Rstudio keeps flashing after manjaro 21.2.1 update

I'm facing a similar problem to Rstudio keeps flashing after fedora 35 update. Code and console panels and rstudio popup windows keep flashing in and out of view, frequently enough to make rstudio very difficult to use. (The popup windows vanish from view. The code and console panels go blank.)

I'm using this version of rstudio, from the rstudio-desktop-bin AUR package (which uses official rstudio binaries):

RStudio 2021.09.1+372 "Ghost Orchid" Release (8b9ced188245155642d024aa3630363df611088a, 2021-11-08) for Ubuntu Bionic
Mozilla/5.0 (X11; Linux x86_64) AppleWebKit/537.36 (KHTML, like Gecko) QtWebEngine/5.12.8 Chrome/69.0.3497.128 Safari/537.36

R version 4.1.2 (2021-11-01) -- "Bird Hippie"

Platform: x86_64-pc-linux-gnu (64-bit)
X11, no wayland session running
Linux kernel 5.15.12, Manjaro GNOME

I'm attaching the top of the rstudio diagnostics report output, below. (It's too long to add in the whole file, and I can't upload a PDF as a new user.)

Doing this:

maybe it would be worth to move ~/.config/rstudio and ~/.local/share/rstudio out of the way for a moment to ensure you don't have any left-over legacy configuration in there

didn't help.

I've tried changing the Graphics Device settings to no avail. Unlike the user in the Fedora 35 update issue linked above, setting the Rendering Engine to Software seems to have solved the problem.


RStudio Diagnostics Report
==========================

WARNING: This report may contain sensitive security information and / or
personally identifiable information. Please audit the below and redact any
sensitive information before submitting your diagnostics report.

Generated: Mon Jan 10 13:35:11 2022

RStudio Version
--------------------------------------------------
2021.09.1+372


Session Information
--------------------------------------------------
R version 4.1.2 (2021-11-01)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Manjaro Linux

Matrix products: default
BLAS:   /usr/lib/libopenblasp-r0.3.19.so
LAPACK: /usr/lib/liblapack.so.3.10.0

locale:
 [1] LC_CTYPE=en_CA.UTF-8       LC_NUMERIC=C               LC_TIME=en_CA.UTF-8       
 [4] LC_COLLATE=en_CA.UTF-8     LC_MONETARY=en_CA.UTF-8    LC_MESSAGES=en_CA.UTF-8   
 [7] LC_PAPER=en_CA.UTF-8       LC_NAME=C                  LC_ADDRESS=C              
[10] LC_TELEPHONE=C             LC_MEASUREMENT=en_CA.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
[1] compiler_4.1.2 tools_4.1.2   


System Information
--------------------------------------------------
sysname        : Linux                                      
release        : 5.15.12-1-MANJARO                          
version        : #1 SMP PREEMPT Wed Dec 29 18:08:07 UTC 2021
nodename       : ggill-linux                                
machine        : x86_64                                     
login          : graham                                     
user           : graham                                     
effective_user : graham                                     


Platform Information
--------------------------------------------------
OS.type    : unix
file.sep   : /
dynlib.ext : .so
GUI        : RStudio
endian     : little
pkgType    : source
path.sep   : :
r_arch     : 


