[R-SIG-Mac] [External] Re: crash due to rgl and base graphics conflict
Richard M. Heiberger
rmh @end|ng |rom temp|e@edu
Sun May 31 22:44:24 CEST 2020
I upgraded last night to Catalina 10.15.5 (19F96).
The crash has gone away and that example now works normally.
On Fri, May 29, 2020 at 3:25 PM Richard M. Heiberger <rmh using temple.edu> wrote:
>
> my 12:35 email and the attached tmp.txt are from the Terminal.app,
> No emacs/ESS involved.
>
> On Fri, May 29, 2020 at 3:13 PM Duncan Murdoch <murdoch.duncan using gmail.com> wrote:
> >
> > On 29/05/2020 2:21 p.m., Richard M. Heiberger wrote:
> > > I attempted to update xquartz when I updated to Catalina, and the same
> > > number is still the current version number.
> > >
> > > Here is a related issue, attached tmp2.txt is the R transcript.
> > > The interesting thing here is that rgl.quit() prevents rgl from being
> > > reattached.
> >
> > Generally speaking rgl doesn't want to be reloaded in the same R
> > session: detaching it doesn't clean up everything. That's not
> > something that I'd put any priority on fixing, whereas I would look at
> > the problems you're having on startup if I could reproduce them.
> >
> > I wonder if ESS is involved somehow: your sessionInfo listed ESSR on
> > the search list. Do you have the same issues with plain R from the
> > console, or R.app?
> >
> > > Is there an rgl equivalent for dev.cur()?
> >
> > There's rgl.cur(). rgl only supports two kinds of devices: on a Mac or
> > Linux they'd be displayed as glX or null. Windows also supports the
> > null device (which doesn't display anything), and a different one to
> > display within R: I forget how the name is displayed.
> >
> > It might be that you'll need to set options(rgl.useNULL) before starting
> > rgl, and 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 <murdoch.duncan using gmail.com> wrote:
> > >>
> > >> On 29/05/2020 12:35 p.m., Richard M. Heiberger wrote:
> > >>> I have the same Xquartz as you.
> > >>
> > >> I'd guess it should be updated. Generally XQuartz needs updates with
> > >> every MacOS release, and your 10.15.4 is two releases further along than
> > >> my 10.13.6.
> > >>
> > >>> I have rgl-0.100.50 from CRAN
> > >>
> > >> You could update that, but I doubt if it would make any difference.
> > >>
> > >>> Apple is macOS Catalina, Version 10.15.4
> > >>> Do you need hardware information?
> > >>> MacBpok Air (13 -inch, Mid 2012)
> > >>> Processor 2GHz Dual-Core Intel Core i7
> > >>> Memory 8 GB 1600 MHz DDR3
> > >>> Graphics Intel HD Graphics 4000 1536 MB
> > >>
> > >> I think the XQuartz issue 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"
> > >>>
> > >>> Copyright (C) 2020 The R Foundation for Statistical Computing
> > >>>
> > >>> Platform: x86_64-apple-darwin17.0 (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.
> > >>>
> > >>>
> > >>>> library(rgl)
> > >>>
> > >>>> plot(1:10)
> > >>>
> > >>>> 2020-05-29 12:30:00.536 R[24961:3275889] *** Assertion failure in BOOL NSScreenConfigurationInvalidateIfNeededForReason(_NSScreenConfigurationUpdateReason)(), /AppleInternal/BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1894.40.150/AppKit.subproj/NSScreenConfiguration.m:473
> > >>>
> > >>> 2020-05-29 12:30:00.543 R[24961:3275889] *** Terminating app due to
> > >>> uncaught exception 'NSInternalInconsistencyException', reason:
> > >>> 'NSScreen reconfig must only happen on the main thread.'
