>
> >>>>>>
> >>>>
> >>>> _______________________________________________
> >>>> R-SIG-Mac mailing list
> >>>> R-SIG-Mac using r-project.org
> >>>> https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-sig-mac&data=05%7C01%7Cfederico.calboli%40luke.fi%7C2545a878fd4f452ed61f08db0cecefa0%7C7c14dfa4c0fc47259f0476a443deb095%7C0%7C0%7C638117983997435219%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=TIW9D9MUWNyVczTdxDMF0U79yrB%2FlVd3P7rZ%2FVQdY%2FM%3D&reserved=0
> >>>
> >>> --
> >>> Sent from my phone. Please excuse my brevity.
> >>>
> >>> _______________________________________________
> >>> R-SIG-Mac mailing list
> >>> R-SIG-Mac using r-project.org
> >>> https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-sig-mac&data=05%7C01%7Cfederico.calboli%40luke.fi%7C2545a878fd4f452ed61f08db0cecefa0%7C7c14dfa4c0fc47259f0476a443deb095%7C0%7C0%7C638117983997435219%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=TIW9D9MUWNyVczTdxDMF0U79yrB%2FlVd3P7rZ%2FVQdY%2FM%3D&reserved=0
> >> --
> >> Federico Calboli
> >> Tutkija
> >> Genomiikka ja jalostus, Luonnonvarakeskus
> >> +358295322656
> >> _______________________________________________
> >> R-SIG-Mac mailing list
> >> R-SIG-Mac using r-project.org
> >> https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-sig-mac&data=05%7C01%7Cfederico.calboli%40luke.fi%7C2545a878fd4f452ed61f08db0cecefa0%7C7c14dfa4c0fc47259f0476a443deb095%7C0%7C0%7C638117983997435219%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=TIW9D9MUWNyVczTdxDMF0U79yrB%2FlVd3P7rZ%2FVQdY%2FM%3D&reserved=0
> >
> > --
> > Brian D. Ripley, ripley using stats.ox.ac.uk
> > Emeritus Professor of Applied Statistics, University of Oxford
> >
>
> --
> Federico Calboli
> Tutkija
> Genomiikka ja jalostus, Luonnonvarakeskus
> +358295322656
>
>
>
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac using r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
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