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pack() error related to defunct NULL environment #48

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rtaph opened this issue Jun 14, 2021 · 8 comments
Closed

pack() error related to defunct NULL environment #48

rtaph opened this issue Jun 14, 2021 · 8 comments

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@rtaph
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rtaph commented Jun 14, 2021

Hello,

Thank you for such a useful package!

I stumbled across the below error while re-running some code that previously ran without a hitch. Digging into it further, I tracked it down to the pack() function misbehaving.

Running the documentation example no longer works for me:

library(unpivotr)
w <- data.frame(foo = 1:2,
                bar = c("a", "b"),
                stringsAsFactors = FALSE)
x <- as_cells(w)

pack(x)
#> Error in (function (arg) : use of NULL environment is defunct

Created on 2021-06-13 by the reprex package (v2.0.0)

I am guessing perhaps it has to do with a change in rlang or purrr? In any event, switching from a formula to an anonymous function in the map() fixed the issue for me.

Has anyone else come across this?

Session Info

─ Session info ────────────────────────────────────────────────────────────────────────────────
setting value
version R version 4.1.0 (2021-05-18)
os macOS Big Sur 11.3.1
system x86_64, darwin17.0
ui RStudio
language (EN)
collate en_CA.UTF-8
ctype en_CA.UTF-8
tz America/Vancouver
date 2021-06-13

─ Packages ────────────────────────────────────────────────────────────────────────────────────
! package * version date lib source
P backports 1.2.1 2020-12-09 [?] CRAN (R 4.1.0)
P callr 3.7.0 2021-04-20 [?] CRAN (R 4.1.0)
P cli 2.5.0 2021-04-26 [?] CRAN (R 4.1.0)
P clipr 0.7.1 2020-10-08 [?] CRAN (R 4.1.0)
P crayon 1.4.1 2021-02-08 [?] CRAN (R 4.1.0)
P digest 0.6.27 2020-10-24 [?] CRAN (R 4.1.0)
P ellipsis 0.3.2 2021-04-29 [?] CRAN (R 4.1.0)
P evaluate 0.14 2019-05-28 [?] CRAN (R 4.1.0)
P fansi 0.5.0 2021-05-25 [?] CRAN (R 4.1.0)
P fs 1.5.0 2020-07-31 [?] CRAN (R 4.1.0)
P glue 1.4.2 2020-08-27 [?] CRAN (R 4.1.0)
P highr 0.9 2021-04-16 [?] CRAN (R 4.1.0)
P htmltools 0.5.1.1 2021-01-22 [?] CRAN (R 4.1.0)
P knitr 1.33 2021-04-24 [?] CRAN (R 4.1.0)
P lifecycle 1.0.0 2021-02-15 [?] CRAN (R 4.1.0)
P magrittr 2.0.1 2020-11-17 [?] CRAN (R 4.1.0)
P pillar 1.6.1 2021-05-16 [?] CRAN (R 4.1.0)
P pkgconfig 2.0.3 2019-09-22 [?] CRAN (R 4.1.0)
P processx 3.5.2 2021-04-30 [?] CRAN (R 4.1.0)
P ps 1.6.0 2021-02-28 [?] CRAN (R 4.1.0)
purrr 0.3.4.9000 2021-06-14 [1] Github (tidyverse/purrr@5aca9df)
P R6 2.5.0 2020-10-28 [?] CRAN (R 4.1.0)
renv 0.13.2 2021-03-30 [1] CRAN (R 4.1.0)
P reprex 2.0.0 2021-04-02 [?] CRAN (R 4.1.0)
rlang 0.4.11.9000 2021-06-14 [1] Github (r-lib/rlang@b501cf7)
P rmarkdown 2.8 2021-05-07 [?] CRAN (R 4.1.0)
P rstudioapi 0.13 2020-11-12 [?] CRAN (R 4.1.0)
P sessioninfo 1.1.1 2018-11-05 [?] CRAN (R 4.1.0)
P styler 1.4.1 2021-03-30 [?] CRAN (R 4.1.0)
tibble 3.1.2.9000 2021-06-07 [1] Github (tidyverse/tibble@e78b695)
P utf8 1.2.1 2021-03-12 [?] CRAN (R 4.1.0)
vctrs 0.3.8.9000 2021-06-14 [1] Github (r-lib/vctrs@faccc3a)
P withr 2.4.2 2021-04-18 [?] CRAN (R 4.1.0)
P xfun 0.23 2021-05-15 [?] CRAN (R 4.1.0)
P yaml 2.2.1 2020-02-01 [?] CRAN (R 4.1.0)

