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

Calboli Federico (LUKE) |eder|co@c@|bo|| @end|ng |rom |uke@||
Sun Feb 12 12:43:33 CET 2023


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





More information about the R-SIG-Mac mailing list