[External] Re: crash due to rgl and base graphics conflict
I tried the same thing in Windows. R-3.6.3 and R-4.0.0 R version 3.6.3 (2020-02-29) -- "Holding the Windsock" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (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. 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.
options(chmhelp=FALSE, help_type="text")
if(identical(getOption('pager'), file.path(R.home('bin'), 'pager'))) # rather take the ESS one
+ options(pager='console')
options(STERM='iESS', str.dendrogram.last="'", editor='emacsclient.exe', show.error.locations=TRUE) library(rgl) plot(1:10) rgl.quit() search()
[1] ".GlobalEnv" "ESSR" "package:stats" [4] "package:graphics" "package:grDevices" "package:utils" [7] "package:datasets" "package:methods" "Autoloads" [10] "package:base"
library(rgl)
Error: package or namespace load failed for 'rgl': .onLoad failed in loadNamespace() for 'rgl', details: call: rgl.init(initValue, onlyNULL) error: window class registration failed
R version 4.0.0 (2020-04-24) -- "Arbor Day" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (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. 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.
options(chmhelp=FALSE, help_type="text")
if(identical(getOption('pager'), file.path(R.home('bin'), 'pager'))) # rather take the ESS one
+ options(pager='console')
options(STERM='iESS', str.dendrogram.last="'", editor='emacsclient.exe', show.error.locations=TRUE) library(rgl) search()
[1] ".GlobalEnv" "package:rgl" "ESSR" [4] "package:stats" "package:graphics" "package:grDevices" [7] "package:utils" "package:datasets" "package:methods" [10] "Autoloads" "package:base"
rgl.quit() library(rgl)
Error: package or namespace load failed for 'rgl': .onLoad failed in loadNamespace() for 'rgl', details: call: rgl.init(initValue, onlyNULL) error: window class registration failed
On Fri, May 29, 2020 at 2:21 PM Richard M. Heiberger <rmh at temple.edu> 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. Is there an rgl equivalent for dev.cur()? On Fri, May 29, 2020 at 1:51 PM Duncan Murdoch <murdoch.duncan at 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 at rmhs-Air ~ % On Fri, May 29, 2020 at 12:16 PM Duncan Murdoch <murdoch.duncan at 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
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