[R-SIG-Mac] R.app GUI 1.71 (7827) crashes on Catalina

Sat May 2 04:18:22 CEST 2020

I have a mac mini as well that does not show this crash. It's much
beefier (6-core i7, 32 GB RAM probably not relevant).
Here is the same boot up log with the same file and it does not crash R.

https://gist.github.com/bhive01/2a48fa3e6fd70ae1b974184ad7b947ba#file-r-gui_pid4422_working_console-log

I look at the transition where the two differ and the crash happens
and the one that works is much shorter. At line 319 in the non-working
MBA (PID 889) it "makes presenter" and then stops. Making presenter
doesn't happen until line 4261 in the working file. Lots of parsing of
the file is missing (4000 lines of it).

B

On Fri, May 1, 2020 at 6:48 PM Brandon Hurr <brandon.hurr using gmail.com> wrote:
>
> Thanks Bob.
>
> I did this and it did not fix it sadly.
> I downloaded the Debug version of R-GUI and captured the following
> after clicking on the same file (which did cause it to crash again)
> Here is the console log for the R PID (889 in this instance) from
> loading R to then clicking to load the same file (which froze my
> system again):
> https://gist.github.com/bhive01/5efa02237085c7a3ccf6d137e04f7c45
> Here is the full Apple Crash Log that came up after I force quit R:
> https://gist.github.com/bhive01/0eeb32d0a666f875e83440268b69aefd
>
> I hope this is helpful. Please let me know if I need to dig more and
> recommendations for doing so.
>
> Thanks,
> B
>
> On Fri, May 1, 2020 at 5:54 PM Bob Rudis <bob using rud.is> wrote:
> >
> > Suggestion: try adding R.app to "Full Disk Access" in the Privacy tab
> > under Security & Privacy system preferences.
> >
> > I'm not experiencing these issues (just now when I tried it; I
> > generally don't use R.app)
> >
> > On Fri, May 1, 2020 at 4:54 PM Brandon Hurr <brandon.hurr using gmail.com> wrote:
> > >
> > > I'm going to add to the pile on this one. It's hard to nail down
> > > though. I was able to load Hiroshi's test.R script after loading up
> > > R-GUI 7827 and just now 7832. I loaded it from multiple directories by
> > > clicking on it.
> > > That said, I've been having many issues locking up R-GUI on my 2019
> > > MBAir since upgrading to R4.0.0. I can click and load R-GUI with a
> > > script file, but if I want to load another script it gives me the
> > > colored pinwheel of death. Sometimes it will load up R-GUI, but then
> > > pinwheel of death on loading a lengthy script. I'm not sure the length
> > > is the issue.
> > >
> > > I played around with the console a bit and noticed these messages pop
> > > up when it locks up R:
> > > error    13:49:54.173449-0700    kernel    Sandbox: garcon(763)
> > > deny(1) file-read-xattr /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data
> > > standardisation/Database Converts/Conversion script DEV.R
> > > error    13:49:54.243397-0700    kernel    Sandbox: garcon(763)
> > > deny(1) file-read-xattr /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data
> > > standardisation/Database Converts
> > > error    13:49:54.312989-0700    kernel    Sandbox: garcon(763)
> > > deny(1) file-read-xattr /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data
> > > standardisation
> > > error    13:49:54.344345-0700    kernel    Sandbox: garcon(763)
> > > deny(1) file-read-xattr /Users/brandonhurr/Dropbox (BioLumic Ltd)
> > >
> > > A rough guess here is that the sandboxing isn't working right (or is?)
> > > and is blocking access of R-GUI to the file which then locks up
> > > because it's waiting for data?
> > >
> > > Anyone else seeing this behavior and have a better idea how to pin it down?
> > >
> > > Thanks,
> > > B
> > >
> > >
> > > On Thu, Apr 30, 2020 at 6:07 AM Hiroshi Hakoyama
> > > <hiroshi-hakoyama using nagano.ac.jp> wrote:
> > > >
> > > > Dear All,
> > > >
> > > > Environment:
> > > > R version 4.0.0 (2020-04-24) -- "Arbor Day"
> > > > [R.app GUI 1.71 (7827) x86_64-apple-darwin17.0]
> > > > macOS: Mojave and Catalina
> > > > Removed file for the test: .Rapp.history
> > > >
> > > > Description:
> > > > R.app crashes when a large file (e.g., test.R) is double-clicked on Mojave and Catalina. The crash does not occur on High Sierra. Small source files (e.g., test2.R) do not cause the crash on Mojave and Catalina.
> > > >
> > > > How-To-Repeat:
> > > > Double-click test.R (or open test.R using R.app) on Catalina or Mojave.
> > > >
> > > > Fix:
> > > > unknown
> > > >
> > > > Crash Report is too large to paste to the email.
> > > >
> > > >
> > > > Best regards,
> > > >
> > > > Hiroshi Hakoyama
> > > > Nagano University
> > > >
> > > > test.R
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > ###############################################################################
> > > > x <- rnorm(100000)
> > > > y <- rnorm(100000)
> > > > hist(x)
> > > > hist(y)
> > > >
> > > > test2.R
> > > > x <- rnorm(100000)
> > > > y <- rnorm(100000)
> > > > hist(x)
> > > > hist(y)
> > > >
> > > > system.log
> > > > Apr 30 20:54:40 ec7 R[1147]: assertion failed: 19E287: libxpc.dylib + 92807 [32B0E31E-9DA3-328B-A962-BC9591B93537]: 0x89
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