> > >>>
> > >>> *** First throw call stack:
> > >>>
> > >>> (
> > >>>
> > >>> 0 CoreFoundation 0x00007fff371698d7
> > >>> __exceptionPreprocess + 250
> > >>>
> > >>> 1 libobjc.A.dylib 0x00007fff6ff47a9e
> > >>> objc_exception_throw + 48
> > >>>
> > >>> 2 CoreFoundation 0x00007fff37192bb0
> > >>> +[NSException raise:format:arguments:] + 88
> > >>>
> > >>> 3 Foundation 0x00007fff398de456
> > >>> -[NSAssertionHandler
> > >>> handleFailureInFunction:file:lineNumber:description:] + 166
> > >>>
> > >>> 4 AppKit 0x00007fff34503083
> > >>> +[_NSScreenConfiguration invalidateConfigurationIfNeededForReason:] +
> > >>> 361
> > >>>
> > >>> 5 AppKit 0x00007fff34e4bda8
> > >>> _NSApplicationInvalidateScreenConfigurationMaybeIfNeeded + 243
> > >>>
> > >>> 6 AppKit 0x00007fff34502c85
> > >>> -[NSApplication(ScreenHandling) _reactToDockChanged] + 144
> > >>>
> > >>> 7 AppKit 0x00007fff345024dc
> > >>> _NSCGSDockMessageReceive + 268
> > >>>
> > >>> 8 HIToolbox 0x00007fff35d34a3c
> > >>> _ZL12DockCallbackjjPvS_ + 1987
> > >>>
> > >>> 9 HIServices 0x00007fff3539c8ec
> > >>> dockClientNotificationProc + 217
> > >>>
> > >>> 10 SkyLight 0x00007fff6626f174
> > >>> _ZN12_GLOBAL__N_123notify_datagram_handlerEj15CGSDatagramTypePvmS1_ +
> > >>> 1002
> > >>>
> > >>> 11 SkyLight 0x00007fff6626de71
> > >>> CGSSnarfAndDispatchDatagrams + 1671
> > >>>
> > >>> 12 SkyLight 0x00007fff6649d5a5
> > >>> SLSGetNextEventRecordInternal + 83
> > >>>
> > >>> 13 SkyLight 0x00007fff6633bfbe
> > >>> SLEventCreateNextEvent + 136
> > >>>
> > >>> 14 libXplugin.1.dylib 0x000000010686df0c
> > >>> ___xp_init_service_cg_event_port_block_invoke + 104
> > >>>
> > >>> 15 libdispatch.dylib 0x00007fff7108d658
> > >>> _dispatch_client_callout + 8
> > >>>
> > >>> 16 libdispatch.dylib 0x00007fff7108f818
> > >>> _dispatch_continuation_pop + 414
> > >>>
> > >>> 17 libdispatch.dylib 0x00007fff7109f4be
> > >>> _dispatch_source_invoke + 2084
> > >>>
> > >>> 18 libdispatch.dylib 0x00007fff71092af6
> > >>> _dispatch_lane_serial_drain + 263
> > >>>
> > >>> 19 libdispatch.dylib 0x00007fff710935d6
> > >>> _dispatch_lane_invoke + 363
> > >>>
> > >>> 20 libdispatch.dylib 0x00007fff7109cc09
> > >>> _dispatch_workloop_worker_thread + 596
> > >>>
> > >>> 21 libsystem_pthread.dylib 0x00007fff712eba3d
> > >>> _pthread_wqthread + 290
> > >>>
> > >>> 22 libsystem_pthread.dylib 0x00007fff712eab77 start_wqthread + 15
> > >>>
> > >>> )
> > >>>
> > >>> libc++abi.dylib: terminating with uncaught exception of type NSException
> > >>>
> > >>> zsh: abort R
> > >>>
> > >>> rmh using rmhs-Air ~ %
> > >>>
> > >>>
> > >>> On Fri, May 29, 2020 at 12:16 PM Duncan Murdoch
> > >>> <murdoch.duncan using gmail.com> wrote:
> > >>>>
> > >>>> I'm not seeing that with R-patched r78557, run from the console. I'm
> > >>>> not sure I have the same MacOS version as you (R prints the same thing,
> > >>>> Apple says High Sierra 10.13.6). I tried with the CRAN binary of rgl
> > >>>> 0.100.54. I'd guess the version of XQuartz may be important: I'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 Statistical Computing
> > >>>>> Platform: x86_64-apple-darwin17.0 (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.
