Simon Urbanek <simon.urba...@r-project.org> writes: > Karl, > > unfortunately I cannot reproduce it on 10.12.1. How exactly can you > trigger it? I have tried dragging a file on the R icon and open -a > /Applications/R.app test.R and neither crashed on me. Does it depend > on the R file opened or its location? > > Rainer, > it seems that your build is broken - I have seen crashes on error in > builds that don't compile longjmp correctly so errors blow up the > event loop - which seems to be the case in your build. How did you > build it?
I installed via homebrew and I used the bottled version, i.e. the pre-compiled one. At the moment I am installing from source and see how that one works ... done ... Same problem. I assume it is one of the dependencies? Any suggestions? Rainer > > Cheers, > Simon > > > >> On Dec 8, 2016, at 5:45 AM, Rainer M Krug <rai...@krugs.de> wrote: >> >> Karl Thomaseth <karl.thomas...@gmail.com> writes: >> >>> Hello all, >>> >>> I regret to bother you, but since I upgraded to MacOS Sierra more than a >>> month ago, I am experiencing >>> that whenever I open any “file.R”, which launches automatically R.app GUI >>> the GUI crashes (see info below), >>> I removed also all .RData and .Rapp.history from my system with >>> sudo find / -name “.RData” -delete >>> sudo find / -name “.Rapp*” -delete >>> If I start R directly from the Dock, everything works fine. >> >> First attempt: Nope - works. Then I realized it opened in emacs... >> >> OK. >> >> Opening a .R file via clicking on it actually results in the crash as >> well. The file is opened, but R crashes. >> >> >> How did you install R? I installed via homebrew (And no, I don't expect >> any help here for my case). >> >> But I might add: maybe related - but R crashes in the GUI if I use >> e.g. a non-existing function - maybe related? >> >> ,---- >> | > version >> | _ >> | platform x86_64-apple-darwin16.1.0 >> | arch x86_64 >> | os darwin16.1.0 >> | system x86_64, darwin16.1.0 >> | status >> | major 3 >> | minor 3.2 >> | year 2016 >> | month 10 >> | day 31 >> | svn rev 71607 >> | language R >> | version.string R version 3.3.2 (2016-10-31) >> | nickname Sincere Pumpkin Patch >> | > version() >> | Error: could not find function "version" >> | >> | *** caught segfault *** >> | address 0x18, cause 'memory not mapped' >> | >> | Possible actions: >> | 1: abort (with core dump, if enabled) >> | 2: normal R exit >> | 3: exit R without saving workspace >> | 4: exit R saving workspace >> | Selection: >> `---- >> >> Cheers, >> >> Rainer >> >>> >>> Thank you >>> >>> Karl Thomaseth >>> >>> >>> >>> R version 3.3.2 (2016-10-31) -- "Sincere Pumpkin Patch" >>> Copyright (C) 2016 The R Foundation for Statistical Computing >>> Platform: x86_64-apple-darwin13.4.0 (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. >>> >>> [R.app GUI 1.68 (7288) x86_64-apple-darwin13.4.0] >>> >>> *** caught segfault *** >>> address 0x7f8bf2637f8, cause 'memory not mapped' >>> >>> Possible actions: >>> 1: abort (with core dump, if enabled) >>> 2: normal R exit >>> 3: exit R without saving workspace >>> 4: exit R saving workspace >>>> >>> Selection: >>> >>> ======================================= >>>> sessionInfo() >>> R version 3.3.2 (2016-10-31) >>> Platform: x86_64-apple-darwin13.4.0 (64-bit) >>> Running under: macOS Sierra 10.12.1 >>> >>> locale: >>> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 >>> >>> attached base packages: >>> [1] stats graphics grDevices utils datasets methods base >>>> >>> >>> >>> _______________________________________________ >>> R-SIG-Mac mailing list >>> R-SIG-Mac@r-project.org >>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >>> >> >> -- >> Rainer M. Krug >> email: Rainer<at>krugs<dot>de >> PGP: 0x0F52F982 >> _______________________________________________ >> R-SIG-Mac mailing list >> R-SIG-Mac@r-project.org >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac > Brandon Hurr <brandon.h...