[1] /Users/raf/r/rena/renv/library/R-4.1/x86_64-apple-darwin17.0
[2] /private/var/folders/0y/w_jlxwxs0l51cs1m43crzvnw0000gn/T/Rtmp4lkECQ/renv-system-library

P ── Loaded and on-disk path mismatch.
@michael-dewar
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I tried to start the book Spreadsheet Munging Strategies but got a similar error right away. The following errors:

path <- system.file("extdata", "worked-examples.xlsx", package = "unpivotr")
xlsx_cells(path, sheet = "clean") %>%
	behead("up", header)

@nacnudus
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Owner

Thank you both for reporting this problem. However, I can't reproduce it with the latest CRAN versions of all packages. Are you able to update the packages you use (e.g. with remotes::update_packages() and try again?

Session Info 
─ Session info ───────────────────────────────────────────────────────────────
 setting  value                       
 version  R version 4.1.0 (2021-05-18)
 os       Arch Linux                  
 system   x86_64, linux-gnu           
 ui       X11                         
 language (EN)                        
 collate  en_GB.UTF-8                 
 ctype    en_GB.UTF-8                 
 tz       Europe/London               
 date     2021-06-28                  

─ Packages ───────────────────────────────────────────────────────────────────
 package     * version date       lib source        
 assertthat    0.2.1   2019-03-21 [1] CRAN (R 4.1.0)
 cachem        1.0.5   2021-05-15 [1] CRAN (R 4.1.0)
 callr         3.7.0   2021-04-20 [1] CRAN (R 4.1.0)
 cli           2.5.0   2021-04-26 [1] CRAN (R 4.1.0)
 crayon        1.4.1   2021-02-08 [1] CRAN (R 4.1.0)
 DBI           1.1.1   2021-01-15 [1] CRAN (R 4.1.0)
 desc          1.3.0   2021-03-05 [1] CRAN (R 4.1.0)
 devtools      2.4.2   2021-06-07 [1] CRAN (R 4.1.0)
 dplyr         1.0.7   2021-06-18 [1] CRAN (R 4.1.0)
 ellipsis      0.3.2   2021-04-29 [1] CRAN (R 4.1.0)
 fansi         0.5.0   2021-05-25 [1] CRAN (R 4.1.0)
 fastmap       1.1.0   2021-01-25 [1] CRAN (R 4.1.0)
 fs            1.5.0   2020-07-31 [1] CRAN (R 4.1.0)
 generics      0.1.0   2020-10-31 [1] CRAN (R 4.1.0)
 glue          1.4.2   2020-08-27 [1] CRAN (R 4.1.0)
 lifecycle     1.0.0   2021-02-15 [1] CRAN (R 4.1.0)
 magrittr      2.0.1   2020-11-17 [1] CRAN (R 4.1.0)
 memoise       2.0.0   2021-01-26 [1] CRAN (R 4.1.0)
 pillar        1.6.1   2021-05-16 [1] CRAN (R 4.1.0)
 pkgbuild      1.2.0   2020-12-15 [1] CRAN (R 4.1.0)
 pkgconfig     2.0.3   2019-09-22 [1] CRAN (R 4.1.0)
 pkgload       1.2.1   2021-04-06 [1] CRAN (R 4.1.0)
 prettyunits   1.1.1   2020-01-24 [1] CRAN (R 4.1.0)
 processx      3.5.2   2021-04-30 [1] CRAN (R 4.1.0)
 ps            1.6.0   2021-02-28 [1] CRAN (R 4.1.0)
 purrr         0.3.4   2020-04-17 [1] CRAN (R 4.1.0)
 R6            2.5.0   2020-10-28 [1] CRAN (R 4.1.0)
 Rcpp          1.0.6   2021-01-15 [1] CRAN (R 4.1.0)
 remotes       2.4.0   2021-06-02 [1] CRAN (R 4.1.0)
 rlang         0.4.11  2021-04-30 [1] CRAN (R 4.1.0)
 rprojroot     2.0.2   2020-11-15 [1] CRAN (R 4.1.0)
 rstudioapi    0.13    2020-11-12 [1] CRAN (R 4.1.0)
 sessioninfo   1.1.1   2018-11-05 [1] CRAN (R 4.1.0)
 testthat      3.0.3   2021-06-16 [1] CRAN (R 4.1.0)
 tibble        3.1.2   2021-05-16 [1] CRAN (R 4.1.0)
 tidyselect    1.1.1   2021-04-30 [1] CRAN (R 4.1.0)
 tidyxl      * 1.0.7   2020-11-16 [1] CRAN (R 4.1.0)
 unpivotr    * 0.6.1   2020-08-03 [1] CRAN (R 4.1.0)
 usethis       2.0.1   2021-02-10 [1] CRAN (R 4.1.0)
 utf8          1.2.1   2021-03-12 [1] CRAN (R 4.1.0)
 vctrs         0.3.8   2021-04-29 [1] CRAN (R 4.1.0)
 withr         2.4.2   2021-04-18 [1] CRAN (R 4.1.0)