Environment Variables
--------------------------------------------------
CLICOLOR_FORCE                : 1
DBUS_SESSION_BUS_ADDRESS      : unix:path=/run/user/1000/bus
DESKTOP_SESSION               : gnome
DISPLAY                       : :1
EDITOR                        : /usr/bin/nano
force_s3tc_enable             : true
GDM_LANG                      : en_CA.UTF-8
GDMSESSION                    : gnome
GIO_LAUNCHED_DESKTOP_FILE     : /usr/share/applications/rstudio.desktop
GIO_LAUNCHED_DESKTOP_FILE_PID : 357197
GIT_ASKPASS                   : rpostback-askpass
GJS_DEBUG_OUTPUT              : stderr
GJS_DEBUG_TOPICS              : JS ERROR;JS LOG
GRADLE_HOME                   : /usr/share/java/gradle
GTK3_MODULES                  : xapp-gtk3-module
HOME                          : /home/graham
INVOCATION_ID                 : 74cb3cdddc254d588858c71b24f6f440
JOURNAL_STREAM                : 8:21493
KDEDIRS                       : /usr
LANG                          : en_CA.UTF-8
LC_ADDRESS                    : en_CA.UTF-8
LC_MEASUREMENT                : en_CA.UTF-8
LC_MESSAGES                   : en_CA.UTF-8
LC_MONETARY                   : en_CA.UTF-8
LC_PAPER                      : en_CA.UTF-8
LC_TIME                       : en_CA.UTF-8
LD_LIBRARY_PATH               : /usr/lib64/R/lib:/lib:/usr/lib/jvm/java-17-openjdk/lib/server
LN_S                          : ln -s
LOGNAME                       : *** redacted ***
MAIL                          : /var/spool/mail/graham
MAKE                          : make
MANAGERPID                    : 7431
MOTD_SHOWN                    : pam
MPLENGINE                     : tkAgg
PAGER                         : /usr/bin/less
PATH                          : /home/graham/.local/bin:/usr/local/bin:/usr/bin:/var/lib/snapd/snap/bin:/usr/local/sbin:/var/lib/flatpak/exports/bin:/usr/lib/jvm/default/bin:/usr/bin/site_perl:/usr/bin/vendor_perl:/usr/bin/core_perl:/usr/lib/rstudio/bin/postback
PWD                           : *** redacted ***
PYTHONIOENCODING              : utf-8
QT_DIR                        : /usr/lib/rstudio
QT_IM_MODULE                  : ibus
QT_PLUGIN_PATH                : /usr/lib/rstudio/plugins
QT_QPA_PLATFORM_PLUGIN_PATH   : /usr/lib/rstudio/plugins/platforms
QT_QPA_PLATFORMTHEME          : qt5ct
R_BROWSER                     : 
R_BZIPCMD                     : /usr/bin/bzip2
R_DOC_DIR                     : /usr/share/doc/R/
R_GZIPCMD                     : /usr/bin/gzip
R_HOME                        : /usr/lib64/R
R_INCLUDE_DIR                 : /usr/include/R/
R_LIBS_SITE                   : 
R_LIBS_USER                   : ~/R/x86_64-pc-linux-gnu-library/4.1
R_PAPERSIZE                   : letter
R_PDFVIEWER                   : 
R_PLATFORM                    : x86_64-pc-linux-gnu
R_PRINTCMD                    : 
R_RD4PDF                      : times,hyper
R_SESSION_TMPDIR              : /tmp/RtmpmG9HrT
R_SHARE_DIR                   : /usr/share/R/
R_STRIP_SHARED_LIB            : strip --strip-unneeded
R_STRIP_STATIC_LIB            : strip --strip-debug
R_SYSTEM_ABI                  : linux,gcc,gxx,gfortran,gfortran
R_TEXI2DVICMD                 : /usr/bin/texi2dvi
R_UNZIPCMD                    : /usr/bin/unzip
R_ZIPCMD                      : /usr/bin/zip
RMARKDOWN_MATHJAX_PATH        : /usr/lib/rstudio/resources/mathjax-27
RS_PPM_FD_READ                : 88
RS_PPM_FD_WRITE               : 92
RS_RPOSTBACK_PATH             : /usr/lib/rstudio/bin/rpostback
RS_SHARED_SECRET              : *** redacted ***
RSTUDIO                       : 1
RSTUDIO_CONSOLE_COLOR         : 256
RSTUDIO_CONSOLE_WIDTH         : 108
RSTUDIO_PANDOC                : /usr/lib/rstudio/bin/pandoc
RSTUDIO_PROGRAM_MODE          : desktop
RSTUDIO_SESSION_PORT          : 17563
RSTUDIO_USER_IDENTITY         : graham
RSTUDIO_WINUTILS              : bin/winutils
SED                           : /usr/bin/sed
SESSION_MANAGER               : local/ggill-linux:@/tmp/.ICE-unix/7533,unix/ggill-linux:/tmp/.ICE-unix/7533
SHELL                         : /usr/bin/fish
SHLVL                         : 0
SSH_AUTH_SOCK                 : *** redacted ***
SYSTEMD_EXEC_PID              : 7550
TAR                           : /usr/bin/tar
TERM                          : xterm-256color
USER                          : graham
USERNAME                      : *** redacted ***
WINDOWPATH                    : 2
XAUTHORITY                    : /run/user/1000/gdm/Xauthority
XDG_CURRENT_DESKTOP           : GNOME
XDG_DATA_DIRS                 : /home/graham/.local/share/flatpak/exports/share:/var/lib/flatpak/exports/share:/usr/local/share/:/usr/share/:/var/lib/snapd/desktop
XDG_MENU_PREFIX               : gnome-
XDG_RUNTIME_DIR               : /run/user/1000
XDG_SESSION_CLASS             : user
XDG_SESSION_DESKTOP           : gnome
XDG_SESSION_TYPE              : x11
XMODIFIERS                    : @im=ibus


