Re: [R-SIG-Mac] ggviz stats?

[Duncan Murdoch]

On 13/12/2016 7:59 PM, Philip Cannata wrote:

What's the status of ggviz, I've tried installing it on my Mac, however,
I get the following:

install.packages("ggviz")
Warning in install.packages :
   package ‘ggviz’ is not available (for R version 3.3.1)


It's available for a simple install on my Mac, so I'd suspect you're 
using an old version of Mac OS for which packages aren't being built, or 
a CRAN mirror that's not up to date.


Duncan Murdoch

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[R-SIG-Mac] RStudio crash on MacOS Sierra 10.12.1

[Serban Tanasa]

Seeing a fresh binary install of R from CRAN running under RStudio crash
within 1hr or whenever the system goes into sleep mode on a late 2016 15"
MacBook Pro (touchbar version).

Suggestions or links to patched versions (unclear to me if this is R or
RStudio-linked at this point) are welcome.

The error message is below:

Process:   RStudio [3661]
Path:  /Applications/RStudio.app/Contents/MacOS/RStudio
Identifier:org.rstudio.RStudio
Version:   1.0.136 (1.0.136)
Code Type: X86-64 (Native)
Parent Process:??? [1]
Responsible:   RStudio [3661]
User ID:   501

Date/Time: 2017-01-04 12:01:31.169 -0500
OS Version:Mac OS X 10.12.1 (16B2659)
Report Version:12
Anonymous UUID:A965631A-59E8-5E19-0188-BCBA3D9F8B84

Sleep/Wake UUID:   F4852C7D-18C8-4E17-8EE7-05470200BCC1

Time Awake Since Boot: 3 seconds
Time Since Wake:   5 seconds

System Integrity Protection: enabled

Crashed Thread:22  Dispatch queue:
com.apple.root.user-interactive-qos.overcommit

Exception Type:EXC_CRASH (SIGABRT)
Exception Codes:   0x, 0x
Exception Note:EXC_CORPSE_NOTIFY

Application Specific Information:
*** Terminating app due to uncaught exception 'NSInvalidArgumentException',
reason: '-[OS_dispatch_source actionForLayer:forKey:]: unrecognized
selector sent to instance 0x611427e0'
terminating with uncaught exception of type NSException
abort() called

Application Specific Backtrace 1:
0   CoreFoundation  0x7fffcbdfe48b
__exceptionPreprocess + 171
1   libobjc.A.dylib 0x7fffe06fdcad
objc_exception_throw + 48
2   CoreFoundation  0x7fffcbe7fc94
-[NSObject(NSObject) doesNotRecognizeSelector:] + 132
3   CoreFoundation  0x7fffcbd70b55 ___forwarding___
+ 1061
4   CoreFoundation  0x7fffcbd706a8
_CF_forwarding_prep_0 + 120
5   QuartzCore  0x7fffd19b6880 -[CALayer
actionForKey:] + 95
6   QuartzCore  0x7fffd19b12a7
_ZN2CA5Layer12mark_visibleEPNS_11TransactionEb + 345
7   QuartzCore  0x7fffd19b1464
_ZN2CA5Layer11set_visibleEj + 306
8   QuartzCore  0x7fffd19a4531
_ZN2CA7Context10invalidateEv + 75
9   DFRFoundation   0x7fffd7a78140 -[DFRElement
dealloc] + 38
10  libobjc.A.dylib 0x7fffe06f7db7
_ZN11objc_object17sidetable_releaseEb + 285
11  libobjc.A.dylib 0x7fffe06f2e8d
_ZN12_GLOBAL__N_119AutoreleasePoolPage3popEPv + 781
12  libdispatch.dylib   0x7fffe0fa812a
_dispatch_root_queue_drain + 1062
13  libdispatch.dylib   0x7fffe0fa7cb7
_dispatch_worker_thread3 + 99
14  libsystem_pthread.dylib 0x7fffe11f3736
_pthread_wqthread + 1299
15  libsystem_pthread.dylib 0x7fffe11f3211 start_wqthread +
13

