Last updated on 2024-07-27 11:49:22 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| smdi | 3 | 1 | 9 |
Current CRAN status: ERROR: 3, NOTE: 1, OK: 9
Version: 0.2.2
Check: Rd files
Result: NOTE
checkRd: (-1) smdi_diagnose.Rd:49: Lost braces; missing escapes or markup?
49 | \item asmd_{mean/median}: average/median absolute standardized mean difference (and min, max) of patient characteristics between those without (1) and with (0) observed covariate
| ^
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64
Version: 0.2.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘a_data_generation.Rmd’ using rmarkdown
Quitting from lines 105-115 [pr(exposure)_tbl] (a_data_generation.Rmd)
Error: processing vignette 'a_data_generation.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘a_data_generation.Rmd’
--- re-building ‘b_routine_diagnostics.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/b_routine_diagnostics_files/figure-html/unnamed-chunk-5-1.png
900x675 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 22104 bytes
Input file size = 22206 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20281
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5 IDAT size = 19651
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 5 IDAT size = 19651
Output IDAT size = 19651 bytes (2453 bytes decrease)
Output file size = 19729 bytes (2477 bytes = 11.15% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/b_routine_diagnostics_files/figure-html/unnamed-chunk-6-1.png
900x675 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 39424 bytes
Input file size = 39550 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 34520
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 34520
Output IDAT size = 34520 bytes (4904 bytes decrease)
Output file size = 34598 bytes (4952 bytes = 12.52% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/b_routine_diagnostics_files/figure-html/unnamed-chunk-7-1.png
900x675 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 10795 bytes
Input file size = 11665 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8693
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8693
Output IDAT size = 8693 bytes (2102 bytes decrease)
Output file size = 8771 bytes (2894 bytes = 24.81% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/b_routine_diagnostics_files/figure-html/unnamed-chunk-11-1.png
900x675 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 54591 bytes
Input file size = 54741 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 44682
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 44682
Output IDAT size = 44682 bytes (9909 bytes decrease)
Output file size = 44760 bytes (9981 bytes = 18.23% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/b_routine_diagnostics_files/figure-html/unnamed-chunk-17-1.png
900x675 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 51345 bytes
Input file size = 51495 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 41754
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 41754
Output IDAT size = 41754 bytes (9591 bytes decrease)
Output file size = 41832 bytes (9663 bytes = 18.76% decrease)
--- finished re-building ‘b_routine_diagnostics.Rmd’
--- re-building ‘c_multivariate_missingness.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/c_multivariate_missingness_files/figure-html/unnamed-chunk-4-1.png
900x675 pixels, 8 bits/pixel, 255 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 8063 bytes
Input file size = 8918 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6444
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6444
Output IDAT size = 6444 bytes (1619 bytes decrease)
Output file size = 6522 bytes (2396 bytes = 26.87% decrease)
--- finished re-building ‘c_multivariate_missingness.Rmd’
--- re-building ‘d_narfcs_sensitivity_analysis.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/d_narfcs_sensitivity_analysis_files/figure-html/unnamed-chunk-3-1.png
900x675 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 49906 bytes
Input file size = 50056 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 39816
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 39816
Output IDAT size = 39816 bytes (10090 bytes decrease)
Output file size = 39894 bytes (10162 bytes = 20.30% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/d_narfcs_sensitivity_analysis_files/figure-html/unnamed-chunk-6-1.png
900x675 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 22563 bytes
Input file size = 23445 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20419
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20419
Output IDAT size = 20419 bytes (2144 bytes decrease)
Output file size = 20497 bytes (2948 bytes = 12.57% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/d_narfcs_sensitivity_analysis_files/figure-html/unnamed-chunk-8-1.png
900x675 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 53311 bytes
Input file size = 53461 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 41158
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 41158
Output IDAT size = 41158 bytes (12153 bytes decrease)
Output file size = 41236 bytes (12225 bytes = 22.87% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/smdi.Rcheck/vign_test/smdi/vignettes/d_narfcs_sensitivity_analysis_files/figure-html/unnamed-chunk-10-1.png
900x675 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 52477 bytes
Input file size = 52627 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 39892
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 39892
Output IDAT size = 39892 bytes (12585 bytes decrease)
Output file size = 39970 bytes (12657 bytes = 24.05% decrease)
--- finished re-building ‘d_narfcs_sensitivity_analysis.Rmd’
--- re-building ‘smdi.Rmd’ using rmarkdown
--- finished re-building ‘smdi.Rmd’
SUMMARY: processing the following file failed:
‘a_data_generation.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.3.0
Check: running R code from vignettes
Result: ERROR
Errors in running code in vignettes:
when running code in ‘a_data_generation.Rmd’
...
