R crashes on preferences screen

sessionInfo()

Could someone with the preference problems try the latest nightly build for R.app to see if the patch helps?

Thanks,
Rob J. Goedman
goedman at icloud.com



On Nov 8, 2013, at 6:58 AM, Robert J Goedman <goedman at icloud.com> wrote:

Hi,

Thanks for the feedback/updates. The flashing of the color chooser has been there for a long time but I don't think that is causing this problem.

I can trigger the problem in Xcode and it shows clearly where it crashes. Its attempting to darken an icon image, pixel by pixel, but the image has no data if (on our systems at least) the 'Set Color' is not used as the path to get there.

From what I've seen, it happens on a range of systems - below my sessionInfo(). The work around is simple and I think innocuous enough that I think I can commit. But it not very satisfactory not to get to the bottom of this and to understand why only some of us encounter this problem.

Rob J. Goedman
goedman at icloud.com



[R.app GUI 1.62 (6588) x86_64-apple-darwin13.0.0]

[Workspace restored from /Users/rob/Projects/.RData]
[History restored from /Users/rob/Projects/.Rapp.history]

2013-11-08 06:42:18.669 R[65942:707] No data in destData (darkenedImageWithColor.m)

sessionInfo()

R Under development (unstable) (2013-10-30 r64123)
Platform: x86_64-apple-darwin13.0.0/x86_64 (64-bit)

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

loaded via a namespace (and not attached):
[1] coda_0.16-1     grid_3.1.0      inline_0.3.13   lattice_0.20-25 Rcpp_0.10.6     rjags_3-11      rstan_2.0.1
[8] stats4_3.1.0

On Nov 8, 2013, at 3:00 AM, peter dalgaard <pdalgd at gmail.com> wrote:

I was just about to tell you guys that have the problem to try running R.app with gdb attached to the process. Then I realized that gdb has gone in Mavericks to be replaced by lldb, which I don't have much of a clue about how to operate....

However, at least the first few steps seem to be similar to using gdb:

Get the process ID for R.app using

Peters-iMac:~ pd$ ps aux | grep R.app
pd              28620   0.1  0.5  3877356  21724   ??  S     1Nov13   0:43.29 /Applications/R.app/Contents/MacOS/R
pd              74190   0.0  0.0  2432784    596 s005  S+   11:45AM   0:00.01 grep R.app

Then attach to it using

Peters-iMac:~ pd$ lldb -p 28620

give your password to allow the debugger to control the process, then, when lldb fires up, tell it to resume the process

(lldb) continue
Process 28620 resuming

Next, you should try doing whatever it takes to reproduce the crash, figure out how to get a traceback, and report back to the list.

-pd

On 07 Nov 2013, at 10:19 , Rainer M Krug <Rainer at krugs.de> wrote:

I have to confirm both, the crash and the flashing of the colour wheel.

sessionInfo()

R version 3.0.2 (2013-09-25)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

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

version

            _
platform       x86_64-apple-darwin10.8.0
arch           x86_64
os             darwin10.8.0
system         x86_64, darwin10.8.0
status
major          3
minor          0.2
year           2013
month          09
day            25
svn rev        63987
language       R
version.string R version 3.0.2 (2013-09-25)
nickname       Frisbee Sailing

Cheers,

Rainer



On 11/07/13, 02:17 , John Magnotti wrote:

I removed my current R.app and installed the one at:
http://r.research.att.com/#GUI
R-3.0-branch-snowleopard-signed.pkg

but I still get an immediate crash when I 1) open the preferences
window and 2) click any of the icons in the main "Show All" screen
(but not the tabs)

I also noticed that switching away from either the Color or the Syntax
tab briefly flashes (open then close) the color wheel selection dialog

sessionInfo()

R version 3.0.2 Patched (2013-11-04 r64155)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

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


Is there any other specific information that would help?

Thanks,

John

On Wed, Nov 6, 2013 at 10:12 AM, Brandon Hurr <bhive01 at gmail.com> wrote:

Robert,

I never could reproduce what Brian, John or Ranier were seeing with my
install (downloaded from http://r.research.att.com/ .

Perhaps they could chime back in and give you more details.

