Last updated on 2024-08-01 09:50:57 CEST.
Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
---|---|---|---|---|---|---|
r-devel-linux-x86_64-debian-clang | 1.3.2 | 10.63 | 202.87 | 213.50 | ERROR | |
r-devel-linux-x86_64-debian-gcc | 1.3.2 | 7.58 | 154.04 | 161.62 | ERROR | |
r-devel-linux-x86_64-fedora-clang | 1.3.2 | 274.98 | ERROR | |||
r-devel-linux-x86_64-fedora-gcc | 1.3.2 | 399.88 | OK | |||
r-devel-windows-x86_64 | 1.3.2 | 15.00 | 171.00 | 186.00 | ERROR | |
r-patched-linux-x86_64 | 1.3.2 | 14.93 | 195.13 | 210.06 | ERROR | |
r-release-linux-x86_64 | 1.3.2 | 7.03 | 191.51 | 198.54 | ERROR | |
r-release-macos-arm64 | 1.3.2 | 105.00 | OK | |||
r-release-macos-x86_64 | 1.3.2 | 162.00 | OK | |||
r-release-windows-x86_64 | 1.3.2 | 16.00 | 169.00 | 185.00 | ERROR | |
r-oldrel-macos-arm64 | 1.3.2 | 97.00 | OK | |||
r-oldrel-macos-x86_64 | 1.3.2 | 217.00 | OK | |||
r-oldrel-windows-x86_64 | 1.3.2 | 17.00 | 208.00 | 225.00 | ERROR |
Version: 1.3.2
Check: examples
Result: ERROR
Running examples in ‘pubh-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cosm_reg
> ### Title: Cosmetics for tables of regression coefficients. Converts tables
> ### generated by 'tbl_regression' to 'huxtable' and adds some cosmetics.
> ### Aliases: cosm_reg
>
> ### ** Examples
>
> require(sjlabelled, quietly = TRUE)
Attaching package: ‘sjlabelled’
The following object is masked from ‘package:huxtable’:
set_label
The following object is masked from ‘package:ggplot2’:
as_label
>
> data(diet, package = "Epi")
> diet <- diet %>%
+ var_labels(
+ chd = "Coronary Heart Disease",
+ fibre = "Fibre intake (g/day)"
+ )
>
> model_binom <- glm(chd ~ fibre, data = diet, family = binomial)
>
> model_binom %>%
+ tbl_regression(exponentiate = TRUE) %>%
+ cosm_reg(bold = TRUE) %>%
+ theme_pubh(1) %>%
+ add_footnote(get_r2(model_binom), font_size = 9)
Error in gtsummary::modify_footnote(., everything() ~ NA, abbreviation = TRUE) :
The package "broom.helpers" (>= 1.15.0) is required.