R Version
--------------------------------------------------
platform       : x86_64-pc-linux-gnu
arch           : x86_64
os             : linux-gnu
system         : x86_64, linux-gnu
status         : 
major          : 4
minor          : 1.2
year           : 2021
month          : 11
day            : 01
svn rev        : 81115
language       : R
version.string : R version 4.1.2 (2021-11-01)
nickname       : Bird Hippie


R Home
--------------------------------------------------
/usr/lib64/R


R Search Path
--------------------------------------------------
.GlobalEnv       
tools:rstudio    
package:stats    
package:graphics 
package:grDevices
package:utils    
package:datasets 
package:methods  
Autoloads        
package:base     


R Library Paths
--------------------------------------------------
/home/graham/R/x86_64-pc-linux-gnu-library/4.1
/usr/lib/R/library                            


Loaded Packages
--------------------------------------------------
compiler  : /usr/lib/R/library/compiler 
datasets  : /usr/lib/R/library/datasets 
graphics  : /usr/lib/R/library/graphics 
grDevices : /usr/lib/R/library/grDevices
methods   : /usr/lib/R/library/methods  
stats     : /usr/lib/R/library/stats    
tools     : /usr/lib/R/library/tools    
utils     : /usr/lib/R/library/utils    
base      : /usr/lib64/R/library/base   