Thread 0:: Dispatch queue: com.apple.main-thread
0   libsystem_kernel.dylib 0x7fffe110341a mach_msg_trap + 10
1   libsystem_kernel.dylib 0x7fffe1102867 mach_msg + 55
2   com.apple.QuartzCore   0x7fffd1a1cb6e
CA::Render::Fence::wait(unsigned int, unsigned long) + 134
3   com.apple.QuartzCore   0x7fffd19a60c0
CA::Context::commit_transaction(CA::Transaction*) + 848
4   com.apple.QuartzCore   0x7fffd189cd55
CA::Transaction::commit() + 475
5   com.apple.QuartzCore   0x7fffd189d6b6
CA::Transaction::observer_callback(__CFRunLoopObserver*, unsigned long,
void*) + 108
6   com.apple.CoreFoundation   0x7fffcbd93ec7
__CFRUNLOOP_IS_CALLING_OUT_TO_AN_OBSERVER_CALLBACK_FUNCTION__ + 23
7   com.apple.CoreFoundation   0x7fffcbd93e37
__CFRunLoopDoObservers + 391
8   com.apple.CoreFoundation   0x7fffcbd74536 CFRunLoopRunSpecific
+ 454
9   com.apple.HIToolbox   0x7fffcb3052ac
RunCurrentEventLoopInMode + 240
10  com.apple.HIToolbox   0x7fffcb304fe9 ReceiveNextEventCommon
+ 184
11  com.apple.HIToolbox   0x7fffcb304f16
_BlockUntilNextEventMatchingListInModeWithFilter + 71
12  com.apple.AppKit   0x7fffc99076cd _DPSNextEvent + 1093
13  com.apple.AppKit   0x7fffca07e830
-[NSApplication(NSEvent)
_nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 2730
14  com.apple.AppKit   0x7fffc98fc06d -[NSApplication run]
+ 926
15  org.rstudio.RStudio   0x0001d0da main + 330
16  org.rstudio.RStudio   0x00014ad4 start + 52

Thread 1:
0   libsystem_kernel.dylib 0x7fffe110ac8a __psynch_cvwait + 10
1   libsystem_pthread.dylib   0x7fffe11f496a _pthread_cond_wait +
712
2   libc++.1.dylib 0x7fffdfb7e58d
std::__1::condition_variable::wait(std::__1::unique_lock&)
+ 47
3   

Re: [R-SIG-Mac] R patched version for Mac

[Peter Dalgaard]

Simon,

I seem to recall someone already poked you on this matter, but I can't find a 
record of it, so maybe not...

The symptoms are pretty clear, the log indicates a successful recent build, but 
apparently the packages have not been built since Oct 27, so 
R-3.3-branch-mavericks.pkg contains the version from the and is actually older 
than the current release. (I checked the contents with pkgutils, and it is not 
just a labeling issue; the Payload files are time-stamped Oct 27 05:15)

-pd

> On 28 Dec 2016, at 11:59 , Prof Brian Ripley  wrote:
> 
> On 27/12/2016 19:19, Watson, David W. (MSFC-ES62) wrote:
>> I have been trying to download the “patched” version of 3.3.2 for Mac from 
>> CRAN,
> 
> What makes you think there is a patched version on CRAN?  Did you follow the 
> link on https://cran.r-project.org/bin/macosx/
> to 
> http://r.research.att.com/mavericks/R-3.3-branch/R-3.3-branch-mavericks.pkg?  
> That is Simon Urbanek's site, so you need to ask him.
> 
> but the version that gets delivered is actually the October Release Candidate 
> version,
>> (R version 3.3.2 RC (2016-10-26 r71594). It has been doing this since 3.3.2 
>> has been released. Is there a real patched version somewhere?
>> 
>> David Watson
>> NASA - MSFC
>> Mail Code ES62
>> Phone 256-544-1300
>> FAX   256-544-2964
>> david.w.wat...@nasa.gov
> 
> 
> -- 
> Brian D. Ripley,  rip...@stats.ox.ac.uk
> Emeritus Professor of Applied Statistics, University of Oxford
> 
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Re: [R-SIG-Mac] R.app crashes at startup on MacOS Sierra

[Jorge Franco]

I am obtaining exactly the same error in MacBookPro, Sierra 10.12.1, R 3.3.2. 
Just aft installing Sierra.
Regards,
JFranco

-
Jorge Franco D.
Profesor Titular,
Departamento de Biometría, Estadística y Computación
Facultad de Agronomía, UDELAR
Ruta 3, Km. 363, Paysandú
URUGUAY
nuevo telefono: +598 99123946




> On Dec 2, 2016, at 10:34 AM, Karl Thomaseth  > wrote:
> 
> 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.
> 
> 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 
> > 
> 
> 
> 
> 
> 
> 
> 
> 
> 
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[R-SIG-Mac] ggviz stats?

[Philip Cannata]

What's the status of ggviz, I've tried installing it on my Mac, however, 
I get the following:

install.packages("ggviz")
Warning in install.packages :
   package ‘ggviz’ is not available (for R version 3.3.1)

thanks

phil

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