[1] /home/nacnudus/R/x86_64-pc-linux-gnu-library/4.1
[2] /usr/lib/R/library

@rtaph
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rtaph commented Jun 28, 2021

When I use CRAN-only installs (via remotes::update_packages()), the example above works without a hitch.

When I subsequently install the development version of rlang, it trips up:

library(unpivotr)
w <- data.frame(foo = 1:2,
                bar = c("a", "b"),
                stringsAsFactors = FALSE)
x <- as_cells(w)

pack(x)
#> Error in (function (arg) : use of NULL environment is defunct

Created on 2021-06-28 by the reprex package (v2.0.0)

Session info 
sessioninfo::session_info()
#> ─ Session info ───────────────────────────────────────────────────────────────
#>  setting  value                       
#>  version  R version 4.1.0 (2021-05-18)
#>  os       macOS Big Sur 10.16         
#>  system   x86_64, darwin17.0          
#>  ui       X11                         
#>  language (EN)                        
#>  collate  en_CA.UTF-8                 
#>  ctype    en_CA.UTF-8                 
#>  tz       America/Vancouver           
#>  date     2021-06-28                  
#> 
#> ─ Packages ───────────────────────────────────────────────────────────────────
#>  package     * version     date       lib source                      
#>  assertthat    0.2.1       2019-03-21 [1] CRAN (R 4.1.0)              
#>  cli           2.5.0       2021-04-26 [1] CRAN (R 4.1.0)              
#>  crayon        1.4.1       2021-02-08 [1] CRAN (R 4.1.0)              
#>  DBI           1.1.1       2021-01-15 [1] CRAN (R 4.1.0)              
#>  digest        0.6.27      2020-10-24 [1] CRAN (R 4.1.0)              
#>  dplyr         1.0.7       2021-06-18 [1] CRAN (R 4.1.0)              
#>  ellipsis      0.3.2       2021-04-29 [1] CRAN (R 4.1.0)              
#>  evaluate      0.14        2019-05-28 [1] CRAN (R 4.1.0)              
#>  fansi         0.5.0       2021-05-25 [1] CRAN (R 4.1.0)              
#>  fs            1.5.0       2020-07-31 [1] CRAN (R 4.1.0)              
#>  generics      0.1.0       2020-10-31 [1] CRAN (R 4.1.0)              
#>  glue          1.4.2       2020-08-27 [1] CRAN (R 4.1.0)              
#>  highr         0.9         2021-04-16 [1] CRAN (R 4.1.0)              
#>  htmltools     0.5.1.1     2021-01-22 [1] CRAN (R 4.1.0)              
#>  knitr         1.33        2021-04-24 [1] CRAN (R 4.1.0)              
#>  lifecycle     1.0.0       2021-02-15 [1] CRAN (R 4.1.0)              
#>  magrittr      2.0.1       2020-11-17 [1] CRAN (R 4.1.0)              
#>  pillar        1.6.1       2021-05-16 [1] CRAN (R 4.1.0)              
#>  pkgconfig     2.0.3       2019-09-22 [1] CRAN (R 4.1.0)              
#>  purrr         0.3.4       2020-04-17 [1] CRAN (R 4.1.0)              
#>  R6            2.5.0       2020-10-28 [1] CRAN (R 4.1.0)              
#>  reprex        2.0.0       2021-04-02 [1] CRAN (R 4.1.0)              
#>  rlang         0.4.11.9000 2021-06-28 [1] Github (r-lib/rlang@869f00a)
#>  rmarkdown     2.9         2021-06-15 [1] CRAN (R 4.1.0)              
#>  rstudioapi    0.13        2020-11-12 [1] CRAN (R 4.1.0)              
#>  sessioninfo   1.1.1       2018-11-05 [1] CRAN (R 4.1.0)              
#>  stringi       1.6.2       2021-05-17 [1] CRAN (R 4.1.0)              
#>  stringr       1.4.0       2019-02-10 [1] CRAN (R 4.1.0)              
#>  tibble        3.1.2       2021-05-16 [1] CRAN (R 4.1.0)              
#>  tidyr         1.1.3       2021-03-03 [1] CRAN (R 4.1.0)              
#>  tidyselect    1.1.1       2021-04-30 [1] CRAN (R 4.1.0)              
#>  unpivotr    * 0.6.1       2020-08-03 [1] CRAN (R 4.1.0)              
#>  utf8          1.2.1       2021-03-12 [1] CRAN (R 4.1.0)              
#>  vctrs         0.3.8       2021-04-29 [1] CRAN (R 4.1.0)              
#>  withr         2.4.2       2021-04-18 [1] CRAN (R 4.1.0)              
#>  xfun          0.24        2021-06-15 [1] CRAN (R 4.1.0)              
#>  yaml          2.2.1       2020-02-01 [1] CRAN (R 4.1.0)              
#> 
#> [1] /Library/Frameworks/R.framework/Versions/4.1/Resources/library