Calls: %>% ... <Anonymous> -> tbl_regression -> check_pkg_installed
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
Vanderpump 5.938 0.118 7.084
Bernard 5.668 0.232 7.497
Rothman 5.505 0.106 6.141
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.3.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘introduction.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-13-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 23111 bytes
Input file size = 23213 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18532
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 = 18532
Output IDAT size = 18532 bytes (4579 bytes decrease)
Output file size = 18610 bytes (4603 bytes = 19.83% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-15-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11387 bytes
Input file size = 11477 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9602
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 = 9602
Output IDAT size = 9602 bytes (1785 bytes decrease)
Output file size = 9680 bytes (1797 bytes = 15.66% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-16-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 12096 bytes
Input file size = 12186 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10060
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 = 10060
Output IDAT size = 10060 bytes (2036 bytes decrease)
Output file size = 10138 bytes (2048 bytes = 16.81% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-18-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10087 bytes
Input file size = 10177 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9188
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 = 8976
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 = 8976
Output IDAT size = 8976 bytes (1111 bytes decrease)
Output file size = 9054 bytes (1123 bytes = 11.03% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-19-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26215 bytes
Input file size = 26329 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21199
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 = 21199
Output IDAT size = 21199 bytes (5016 bytes decrease)
Output file size = 21277 bytes (5052 bytes = 19.19% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-21-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10300 bytes
Input file size = 10390 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9226
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 = 9190
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 = 9190
Output IDAT size = 9190 bytes (1110 bytes decrease)
Output file size = 9268 bytes (1122 bytes = 10.80% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-22-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13026 bytes
Input file size = 13116 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11149
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 = 11149
Output IDAT size = 11149 bytes (1877 bytes decrease)
Output file size = 11227 bytes (1889 bytes = 14.40% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-23-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13836 bytes
Input file size = 13926 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11733
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 = 11733
Output IDAT size = 11733 bytes (2103 bytes decrease)
Output file size = 11811 bytes (2115 bytes = 15.19% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-24-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15247 bytes
Input file size = 15337 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11871
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 = 11871
Output IDAT size = 11871 bytes (3376 bytes decrease)
Output file size = 11949 bytes (3388 bytes = 22.09% decrease)
Quitting from lines 349-353 [unnamed-chunk-26] (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘introduction.Rmd’
--- re-building ‘regression.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/regression_files/figure-html/unnamed-chunk-3-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15368 bytes
Input file size = 15458 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12425
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 = 12425
Output IDAT size = 12425 bytes (2943 bytes decrease)
Output file size = 12503 bytes (2955 bytes = 19.12% decrease)
Quitting from lines 118-122 [unnamed-chunk-9] (regression.Rmd)
Error: processing vignette 'regression.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘regression.Rmd’
SUMMARY: processing the following files failed:
‘introduction.Rmd’ ‘regression.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.3.2
Check: Rd cross-references
Result: NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
bar_error.Rd: gf_summary
bland_altman.Rd: gf_point
box_plot.Rd: gf_boxplot
gf_star.Rd: gf_text
hist_norm.Rd: gf_dhistogram
mhor.Rd: mh
qq_plot.Rd: gf_qq, gf_line
strip_error.Rd: gf_point, gf_jitter
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
Flavors: r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64
Version: 1.3.2
Check: examples
Result: ERROR
Running examples in ‘pubh-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cosm_reg
> ### Title: Cosmetics for tables of regression coefficients. Converts tables
> ### generated by 'tbl_regression' to 'huxtable' and adds some cosmetics.
> ### Aliases: cosm_reg
>
> ### ** Examples
>
> require(sjlabelled, quietly = TRUE)
Attaching package: ‘sjlabelled’
The following object is masked from ‘package:huxtable’:
set_label
The following object is masked from ‘package:ggplot2’:
as_label
>
> data(diet, package = "Epi")
> diet <- diet %>%
+ var_labels(
+ chd = "Coronary Heart Disease",
+ fibre = "Fibre intake (g/day)"
+ )
>
> model_binom <- glm(chd ~ fibre, data = diet, family = binomial)
>
> model_binom %>%
+ tbl_regression(exponentiate = TRUE) %>%
+ cosm_reg(bold = TRUE) %>%
+ theme_pubh(1) %>%
+ add_footnote(get_r2(model_binom), font_size = 9)
Error in gtsummary::modify_footnote(., everything() ~ NA, abbreviation = TRUE) :
The package "broom.helpers" (>= 1.15.0) is required.