@gmail.com> writes: > Simon, > > I have been experiencing this error for quite some time. If I load a r > script by double clicking it, it happens nearly 100% of the time. If I > load R itself first then it doesn't happen. If I clear the "recent" > files area it doesn't happen until I fill it again. The file opened > seems irrelevant, as does the location of the file (admittedly, all in > user space or external drives). > > Despite the dire warning, if I hit escape I can continue working > nearly indefinitely without issue (my script save rate increases to > compensate for risk). > > This was reported by CW on Nov 4th (perhaps others before), email > entitled: "[R-SIG-Mac] R segfault at startup, causing R crash". I > worked a little bit with Kevin Ushey offline to get to the bottom of > it further and I thought he pinned it down or at least got closer to > the cause. > > " > After playing around with R.app for a bit, I was able to get myself > into a state where R.app was either dying or hanging on startup. I did > the following: > > 1. Open R.app, > 2. Open a new R document (using the icon in the top menu bar -- > 'Create a new, empty document in the editor' ), > 3. Write and execute some code -- in my case, 'x <- 1; print(x)', > executed with Cmd + Enter, > 4. (optionally) Repeat steps 2 and 3, creating new documents and > executing more code, > 5. Focus a different application, > 6. Attempt to open an R document (using the menu bar again -- > 'Source script or load data in R', > 7. Observe that R.app is now hanging. > > Note that if you run these repro steps, you may see R segfault / die > on startup (although in some cases all was fine). Note that step 5 is > necessary (IIUC) to force R.app to attempt to save the application > state. > > It looks like R.app stores session state in the folder > > ~/Library/Saved Application State/org.R-project.R.savedState > > My hypothesis at this point is that this saved state is somehow > getting corrupted. Removing that folder seems to resolve any startup > crashes I see. > > As for the 'Open File' dialog hang, here's what I believe are the > relevant bits of an lldb stack trace I see: > > * frame #0: 0x00007fffce2a7cba libsystem_kernel.dylib`__psynch_mutexwait + 10 > frame #1: 0x00007fffce390f6a > libsystem_pthread.dylib`_pthread_mutex_lock_wait + 100 > frame #2: 0x00007fffc573faee > FinderKit`+[FI_TFloatingInputWindowController singleton] + 34 > frame #3: 0x00007fffc57edd5b FinderKit`-[FI_TBrowserTableView > inputContext] + 29 > frame #4: 0x00007fffb6d397dc AppKit`+[NSTextInputContext > currentInputContext] + 145 > frame #5: 0x00007fffb6e7a272 AppKit`+[_NSAutomaticFocusRing > setActiveFirstResponderChanged] + 37 > frame #6: 0x00007fffb6e7a1d9 > AppKit`___NSPostActiveFirstResponderChanged_block_invoke + 29 > frame #7: 0x00007fffb90cdec7 > CoreFoundation`__CFRUNLOOP_IS_CALLING_OUT_TO_AN_OBSERVER_CALLBACK_FUNCTION__ > + 23 > frame #8: 0x00007fffb90cde37 CoreFoundation`__CFRunLoopDoObservers + 391 > frame #9: 0x00007fffb90aead9 CoreFoundation`__CFRunLoopRun + 873 > frame #10: 0x00007fffb90ae514 CoreFoundation`CFRunLoopRunSpecific + 420 > frame #11: 0x00007fffbaaabcb2 Foundation`-[NSRunLoop(NSRunLoop) > runMode:beforeDate:] + 277 > frame #12: 0x000000010b21f43e R`-[RDocumentWinCtrl > setStatusLineText:](self=0x00006180001e7c00, > _cmd="setStatusLineText:", text=@"print(x, ...)") + 910 at > RDocumentWinCtrl.m:465 > frame #13: 0x000000010b21f03d R`-[RDocumentWinCtrl > RDocumentDidResize:](self=0x00006180001e7c00,_cmd="RDocumentDidResize:", > notification=@"NSWindowDidResizeNotification") + 77 at > RDocumentWinCtrl.m:431 > > with context from frame 12: > > frame #12: 0x000000010b21f43e R`-[RDocumentWinCtrl > setStatusLineText:](self=0x00006180001e7c00, > _cmd="setStatusLineText:", text=@"print(x, ...)") + 910 at > RDocumentWinCtrl.m:465 > 462 [statusLine setStringValue:text]; > 463 [statusLine setNeedsDisplay:YES]; > 464 // Run NSDefaultRunLoopMode to allow to update status line > -> 465 [[NSRunLoop currentRunLoop] runMode:NSDefaultRunLoopMode > 466 > beforeDate:[NSDate distantPast]]; > 467 > 468 } > > Hopefully this helps... > > Best, > Kevin > " > > B > > On Thu, Dec 8, 2016 at 6:28 AM, Simon Urbanek > <simon.urba...