@rtaph
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rtaph commented Jun 28, 2021

Seems related: r-lib/rlang#1208

@michael-dewar
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michael-dewar commented Jun 29, 2021 •
edited
Loading

After I reverted rlang to the CRAN version, the error went away. Then I re-installed the development version using remotes::install_github("r-lib/rlang") and the error returned.

Session info 
─ Session info ────────────────────────────────────────────────────────────────────────────────────────────────────────────
 setting  value                       
 version  R version 4.0.5 (2021-03-31)
 os       macOS Big Sur 11.4          
 system   x86_64, darwin17.0          
 ui       RStudio                     
 language (EN)                        
 collate  en_US.UTF-8                 
 ctype    en_US.UTF-8                 
 tz       America/Toronto             
 date     2021-06-29                  

─ Packages ────────────────────────────────────────────────────────────────────────────────────────────────────────────────
 package     * version     date       lib source                            
 assertthat    0.2.1       2019-03-21 [1] CRAN (R 4.0.2)                    
 backports     1.2.1       2020-12-09 [1] CRAN (R 4.0.2)                    
 broom         0.7.6       2021-04-05 [1] CRAN (R 4.0.5)                    
 cachem        1.0.5       2021-05-15 [1] CRAN (R 4.0.2)                    
 callr         3.7.0       2021-04-20 [1] CRAN (R 4.0.2)                    
 cellranger    1.1.0       2016-07-27 [1] CRAN (R 4.0.2)                    
 cli           2.5.0       2021-04-26 [1] CRAN (R 4.0.2)                    
 clipr         0.7.1       2020-10-08 [1] CRAN (R 4.0.2)                    
 colorspace    2.0-2       2021-06-24 [1] CRAN (R 4.0.2)                    
 crayon        1.4.1       2021-02-08 [1] CRAN (R 4.0.3)                    
 DBI           1.1.1       2021-01-15 [1] CRAN (R 4.0.2)                    
 dbplyr        2.1.1       2021-04-06 [1] CRAN (R 4.0.5)                    
 desc          1.3.0       2021-03-05 [1] CRAN (R 4.0.2)                    
 devtools    * 2.4.1       2021-05-05 [1] CRAN (R 4.0.2)                    
 dplyr       * 1.0.7       2021-06-18 [1] CRAN (R 4.0.2)                    
 ellipsis      0.3.2       2021-04-29 [1] CRAN (R 4.0.2)                    
 fansi         0.5.0       2021-05-25 [1] CRAN (R 4.0.2)                    
 fastmap       1.1.0       2021-01-25 [1] CRAN (R 4.0.2)                    
 forcats     * 0.5.1       2021-01-27 [1] CRAN (R 4.0.2)                    
 fs            1.5.0       2020-07-31 [1] CRAN (R 4.0.2)                    
 generics      0.1.0       2020-10-31 [1] CRAN (R 4.0.2)                    
 ggplot2     * 3.3.5       2021-06-25 [1] CRAN (R 4.0.2)                    
 glue          1.4.2       2020-08-27 [1] CRAN (R 4.0.2)                    
 gtable        0.3.0       2019-03-25 [1] CRAN (R 4.0.2)                    
 haven         2.4.1       2021-04-23 [1] CRAN (R 4.0.2)                    
 hms           1.1.0       2021-05-17 [1] CRAN (R 4.0.2)                    
 httr          1.4.2       2020-07-20 [1] CRAN (R 4.0.2)                    
 jsonlite      1.7.2       2020-12-09 [1] CRAN (R 4.0.2)                    
 lifecycle     1.0.0       2021-02-15 [1] CRAN (R 4.0.3)                    
 lubridate     1.7.10      2021-02-26 [1] CRAN (R 4.0.3)                    
 magrittr      2.0.1       2020-11-17 [1] CRAN (R 4.0.3)                    