> use_data(smdi_data_complete, overwrite = TRUE)
Warning in path_file(base_path) :
restarting interrupted promise evaluation
When sourcing ‘a_data_generation.R’:
Error: Failed to evaluate glue component {ui_value(project_name())}
Caused by error:
! Path '/private/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T/RtmprhTiVl/file1734445aacd48/vignettes/' does not appear to be inside a project or package.
Read more in the help for `proj_get()`.
Execution halted
when running code in ‘b_routine_diagnostics.Rmd’
...
> library(here)
here() starts at /private/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T/RtmpiPybpO/file174f56c6ba51c/vignettes
> library(knitr)
> include_graphics(here("vignettes", "smdi_diagnose_table.png"))
When sourcing ‘b_routine_diagnostics.R’:
Error: Cannot find the file(s): "/private/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T/RtmpiPybpO/file174f56c6ba51c/vignettes/vignettes/smdi_diagnose_table.png"
Execution halted
‘a_data_generation.Rmd’ using ‘UTF-8’... failed
‘b_routine_diagnostics.Rmd’ using ‘UTF-8’... failed
‘c_multivariate_missingness.Rmd’ using ‘UTF-8’... [22s/27s] OK
‘d_narfcs_sensitivity_analysis.Rmd’ using ‘UTF-8’... [85s/95s] OK
‘smdi.Rmd’ using ‘UTF-8’... [19s/19s] OK
Flavor: r-oldrel-macos-arm64
Version: 0.3.0
Check: running R code from vignettes
Result: ERROR
Errors in running code in vignettes:
when running code in ‘a_data_generation.Rmd’
...
> use_data(smdi_data_complete, overwrite = TRUE)
Warning in path_file(base_path) :
restarting interrupted promise evaluation
When sourcing ‘a_data_generation.R’:
Error: Failed to evaluate glue component {ui_value(project_name())}
Caused by error:
! Path '/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpIV46Y6/file2e347035bc8/vignettes/' does not appear to be inside a project or package.
Read more in the help for `proj_get()`.
Execution halted
when running code in ‘b_routine_diagnostics.Rmd’
...
> library(here)
here() starts at /private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpxUYhlh/filef8357b04dc6/vignettes
> library(knitr)
> include_graphics(here("vignettes", "smdi_diagnose_table.png"))
When sourcing ‘b_routine_diagnostics.R’:
Error: Cannot find the file(s): "/private/var/folders/2b/t0kwbtmn3p7brv2mvx39c9cr0000gn/T/RtmpxUYhlh/filef8357b04dc6/vignettes/vignettes/smdi_diagnose_table.png"
Execution halted
‘a_data_generation.Rmd’ using ‘UTF-8’... failed
‘b_routine_diagnostics.Rmd’ using ‘UTF-8’... failed
‘c_multivariate_missingness.Rmd’ using ‘UTF-8’... [24s/35s] OK
‘d_narfcs_sensitivity_analysis.Rmd’ using ‘UTF-8’... [120s/227s] OK
‘smdi.Rmd’ using ‘UTF-8’... [20s/32s] OK
Flavor: r-oldrel-macos-x86_64