@r-project.org> wrote: >> Karl, >> >> unfortunately I cannot reproduce it on 10.12.1. How exactly can you >> trigger it? I have tried dragging a file on the R icon and open -a >> /Applications/R.app test.R and neither crashed on me. Does it depend >> on the R file opened or its location? >> >> Rainer, >> it seems that your build is broken - I have seen crashes on error in >> builds that don't compile longjmp correctly so errors blow up the >> event loop - which seems to be the case in your build. How did you >> build it? >> >> Cheers, >> Simon >> >> >> >>> On Dec 8, 2016, at 5:45 AM, Rainer M Krug <rai...@krugs.de> wrote: >>> >>> Karl Thomaseth <karl.thomas...@gmail.com> writes: >>> >>>> Hello all, >>>> >>>> I regret to bother you, but since I upgraded to MacOS Sierra more than a >>>> month ago, I am experiencing >>>> that whenever I open any “file.R”, which launches automatically R.app GUI >>>> the GUI crashes (see info below), >>>> I removed also all .RData and .Rapp.history from my system with >>>> sudo find / -name “.RData” -delete >>>> sudo find / -name “.Rapp*” -delete >>>> If I start R directly from the Dock, everything works fine. >>> >>> First attempt: Nope - works. Then I realized it opened in emacs... >>> >>> OK. >>> >>> Opening a .R file via clicking on it actually results in the crash as >>> well. The file is opened, but R crashes. >>> >>> >>> How did you install R? I installed via homebrew (And no, I don't expect >>> any help here for my case). >>> >>> But I might add: maybe related - but R crashes in the GUI if I use >>> e.g. a non-existing function - maybe related? >>> >>> ,---- >>> | > version >>> | _ >>> | platform x86_64-apple-darwin16.1.0 >>> | arch x86_64 >>> | os darwin16.1.0 >>> | system x86_64, darwin16.1.0 >>> | status >>> | major 3 >>> | minor 3.2 >>> | year 2016 >>> | month 10 >>> | day 31 >>> | svn rev 71607 >>> | language R >>> | version.string R version 3.3.2 (2016-10-31) >>> | nickname Sincere Pumpkin Patch >>> | > version() >>> | Error: could not find function "version" >>> | >>> | *** caught segfault *** >>> | address 0x18, cause 'memory not mapped' >>> | >>> | Possible actions: >>> | 1: abort (with core dump, if enabled) >>> | 2: normal R exit >>> | 3: exit R without saving workspace >>> | 4: exit R saving workspace >>> | Selection: >>> `---- >>> >>> Cheers, >>> >>> Rainer >>> >>>> >>>> Thank you >>>> >>>> Karl Thomaseth >>>> >>>> >>>> >>>> R version 3.3.2 (2016-10-31) -- "Sincere Pumpkin Patch" >>>> Copyright (C) 2016 The R Foundation for Statistical Computing >>>> Platform: x86_64-apple-darwin13.4.0 (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. >>>> >>>> [R.app GUI 1.68 (7288) x86_64-apple-darwin13.4.0] >>>> >>>> *** caught segfault *** >>>> address 0x7f8bf2637f8, cause 'memory not mapped' >>>> >>>> Possible actions: >>>> 1: abort (with core dump, if enabled) >>>> 2: normal R exit >>>> 3: exit R without saving workspace >>>> 4: exit R saving workspace >>>>> >>>> Selection: >>>> >>>> ======================================= >>>>> sessionInfo() >>>> R version 3.3.2 (2016-10-31) >>>> Platform: x86_64-apple-darwin13.4.0 (64-bit) >>>> Running under: macOS Sierra 10.12.1 >>>> >>>> locale: >>>> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 >>>> >>>> attached base packages: >>>> [1] stats graphics grDevices utils datasets methods base >>>>> >>>> >>>> >>>> _______________________________________________ >>>> R-SIG-Mac mailing list >>>> R-SIG-Mac@r-project.org >>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >>>> >>> >>> -- >>> Rainer M. Krug >>> email: Rainer<at>krugs<dot>de >>> PGP: 0x0F52F982 >>> _______________________________________________ >>> R-SIG-Mac mailing list >>> R-SIG-Mac@r-project.org >>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >> >> _______________________________________________ >> R-SIG-Mac mailing list >> R-SIG-Mac@r-project.org >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac -- Rainer M. Krug email: Rainer<at>krugs<dot>de PGP: 0x0F52F982
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