Installed Packages
--------------------------------------------------
          Package                                        LibPath  Version
1         askpass /home/graham/R/x86_64-pc-linux-gnu-library/4.1      1.1
2       base64enc /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.1-3
3              BH /home/graham/R/x86_64-pc-linux-gnu-library/4.1 1.78.0-0
4             bit /home/graham/R/x86_64-pc-linux-gnu-library/4.1    4.0.4
5           bit64 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    4.0.5
6            blob /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.2.2
7          cachem /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0.6
8        classInt /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.4-3
9           clipr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.7.1
10    collections /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.5
11     colorspace /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.0-2
12          cpp11 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.4.2
13    credentials /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.3.2
14           curl /home/graham/R/x86_64-pc-linux-gnu-library/4.1    4.3.2
15     data.table /home/graham/R/x86_64-pc-linux-gnu-library/4.1   1.14.2
16            DBI /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1.2
17          dplyr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0.7
18          e1071 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.7-9
19         farver /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.1.0
20     fastdigest /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.6-3
21        fastmap /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1.0
22       fasttime /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0-2
23        foreach /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.5.1
24      fpCompare /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.2.3
25             fs /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.5.2
26         gargle /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.2.0
27  gdalUtilities /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.2.0
28       generics /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.1.1
29           gert /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.5.0
30        ggplot2 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    3.3.5
31             gh /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.3.0
32          git2r /home/graham/R/x86_64-pc-linux-gnu-library/4.1   0.29.0
33       gitcreds /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.1.1
34    googledrive /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.0.0
35       gridBase /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.4-7
36         gtable /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.0
37         gtools /home/graham/R/x86_64-pc-linux-gnu-library/4.1    3.9.2
38          highr /home/graham/R/x86_64-pc-linux-gnu-library/4.1      0.9
39            hms /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1.1
40      htmltools /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.5.2
41    htmlwidgets /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.5.4
42           httr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.4.2
43         igraph /home/graham/R/x86_64-pc-linux-gnu-library/4.1   1.2.11
44            ini /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.1
45        isoband /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.2.5
46      iterators /home/graham/R/x86_64-pc-linux-gnu-library/4.1   1.0.13
47      jquerylib /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.1.4
48       jsonlite /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.7.2
49          knitr /home/graham/R/x86_64-pc-linux-gnu-library/4.1     1.37
50       labeling /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.4.2
51      lifecycle /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0.1
52         lobstr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1.1
53      lubridate /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.8.0
54         Matrix /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.4-0
55        memoise /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.0.1
56           mgcv /home/graham/R/x86_64-pc-linux-gnu-library/4.1   1.8-38
57           mime /home/graham/R/x86_64-pc-linux-gnu-library/4.1     0.12
58        munsell /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.5.0
59        openssl /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.4.6
60         pillar /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.6.4
61      pkgconfig /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.0.3
62          plogr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.2.0
63           plyr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.8.6
64        profvis /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.7
65       progress /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.2.2
66          proxy /home/graham/R/x86_64-pc-linux-gnu-library/4.1   0.4-26
67           pryr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.1.5
68          purrr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.4
69             qs /home/graham/R/x86_64-pc-linux-gnu-library/4.1   0.25.2
70      quickPlot /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.1.6
71    R.methodsS3 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.8.1
72           R.oo /home/graham/R/x86_64-pc-linux-gnu-library/4.1   1.24.0
73        R.utils /home/graham/R/x86_64-pc-linux-gnu-library/4.1   2.11.0
74           ragg /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.2.1
75  RApiSerialize /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.1.0
76       rappdirs /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.3
77         raster /home/graham/R/x86_64-pc-linux-gnu-library/4.1   3.5-11
78   RColorBrewer /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1-2
79           Rcpp /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0.7
80   RcppParallel /home/graham/R/x86_64-pc-linux-gnu-library/4.1    5.1.5
81          readr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.1.1
82       rematch2 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.1.2
83        remotes /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.4.2
84           renv /home/graham/R/x86_64-pc-linux-gnu-library/4.1   0.15.0
85   reproducible /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.2.8
86        Require /home/graham/R/x86_64-pc-linux-gnu-library/4.1   0.0.13
87          rgdal /home/graham/R/x86_64-pc-linux-gnu-library/4.1   1.5-28
88          rgeos /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.5-9
89      rmarkdown /home/graham/R/x86_64-pc-linux-gnu-library/4.1     2.11
90      rootSolve /home/graham/R/x86_64-pc-linux-gnu-library/4.1  1.8.2.3
91        RSQLite /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.2.9
92             s2 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0.7
93         scales /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1.1
94             sf /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0-5
95             sp /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.4-6