Calls: %>% ... <Anonymous> -> tbl_regression -> check_pkg_installed
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
Bernard 4.203 0.250 7.520
Vanderpump 4.304 0.052 6.547
Rothman 4.167 0.083 7.280
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.3.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘introduction.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-13-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 23111 bytes
Input file size = 23213 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18532
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 = 18532
Output IDAT size = 18532 bytes (4579 bytes decrease)
Output file size = 18610 bytes (4603 bytes = 19.83% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-15-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11482 bytes
Input file size = 11572 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9683
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 = 9683
Output IDAT size = 9683 bytes (1799 bytes decrease)
Output file size = 9761 bytes (1811 bytes = 15.65% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-16-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11978 bytes
Input file size = 12068 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10016
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 = 10016
Output IDAT size = 10016 bytes (1962 bytes decrease)
Output file size = 10094 bytes (1974 bytes = 16.36% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-18-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10101 bytes
Input file size = 10191 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9135
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 = 9003
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 = 9003
Output IDAT size = 9003 bytes (1098 bytes decrease)
Output file size = 9081 bytes (1110 bytes = 10.89% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-19-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26215 bytes
Input file size = 26329 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21199
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 = 21199
Output IDAT size = 21199 bytes (5016 bytes decrease)
Output file size = 21277 bytes (5052 bytes = 19.19% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-21-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10347 bytes
Input file size = 10437 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9238
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 = 9231
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 = 9231
Output IDAT size = 9231 bytes (1116 bytes decrease)
Output file size = 9309 bytes (1128 bytes = 10.81% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-22-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13109 bytes
Input file size = 13199 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11192
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 = 11192
Output IDAT size = 11192 bytes (1917 bytes decrease)
Output file size = 11270 bytes (1929 bytes = 14.61% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-23-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13961 bytes
Input file size = 14051 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11929
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 = 11929
Output IDAT size = 11929 bytes (2032 bytes decrease)
Output file size = 12007 bytes (2044 bytes = 14.55% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-24-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15190 bytes
Input file size = 15280 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11889
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 = 11889
Output IDAT size = 11889 bytes (3301 bytes decrease)
Output file size = 11967 bytes (3313 bytes = 21.68% decrease)
Quitting from lines 349-353 [unnamed-chunk-26] (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘introduction.Rmd’
--- re-building ‘regression.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/regression_files/figure-html/unnamed-chunk-3-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15368 bytes
Input file size = 15458 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12425
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 = 12425
Output IDAT size = 12425 bytes (2943 bytes decrease)
Output file size = 12503 bytes (2955 bytes = 19.12% decrease)
Quitting from lines 118-122 [unnamed-chunk-9] (regression.Rmd)
Error: processing vignette 'regression.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘regression.Rmd’
SUMMARY: processing the following files failed:
‘introduction.Rmd’ ‘regression.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.3.2
Check: examples
Result: ERROR
Running examples in ‘pubh-Ex.R’ failed
The error most likely occurred in:
> ### Name: cosm_reg
> ### Title: Cosmetics for tables of regression coefficients. Converts tables
> ### generated by 'tbl_regression' to 'huxtable' and adds some cosmetics.
> ### Aliases: cosm_reg
>
> ### ** Examples
>
> require(sjlabelled, quietly = TRUE)
Attaching package: ‘sjlabelled’
The following object is masked from ‘package:huxtable’:
set_label
The following object is masked from ‘package:ggplot2’:
as_label
>
> data(diet, package = "Epi")
> diet <- diet %>%
+ var_labels(
+ chd = "Coronary Heart Disease",
+ fibre = "Fibre intake (g/day)"
+ )
>
> model_binom <- glm(chd ~ fibre, data = diet, family = binomial)
>
> model_binom %>%
+ tbl_regression(exponentiate = TRUE) %>%
+ cosm_reg(bold = TRUE) %>%
+ theme_pubh(1) %>%
+ add_footnote(get_r2(model_binom), font_size = 9)
Error in gtsummary::modify_footnote(., everything() ~ NA, abbreviation = TRUE) :
The package "broom.helpers" (>= 1.15.0) is required.