> > >>>>>
> > >>>>>> if(identical(getOption('pager'), file.path(R.home('bin'), 'pager'))) options(pager='cat') # rather take the ESS one
> > >>>>>> options(STERM='iESS', str.dendrogram.last="'", editor='emacsclient', show.error.locations=TRUE)
> > >>>>>> version
> > >>>>> _
> > >>>>> platform x86_64-apple-darwin17.0
> > >>>>> arch x86_64
> > >>>>> os darwin17.0
> > >>>>> system x86_64, darwin17.0
> > >>>>> status
> > >>>>> major 4
> > >>>>> minor 0.0
> > >>>>> year 2020
> > >>>>> month 04
> > >>>>> day 24
> > >>>>> svn rev 78286
> > >>>>> language R
> > >>>>> version.string R version 4.0.0 (2020-04-24)
> > >>>>> nickname Arbor Day
> > >>>>>>
> > >>>>>> library(rgl)
> > >>>>>> plot(1:10)
> > >>>>>>
> > >>>>>
> > >>>>> Process R abort trap: 6 at Fri May 29 11:32:59 2020
> > >>>>> 2020-05-29 11:32:59.542 R[24448:3255600] *** Assertion failure in BOOL
> > >>>>> NSScreenConfigurationInvalidateIfNeededForReason(_NSScreenConfigurationUpdateReason)(),
> > >>>>> /AppleInternal/BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1894.40.150/AppKit.subproj/NSScreenConfiguration.m:473
> > >>>>> 2020-05-29 11:32:59.560 R[24448:3255600] *** Terminating app due to
> > >>>>> uncaught exception 'NSInternalInconsistencyException', reason:
> > >>>>> 'NSScreen reconfig must only happen on the main thread.'
> > >>>>> *** First throw call stack:
> > >>>>> (
> > >>>>> 0 CoreFoundation 0x00007fff371698d7
> > >>>>> __exceptionPreprocess + 250
> > >>>>> 1 libobjc.A.dylib 0x00007fff6ff47a9e
> > >>>>> objc_exception_throw + 48
> > >>>>> 2 CoreFoundation 0x00007fff37192bb0
> > >>>>> +[NSException raise:format:arguments:] + 88
> > >>>>> 3 Foundation 0x00007fff398de456
> > >>>>> -[NSAssertionHandler
> > >>>>> handleFailureInFunction:file:lineNumber:description:] + 166
> > >>>>> 4 AppKit 0x00007fff34503083
> > >>>>> +[_NSScreenConfiguration invalidateConfigurationIfNeededForReason:] +
> > >>>>> 361
> > >>>>> 5 AppKit 0x00007fff34e4bda8
> > >>>>> _NSApplicationInvalidateScreenConfigurationMaybeIfNeeded + 243
> > >>>>> 6 AppKit 0x00007fff34502c85
> > >>>>> -[NSApplication(ScreenHandling) _reactToDockChanged] + 144
> > >>>>> 7 AppKit 0x00007fff345024dc
> > >>>>> _NSCGSDockMessageReceive + 268
> > >>>>> 8 HIToolbox 0x00007fff35d34a3c
> > >>>>> _ZL12DockCallbackjjPvS_ + 1987
> > >>>>> 9 HIServices 0x00007fff3539c8ec
> > >>>>> dockClientNotificationProc + 217
> > >>>>> 10 SkyLight 0x00007fff6626f174
> > >>>>> _ZN12_GLOBAL__N_123notify_datagram_handlerEj15CGSDatagramTypePvmS1_ +
> > >>>>> 1002
> > >>>>> 11 SkyLight 0x00007fff6626de71
> > >>>>> CGSSnarfAndDispatchDatagrams + 1671
> > >>>>> 12 SkyLight 0x00007fff6649d5a5
> > >>>>> SLSGetNextEventRecordInternal + 83
> > >>>>> 13 SkyLight 0x00007fff6633bfbe
> > >>>>> SLEventCreateNextEvent + 136
> > >>>>> 14 libXplugin.1.dylib 0x000000010ffa5f0c
> > >>>>> ___xp_init_service_cg_event_port_block_invoke + 104
> > >>>>> 15 libdispatch.dylib 0x00007fff7108d658
> > >>>>> _dispatch_client_callout + 8
> > >>>>> 16 libdispatch.dylib 0x00007fff7108f818
> > >>>>> _dispatch_continuation_pop + 414
> > >>>>> 17 libdispatch.dylib 0x00007fff7109f4be
> > >>>>> _dispatch_source_invoke + 2084
> > >>>>> 18 libdispatch.dylib 0x00007fff71092af6
> > >>>>> _dispatch_lane_serial_drain + 263
> > >>>>> 19 libdispatch.dylib 0x00007fff710935d6
> > >>>>> _dispatch_lane_invoke + 363
> > >>>>> 20 libdispatch.dylib 0x00007fff7109cc09
> > >>>>> _dispatch_workloop_worker_thread + 596
> > >>>>> 21 libsystem_pthread.dylib 0x00007fff712eba3d
> > >>>>> _pthread_wqthread + 290
> > >>>>> 22 libsystem_pthread.dylib 0x00007fff712eab77 start_wqthread + 15
> > >>>>> )
> > >>>>> libc++abi.dylib: terminating with uncaught exception of type NSException
> > >>>>>
> > >>>>> _______________________________________________
> > >>>>> 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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