 memoise       2.0.0       2021-01-26 [1] CRAN (R 4.0.2)                    
 modelr        0.1.8       2020-05-19 [1] CRAN (R 4.0.2)                    
 munsell       0.5.0       2018-06-12 [1] CRAN (R 4.0.2)                    
 pillar        1.6.1       2021-05-16 [1] CRAN (R 4.0.2)                    
 pkgbuild      1.2.0       2020-12-15 [1] CRAN (R 4.0.2)                    
 pkgconfig     2.0.3       2019-09-22 [1] CRAN (R 4.0.2)                    
 pkgload       1.2.1       2021-04-06 [1] CRAN (R 4.0.5)                    
 prettyunits   1.1.1       2020-01-24 [1] CRAN (R 4.0.2)                    
 processx      3.5.2       2021-04-30 [1] CRAN (R 4.0.2)                    
 ps            1.6.0       2021-02-28 [1] CRAN (R 4.0.2)                    
 purrr       * 0.3.4       2020-04-17 [1] CRAN (R 4.0.2)                    
 R6            2.5.0       2020-10-28 [1] CRAN (R 4.0.2)                    
 Rcpp          1.0.6       2021-01-15 [1] CRAN (R 4.0.2)                    
 readr       * 1.4.0       2020-10-05 [1] CRAN (R 4.0.2)                    
 readxl      * 1.3.1       2019-03-13 [1] CRAN (R 4.0.2)                    
 remotes       2.3.0       2021-04-01 [1] CRAN (R 4.0.2)                    
 reprex        2.0.0       2021-04-02 [1] CRAN (R 4.0.2)                    
 rlang         0.4.11.9000 2021-06-29 [1] Github (r-lib/rlang@869f00a)      
 rprojroot     2.0.2       2020-11-15 [1] CRAN (R 4.0.2)                    
 rstudioapi    0.13        2020-11-12 [1] CRAN (R 4.0.2)                    
 rvest         1.0.0       2021-03-09 [1] CRAN (R 4.0.2)                    
 scales        1.1.1       2020-05-11 [1] CRAN (R 4.0.2)                    
 sessioninfo   1.1.1       2018-11-05 [1] CRAN (R 4.0.2)                    
 smungs      * 0.0.0.9000  2021-06-28 [1] Github (nacnudus/smungs@1c9fdae)  
 stringi       1.6.2       2021-05-17 [1] CRAN (R 4.0.2)                    
 stringr     * 1.4.0       2019-02-10 [1] CRAN (R 4.0.2)                    
 testthat    * 3.0.2       2021-02-14 [1] CRAN (R 4.0.2)                    
 tibble      * 3.1.2       2021-05-16 [1] CRAN (R 4.0.2)                    
 tidyr       * 1.1.3       2021-03-03 [1] CRAN (R 4.0.2)                    
 tidyselect    1.1.1       2021-04-30 [1] CRAN (R 4.0.2)                    
 tidyverse   * 1.3.1       2021-04-15 [1] CRAN (R 4.0.2)                    
 tidyxl      * 1.0.7.9000  2021-06-28 [1] Github (nacnudus/tidyxl@c078d7a)  
 unpivotr    * 0.6.1       2021-06-28 [1] Github (nacnudus/unpivotr@35c4590)
 usethis     * 2.0.1       2021-02-10 [1] CRAN (R 4.0.2)                    
 utf8          1.2.1       2021-03-12 [1] CRAN (R 4.0.2)                    
 vctrs         0.3.8       2021-04-29 [1] CRAN (R 4.0.2)                    
 withr         2.4.2       2021-04-18 [1] CRAN (R 4.0.2)                    
 xml2          1.3.2       2020-04-23 [1] CRAN (R 4.0.2)                    

[1] /Library/Frameworks/R.framework/Versions/4.0/Resources/library

@nacnudus
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Hopefully #49 has fixed this. To check, you will have to reinstall with remotes::install_github("nacnudus/unpivotr").

@rtaph
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rtaph commented Jun 29, 2021

The development version of unpivotr now works on my end. Thanks for the fix!

@michael-dewar
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It works for me too. Thanks!

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@nacnudus @rtaph @michael-dewar