Calls: %>% ... <Anonymous> -> tbl_regression -> check_pkg_installed
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 1.3.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘introduction.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-13-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 23111 bytes
Input file size = 23213 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18532
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 = 18532
Output IDAT size = 18532 bytes (4579 bytes decrease)
Output file size = 18610 bytes (4603 bytes = 19.83% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-15-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11561 bytes
Input file size = 11651 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9673
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 = 9673
Output IDAT size = 9673 bytes (1888 bytes decrease)
Output file size = 9751 bytes (1900 bytes = 16.31% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-16-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 12094 bytes
Input file size = 12184 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10072
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 = 10072
Output IDAT size = 10072 bytes (2022 bytes decrease)
Output file size = 10150 bytes (2034 bytes = 16.69% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-18-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10008 bytes
Input file size = 10098 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9084
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 = 8923
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 = 8923
Output IDAT size = 8923 bytes (1085 bytes decrease)
Output file size = 9001 bytes (1097 bytes = 10.86% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-19-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26215 bytes
Input file size = 26329 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21199
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 = 21199
Output IDAT size = 21199 bytes (5016 bytes decrease)
Output file size = 21277 bytes (5052 bytes = 19.19% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-21-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10323 bytes
Input file size = 10413 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9235
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 = 9214
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 = 9214
Output IDAT size = 9214 bytes (1109 bytes decrease)
Output file size = 9292 bytes (1121 bytes = 10.77% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-22-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13075 bytes
Input file size = 13165 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11135
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 = 11135
Output IDAT size = 11135 bytes (1940 bytes decrease)
Output file size = 11213 bytes (1952 bytes = 14.83% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-23-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13876 bytes
Input file size = 13966 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11868
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 = 11868
Output IDAT size = 11868 bytes (2008 bytes decrease)
Output file size = 11946 bytes (2020 bytes = 14.46% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-24-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15182 bytes
Input file size = 15272 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11965
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 = 11965
Output IDAT size = 11965 bytes (3217 bytes decrease)
Output file size = 12043 bytes (3229 bytes = 21.14% decrease)
Quitting from lines 349-353 [unnamed-chunk-26] (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘introduction.Rmd’
--- re-building ‘regression.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/pubh.Rcheck/vign_test/pubh/vignettes/regression_files/figure-html/unnamed-chunk-3-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15368 bytes
Input file size = 15458 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12425
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 = 12425
Output IDAT size = 12425 bytes (2943 bytes decrease)
Output file size = 12503 bytes (2955 bytes = 19.12% decrease)
Quitting from lines 118-122 [unnamed-chunk-9] (regression.Rmd)
Error: processing vignette 'regression.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘regression.Rmd’
SUMMARY: processing the following files failed:
‘introduction.Rmd’ ‘regression.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.3.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'introduction.Rmd' using rmarkdown
Quitting from lines 349-353 [unnamed-chunk-26] (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building 'introduction.Rmd'
--- re-building 'regression.Rmd' using rmarkdown
Quitting from lines 118-122 [unnamed-chunk-9] (regression.Rmd)
Error: processing vignette 'regression.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building 'regression.Rmd'
SUMMARY: processing the following files failed:
'introduction.Rmd' 'regression.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 1.3.2
Check: examples
Result: ERROR
Running examples in ‘pubh-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cosm_reg
> ### Title: Cosmetics for tables of regression coefficients. Converts tables
> ### generated by 'tbl_regression' to 'huxtable' and adds some cosmetics.
> ### Aliases: cosm_reg
>
> ### ** Examples
>
> require(sjlabelled, quietly = TRUE)
Attaching package: ‘sjlabelled’
The following object is masked from ‘package:huxtable’:
set_label
The following object is masked from ‘package:ggplot2’:
as_label
>
> data(diet, package = "Epi")
> diet <- diet %>%
+ var_labels(
+ chd = "Coronary Heart Disease",
+ fibre = "Fibre intake (g/day)"
+ )
>
> model_binom <- glm(chd ~ fibre, data = diet, family = binomial)
>
> model_binom %>%
+ tbl_regression(exponentiate = TRUE) %>%
+ cosm_reg(bold = TRUE) %>%
+ theme_pubh(1) %>%
+ add_footnote(get_r2(model_binom), font_size = 9)
Error in gtsummary::modify_footnote(., everything() ~ NA, abbreviation = TRUE) :
The package "broom.helpers" (>= 1.15.0) is required.
