Possible bug in `class<-` when a class-specific '[[.' method is defined

Mon, Jul 15, 2019 9:19 AM

When RStudio builds the Environment pane, it will evaluate some R code
on objects in your global environment (as you have seen). In
particular, for better or worse, it calls `str()` on objects in the
global environment, to get a short text summary of the object.

So, to reproduce what you're seeing in a plain R session, you can check:

[1] 0

Classes 'MYCLASS' and 'data.frame':     5 obs. of  4 variables:
 $ V1: int  1 2 3 4 5
 $ V2: int  6 7 8 9 10
 $ V3: int  11 12 13 14 15
 $ V4: int  16 17 18 19 20

[1] 9

Newer versions will allow you to disable the Environment pane if you
so desire, since calling `str()` can have these kinds of undesirable
side effects in some cases.

In general though, if you're reporting a bug in R (as opposed to
RStudio) it's best to verify that you can reproduce the issue in a
'plain' R session (e.g. in the terminal) to be absolutely sure you're
seeing an R issue as opposed to an RStudio issue, as I imagine the
last thing R Core wants to do is spend time tracking down an issue
only to find it was in RStudio rather than R itself...

If you want to follow up further with the RStudio team I'd recommend
making a post at https://community.rstudio.com/c/rstudio-ide.

Thanks,
Kevin

On Mon, Jul 15, 2019 at 7:59 AM Rui Barradas <ruipbarradas at sapo.pt> wrote:

Hello,

Inline.

?s 14:26 de 15/07/19, Duncan Murdoch escreveu:

On 15/07/2019 8:57 a.m., Rui Barradas wrote:

Hello,

Clean R 3.6.1 session on Ubuntu 19.04, RStudio 1.1.453. sessionInfo() at
the end.

That's not what I'd call a "clean session" with all those packages loaded:

You are right, but when I wrote that it *was* clean. Then, for some
reason I don't understand, RStudio loaded them all. Guess I'll have to
check what is going on here.

loaded via a namespace (and not attached):
    [1] sos_2.0-0           nlme_3.1-140        matrixStats_0.54.0
    [4] fs_1.2.7            xts_0.11-2          usethis_1.5.0
    [7] lubridate_1.7.4     devtools_2.0.2      RColorBrewer_1.1-2
   [10] rprojroot_1.3-2     rbenchmark_1.0.0    tools_3.6.1
   [13] backports_1.1.4     R6_2.4.0            rpart_4.1-15
   [16] Hmisc_4.2-0         lazyeval_0.2.2      colorspace_1.4-1
   [19] nnet_7.3-12         npsurv_0.4-0        withr_2.1.2
   [22] tidyselect_0.2.5    gridExtra_2.3       prettyunits_1.0.2
   [25] processx_3.3.0      curl_3.3            compiler_3.6.1
   [28] cli_1.1.0           htmlTable_1.13.1    randomNames_1.4-0.0
   [31] dvmisc_1.1.3        desc_1.2.0          tseries_0.10-46
   [34] scales_1.0.0        checkmate_1.9.1     lmtest_0.9-36
   [37] fracdiff_1.4-2      mvtnorm_1.0-10      quadprog_1.5-6
   [40] callr_3.2.0         stringr_1.4.0       digest_0.6.18
   [43] foreign_0.8-71      rio_0.5.16          base64enc_0.1-3
   [46] stocks_1.1.4        pkgconfig_2.0.2     htmltools_0.3.6
   [49] sessioninfo_1.1.1   readxl_1.3.1        htmlwidgets_1.3
   [52] rlang_0.3.4         TTR_0.23-4          rstudioapi_0.10
   [55] quantmod_0.4-14     MLmetrics_1.1.1     zoo_1.8-5
   [58] zip_2.0.1           acepack_1.4.1       dplyr_0.8.0.1
   [61] car_3.0-2           magrittr_1.5        Formula_1.2-3
   [64] Matrix_1.2-17       Rcpp_1.0.1          munsell_0.5.0
   [67] abind_1.4-5         stringi_1.4.3       forecast_8.6
   [70] yaml_2.2.0          carData_3.0-2       MASS_7.3-51.3
   [73] pkgbuild_1.0.3      plyr_1.8.4          grid_3.6.1
   [76] parallel_3.6.1      forcats_0.4.0       crayon_1.3.4
   [79] lattice_0.20-38     haven_2.1.0         splines_3.6.1
   [82] hms_0.4.2           knitr_1.22          ps_1.3.0
   [85] pillar_1.4.0        pkgload_1.0.2       urca_1.3-0
   [88] glue_1.3.1          lsei_1.2-0          babynames_1.0.0
   [91] latticeExtra_0.6-28 data.table_1.12.2   remotes_2.0.4
   [94] cellranger_1.1.0    testthat_2.1.0      gtable_0.3.0
   [97] purrr_0.3.2         assertthat_0.2.1    ggplot2_3.1.1
[100] openxlsx_4.1.0      xfun_0.6            survey_3.35-1
[103] survival_2.44-1.1   timeDate_3043.102   tibble_2.1.1
[106] memoise_1.1.0       cluster_2.0.8       toOrdinal_1.1-0.0
[109] fitdistrplus_1.0-14 brew_1.0-6

However, even when I load almost all of those, I don't see the problem.
I've got the same R version, and a newer Rstudio version (mine is
1.2.1335 on a Mac).  I couldn't load ] "latticeExtradata.table" and
"fitdistrplusbrew", and I didn't check my package versions against yours.

I'd suspect the issue is with RStudio somehow, because it needs to do a
lot to maintain its environment view.  Do you see this when running R
from the command line?

Duncan Murdoch

It's a RStudio thing.
Tested with

Rscript --vanilla test.R


the result is the expected one.
(test.R has the obvious contents.)


Rui Barradas

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Possible bug in `class<-` when a class-specific '[[.' method is defined

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