96     stringfish /home/graham/R/x86_64-pc-linux-gnu-library/4.1   0.15.5
97        stringi /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.7.6
98        stringr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.4.0
99            sys /home/graham/R/x86_64-pc-linux-gnu-library/4.1      3.4
100   systemfonts /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0.3
101         terra /home/graham/R/x86_64-pc-linux-gnu-library/4.1   1.4-22
102   textshaping /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.6
103        tibble /home/graham/R/x86_64-pc-linux-gnu-library/4.1    3.1.6
104         tidyr /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1.4
105    tidyselect /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.1.1
106       tinytex /home/graham/R/x86_64-pc-linux-gnu-library/4.1     0.36
107          tzdb /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.2.0
108         units /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.7-2
109       usethis /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.1.5
110          utf8 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.2.2
111          uuid /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.0-3
112         vctrs /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.3.8
113      versions /home/graham/R/x86_64-pc-linux-gnu-library/4.1      0.3
114   viridisLite /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.4.0
115         vroom /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.5.7
116       whisker /home/graham/R/x86_64-pc-linux-gnu-library/4.1      0.4
117            wk /home/graham/R/x86_64-pc-linux-gnu-library/4.1    0.6.0
118          xfun /home/graham/R/x86_64-pc-linux-gnu-library/4.1     0.29
119          xml2 /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.3.3
120          yaml /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.2.1
121           zip /home/graham/R/x86_64-pc-linux-gnu-library/4.1    2.2.0
122           zoo /home/graham/R/x86_64-pc-linux-gnu-library/4.1    1.8-9
123    assertthat                             /usr/lib/R/library    0.2.1
124     backports                             /usr/lib/R/library    1.4.0
125          base                             /usr/lib/R/library    4.1.2
126          boot                             /usr/lib/R/library   1.3-28
127          brio                             /usr/lib/R/library    1.1.3
128         callr                             /usr/lib/R/library    3.7.0
129         class                             /usr/lib/R/library   7.3-19
130           cli                             /usr/lib/R/library    3.1.0
131       cluster                             /usr/lib/R/library    2.1.2
132     codetools                             /usr/lib/R/library   0.2-18
133      compiler                             /usr/lib/R/library    4.1.2
134        crayon                             /usr/lib/R/library    1.4.2
135          curl                             /usr/lib/R/library    4.3.2
136      datasets                             /usr/lib/R/library    4.1.2
137          desc                             /usr/lib/R/library    1.4.0
138       diffobj                             /usr/lib/R/library    0.3.5
139        digest                             /usr/lib/R/library   0.6.29
140      ellipsis                             /usr/lib/R/library    0.3.2
141      evaluate                             /usr/lib/R/library     0.14
142         fansi                             /usr/lib/R/library    0.5.0
143       foreign                             /usr/lib/R/library   0.8-81
144          glue                             /usr/lib/R/library    1.6.0
145      graphics                             /usr/lib/R/library    4.1.2
146     grDevices                             /usr/lib/R/library    4.1.2
147          grid                             /usr/lib/R/library    4.1.2
148        httpuv                             /usr/lib/R/library    1.6.4
149      jsonlite                             /usr/lib/R/library    1.7.2
150    KernSmooth                             /usr/lib/R/library  2.23-20
151         later                             /usr/lib/R/library    1.3.0
152       lattice                             /usr/lib/R/library  0.20-45
153     lifecycle                             /usr/lib/R/library    1.0.1
154      magrittr                             /usr/lib/R/library    2.0.1
155          MASS                             /usr/lib/R/library   7.3-54
156        Matrix                             /usr/lib/R/library    1.3-4
157       methods                             /usr/lib/R/library    4.1.2
158          mgcv                             /usr/lib/R/library   1.8-38
159          nlme                             /usr/lib/R/library  3.1-153
160          nnet                             /usr/lib/R/library   7.3-16
161      parallel                             /usr/lib/R/library    4.1.2
162        pillar                             /usr/lib/R/library    1.6.4
163         pingr                             /usr/lib/R/library    2.0.1
164      pkgbuild                             /usr/lib/R/library    1.2.1
165     pkgconfig                             /usr/lib/R/library    2.0.3
166       pkgload                             /usr/lib/R/library    1.2.4
167        praise                             /usr/lib/R/library    1.0.0
168   prettyunits                             /usr/lib/R/library    1.1.1
169      processx                             /usr/lib/R/library    3.5.2
170      promises                             /usr/lib/R/library  1.2.0.1
171            ps                             /usr/lib/R/library    1.6.0
172            R6                             /usr/lib/R/library    2.5.1
173          Rcpp                             /usr/lib/R/library    1.0.7
174      rematch2                             /usr/lib/R/library    2.1.2
175         rlang                             /usr/lib/R/library   0.4.12
176         rpart                             /usr/lib/R/library   4.1-15
177     rprojroot                             /usr/lib/R/library    2.0.2
178    rstudioapi                             /usr/lib/R/library     0.13
179       spatial                             /usr/lib/R/library   7.3-14
180       splines                             /usr/lib/R/library    4.1.2
181         stats                             /usr/lib/R/library    4.1.2
182        stats4                             /usr/lib/R/library    4.1.2
183      survival                             /usr/lib/R/library   3.2-13
184         tcltk                             /usr/lib/R/library    4.1.2
185      testthat                             /usr/lib/R/library    3.1.0
186        tibble                             /usr/lib/R/library    3.1.6
187         tools                             /usr/lib/R/library    4.1.2
188          utf8                             /usr/lib/R/library    1.2.2
189         utils                             /usr/lib/R/library    4.1.2
190         vctrs                             /usr/lib/R/library    0.3.8
191         waldo                             /usr/lib/R/library    0.3.1
192      webutils                             /usr/lib/R/library      1.1
193         withr                             /usr/lib/R/library    2.4.3