I'm now running Mavericks and still cannot replicate.
R version 3.0.2 (2013-09-25)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

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

Brandon


On Wed, Nov 6, 2013 at 12:13 AM, Robert J Goedman <goedman at icloud.com>wrote:

Brandon,

Do you still see this problem?

Are you using Simon's build?

Regards,
Rob J. Goedman
goedman at icloud.com


On Jan 2, 2013, at 3:28 AM, Prof Brian Ripley <ripley at stats.ox.ac.uk>
wrote:

On 01/01/2013 17:48, Robert J Goedman wrote:

Thanks for taking a look. I'll dig a bit further after getting back home
tomorrow. It only happens through 'Apple-,' and is then not limited to
just the Startup preferences (contrary to what I thought earlier).


There is a bug report, PR#15017, related to this that we also have not
been able to reproduce.



Rob J. Goedman
goedman at icloud.com <mailto:goedman at icloud.com <goedman at icloud.com>>




On Jan 1, 2013, at 10:01 AM, Prof Brian Ripley <ripley at stats.ox.ac.uk
<mailto:ripley at stats.ox.ac.uk <ripley at stats.ox.ac.uk>>> wrote:

Sorry, cannot reproduce (with Simon's build or mine, on Lion).

Brian

On 31/12/2012 19:37, Robert J Goedman wrote:

Simon & Brian,

Surely this is not high on your minds today, but I did notice an
issue with R.app.

Using below versions of R-3.0 and the Lion64 version of R.app I
noticed that by immediately invoking the Startup preferences. e.g. by
Command/Apple-, R.app will segfault:

*** caught segfault ***
address 0x10121d000, cause 'memory not mapped'
...

Above route seems to always create the crash. I've seen a few other
occurrences, always with the Startup preferences screen not being
mapped, but less reproducible. Same behavior in Simon's build as in
my own build of R.app.

A reasonable work around is to get there through the Set Colors icon.
I'm on OSX8.3 preview 3 and using Xcode 4.6 dp4. And using the CRAN
version of R, did not yet build R myself as outlined in the Install file.

Happy New Year, regards,
Rob J. Goedman
goedman at icloud.com <mailto:goedman at icloud.com <goedman at icloud.com>>


------------ my own build----------------------------

R Under development (unstable) (2012-12-30 r61489) -- "Unsuffered
Consequences"
Copyright (C) 2012 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: x86_64-apple-darwin9.8.0/x86_64 (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 1.53 (6418) x86_64-apple-darwin9.8.0]

[Workspace restored from /Users/rob/Projects/.RData]
[History restored from /Users/rob/Projects/.Rapp.history]

sessionInfo()

R Under development (unstable) (2012-12-30 r61489)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)


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.app from
Simon---------------------------------------------

R Under development (unstable) (2012-12-30 r61489) -- "Unsuffered
Consequences"
Copyright (C) 2012 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: x86_64-apple-darwin9.8.0/x86_64 (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 1.53 (6418) x86_64-apple-darwin9.8.0]

[Workspace restored from /Users/rob/Projects/.RData]
[History restored from /Users/rob/Projects/.Rapp.history]

sessionInfo()

R Under development (unstable) (2012-12-30 r61489)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)


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



--
Brian D. Ripley, ripley at stats.ox.ac.uk <mailto:ripley at stats.ox.ac.uk<ripley at stats.ox.ac.uk>

Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595




--
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595




On Oct 2, 2013, at 6:09 AM, Brandon Hurr <bhive01 at gmail.com> wrote:

I cannot reproduce on my mac mini (2011). OS X 10.8.5.

R version 3.0.2 (2013-09-25)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

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


On Wed, Oct 2, 2013 at 2:03 PM, John Magnotti <john.magnotti at gmail.com

wrote:

Going to the preferences screen in R.app (Command + , or
R->preferences) and selecting any of the icons causes R to crash with
a segfault. If I click any the tabs at the top of the preferences
window R doesn't crash, but if I go back to the  "show all" tab and
choose an option it causes an immediate failure.

I'm running OS X 10.8.5, sessionInfo pasted below

Thoughts?

John


sessionInfo()

R version 3.0.2 (2013-09-25)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

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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--
Rainer M. Krug

email: RMKrug<at>gmail<dot>com

--
Peter Dalgaard, Professor
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Email: pd.mes at cbs.dk  Priv: PDalgd at gmail.com

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