R System Profile: /usr/lib64/R/library/base/R/Rprofile
--------------------------------------------------
### This is the system Rprofile file. It is always run on startup.
### Additional commands can be placed in site or user Rprofile files
### (see ?Rprofile).

### Copyright (C) 1995-2020 The R Core Team

### Notice that it is a bad idea to use this file as a template for
### personal startup files, since things will be executed twice and in
### the wrong environment (user profiles are run in .GlobalEnv).

.GlobalEnv <- globalenv()
attach(NULL, name = "Autoloads")
.AutoloadEnv <- as.environment(2)
assign(".Autoloaded", NULL, envir = .AutoloadEnv)
T <- TRUE
F <- FALSE
R.version <- structure(R.Version(), class = "simple.list")
version <- R.version            # for S compatibility

## for backwards compatibility only
R.version.string <- R.version$version.string

## NOTA BENE: options() for non-base package functionality are in places like
##            --------- ../utils/R/zzz.R

options(keep.source = interactive())
options(warn = 0)
# options(repos = c(CRAN="@CRAN@"))
# options(BIOC = "http://www.bioconductor.org")

## setting from an env variable added in 4.0.2
local({to <- as.integer(Sys.getenv("R_DEFAULT_INTERNET_TIMEOUT", 60))
    if (is.na(to) || to <= 0) to <- 60L
    options(timeout = to)
})
options(encoding = "native.enc")
options(show.error.messages = TRUE)
## keep in sync with PrintDefaults() in  ../../main/print.c :
options(scipen = 0)
options(max.print = 99999)# max. #{entries} in internal printMatrix()
options(add.smooth = TRUE)# currently only used in 'plot.lm'

if(isFALSE(as.logical(Sys.getenv("_R_OPTIONS_STRINGS_AS_FACTORS_",
                                 "FALSE")))) {
    options(stringsAsFactors = FALSE)
} else {
    options(stringsAsFactors = TRUE)
}

if(!interactive() && is.null(getOption("showErrorCalls")))
    options(showErrorCalls = TRUE)

local({dp <- Sys.getenv("R_DEFAULT_PACKAGES")
       if(identical(dp, "")) ## it fact methods is done first
           dp <- c("datasets", "utils", "grDevices", "graphics",
                   "stats", "methods")
       else if(identical(dp, "NULL")) dp <- character(0)
       else dp <- strsplit(dp, ",")[[1]]
       dp <- sub("[[:blank:]]*([[:alnum:]]+)", "\\1", dp) # strip whitespace
       options(defaultPackages = dp)
    })

## Expand R_LIBS_* environment variables.
Sys.setenv(R_LIBS_SITE =
           .expand_R_libs_env_var(Sys.getenv("R_LIBS_SITE")))
Sys.setenv(R_LIBS_USER =
           .expand_R_libs_env_var(Sys.getenv("R_LIBS_USER")))

local({
    if(nzchar(tl <- Sys.getenv("R_SESSION_TIME_LIMIT_CPU")))
        setSessionTimeLimit(cpu = tl)
    if(nzchar(tl <- Sys.getenv("R_SESSION_TIME_LIMIT_ELAPSED")))
        setSessionTimeLimit(elapsed = tl)
})

.First.sys <- function()
{
    for(pkg in getOption("defaultPackages")) {
        res <- require(pkg, quietly = TRUE, warn.conflicts = FALSE,
                       character.only = TRUE)
        if(!res)
            warning(gettextf('package %s in options("defaultPackages") was not found', sQuote(pkg)),
                    call. = FALSE, domain = NA)
    }
}

## called at C level in the startup process prior to .First.sys
.OptRequireMethods <- function()
{
    pkg <- "methods" # done this way to avoid R CMD check warning
    if(pkg %in% getOption("defaultPackages"))
        if(!require(pkg, quietly = TRUE, warn.conflicts = FALSE,
                    character.only = TRUE))
            warning('package "methods" in options("defaultPackages") was not found',
                    call. = FALSE)
}

if(nzchar(Sys.getenv("R_BATCH"))) {
    .Last.sys <- function()
    {
        cat("> proc.time()\n")
        print(proc.time())
    }
    ## avoid passing on to spawned R processes
    ## A system has been reported without Sys.unsetenv, so try this
    try(Sys.setenv(R_BATCH=""))
}

local({
    if(nzchar(rv <- Sys.getenv("_R_RNG_VERSION_")))
        suppressWarnings(RNGversion(rv))
})

.sys.timezone <- NA_character_
.First <- NULL
.Last <- NULL
###-*- R -*- Unix Specific ----

.Library <- file.path(R.home(), "library")
.Library.site <- Sys.getenv("R_LIBS_SITE")
.Library.site <- if(!nzchar(.Library.site)) file.path(R.home(), "site-library") else unlist(strsplit(.Library.site, ":"))
.Library.site <- .Library.site[file.exists(.Library.site)]

invisible(.libPaths(c(unlist(strsplit(Sys.getenv("R_LIBS"), ":")),
                      unlist(strsplit(Sys.getenv("R_LIBS_USER"), ":")
                      ))))
local({
    popath <- Sys.getenv("R_TRANSLATIONS", "")
    if(!nzchar(popath)) {
        paths <- file.path(.libPaths(), "translations", "DESCRIPTION")
        popath <- dirname(paths[file.exists(paths)][1])
    }
    bindtextdomain("R", popath)
    bindtextdomain("R-base", popath)
    assign(".popath", popath, .BaseNamespaceEnv)
})
local({
## we distinguish between R_PAPERSIZE as set by the user and by configure
papersize <- Sys.getenv("R_PAPERSIZE_USER")
if(!nchar(papersize)) {
    lcpaper <- Sys.getlocale("LC_PAPER") # might be null: OK as nchar is 0
    papersize <- if(nchar(lcpaper))
        if(length(grep("(_US|_CA)", lcpaper))) "letter" else "a4"
    else Sys.getenv("R_PAPERSIZE")
}
options(papersize = papersize,
        printcmd = Sys.getenv("R_PRINTCMD"),
        dvipscmd = Sys.getenv("DVIPS", "dvips"),
        texi2dvi = Sys.getenv("R_TEXI2DVICMD"),
        browser = Sys.getenv("R_BROWSER"),
        pager = file.path(R.home(), "bin", "pager"),
        pdfviewer = Sys.getenv("R_PDFVIEWER"),
        useFancyQuotes = TRUE)
})

## non standard settings for the R.app GUI of the macOS port
if(.Platform$GUI == "AQUA") {
    ## this is set to let RAqua use both X11 device and X11/TclTk
    if (Sys.getenv("DISPLAY") == "")
	Sys.setenv("DISPLAY" = ":0")

    ## this is to allow gfortran compiler to work
    Sys.setenv("PATH" = paste(Sys.getenv("PATH"),":/usr/local/bin",sep = ""))
}## end "Aqua"

## de-dupe the environment on macOS (bug in Yosemite which affects things like PATH)
if (grepl("^darwin", R.version$os)) local({
    ## we have to de-dupe one at a time and re-check since the bug affects how
    ## environment modifications propagate
    while(length(dupes <- names(Sys.getenv())[table(names(Sys.getenv())) > 1])) {
        env <- dupes[1]
        value <- Sys.getenv(env)
        Sys.unsetenv(env)             ## removes the dupes, good
        .Internal(Sys.setenv(env, value)) ## wrapper requries named vector, a pain, hence internal
    }
})

local({
    tests_startup <- Sys.getenv("R_TESTS")
    if(nzchar(tests_startup)) source(tests_startup)
})


R Site Profile: /usr/lib64/R/etc/Rprofile.site
--------------------------------------------------
(File does not exist)


R User Profile: /home/graham/.Rprofile
--------------------------------------------------
(File does not exist)


R Site Environ: /usr/lib64/R/etc/Renviron.site
--------------------------------------------------
(File does not exist)


R User Environ: /home/graham/.Renviron
--------------------------------------------------
(File does not exist)


R Temporary Directory
--------------------------------------------------
/tmp/RtmpmG9HrT


Files in R Temporary Directory
--------------------------------------------------
rs-graphics-66f4fd6d-6ab4-4d30-857b-facab64bc79b


Log file: /home/graham/.local/share/rstudio/log/rdesktop.log
--------------------------------------------------

(Not Found)

Log file: /home/graham/.local/share/rstudio/log/rsession-graham.log
--------------------------------------------------

2022-01-10T18:34:53.262144Z [rsession-graham] WARNING No memory control group found in /proc/self/cgroup; LOGGED FROM: std::__cxx11::string rstudio::core::system::{anonymous}::getMemoryCgroup() src/cpp/core/system/LinuxResources.cpp:335

...