Calls: %>% ... <Anonymous> -> tbl_regression -> check_pkg_installed
Execution halted
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.3.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘introduction.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-13-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 23111 bytes
Input file size = 23213 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18532
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 = 18532
Output IDAT size = 18532 bytes (4579 bytes decrease)
Output file size = 18610 bytes (4603 bytes = 19.83% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-15-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11474 bytes
Input file size = 11564 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9652
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 = 9652
Output IDAT size = 9652 bytes (1822 bytes decrease)
Output file size = 9730 bytes (1834 bytes = 15.86% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-16-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11960 bytes
Input file size = 12050 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10049
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 = 10049
Output IDAT size = 10049 bytes (1911 bytes decrease)
Output file size = 10127 bytes (1923 bytes = 15.96% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-18-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10002 bytes
Input file size = 10092 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9182
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 = 8903
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 = 8903
Output IDAT size = 8903 bytes (1099 bytes decrease)
Output file size = 8981 bytes (1111 bytes = 11.01% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-19-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26215 bytes
Input file size = 26329 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21199
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 = 21199
Output IDAT size = 21199 bytes (5016 bytes decrease)
Output file size = 21277 bytes (5052 bytes = 19.19% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-21-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10361 bytes
Input file size = 10451 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9248
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 = 9248
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 = 9248
Output IDAT size = 9248 bytes (1113 bytes decrease)
Output file size = 9326 bytes (1125 bytes = 10.76% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-22-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13106 bytes
Input file size = 13196 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11171
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 = 11171
Output IDAT size = 11171 bytes (1935 bytes decrease)
Output file size = 11249 bytes (1947 bytes = 14.75% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-23-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13901 bytes
Input file size = 13991 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11937
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 = 11937
Output IDAT size = 11937 bytes (1964 bytes decrease)
Output file size = 12015 bytes (1976 bytes = 14.12% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-24-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15269 bytes
Input file size = 15359 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11892
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 = 11892
Output IDAT size = 11892 bytes (3377 bytes decrease)
Output file size = 11970 bytes (3389 bytes = 22.07% decrease)
Quitting from lines 349-353 [unnamed-chunk-26] (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘introduction.Rmd’
--- re-building ‘regression.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/regression_files/figure-html/unnamed-chunk-3-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15368 bytes
Input file size = 15458 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12425
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 = 12425
Output IDAT size = 12425 bytes (2943 bytes decrease)
Output file size = 12503 bytes (2955 bytes = 19.12% decrease)
Quitting from lines 118-122 [unnamed-chunk-9] (regression.Rmd)
Error: processing vignette 'regression.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘regression.Rmd’
SUMMARY: processing the following files failed:
‘introduction.Rmd’ ‘regression.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 1.3.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘introduction.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-13-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 23111 bytes
Input file size = 23213 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18532
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 = 18532
Output IDAT size = 18532 bytes (4579 bytes decrease)
Output file size = 18610 bytes (4603 bytes = 19.83% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-15-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11598 bytes
Input file size = 11688 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9713
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 = 9713
Output IDAT size = 9713 bytes (1885 bytes decrease)
Output file size = 9791 bytes (1897 bytes = 16.23% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-16-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11992 bytes
Input file size = 12082 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10001
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 = 10001
Output IDAT size = 10001 bytes (1991 bytes decrease)
Output file size = 10079 bytes (2003 bytes = 16.58% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-18-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10113 bytes
Input file size = 10203 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9117
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 = 9002
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 = 9002
Output IDAT size = 9002 bytes (1111 bytes decrease)
Output file size = 9080 bytes (1123 bytes = 11.01% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-19-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26215 bytes
Input file size = 26329 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21199
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 = 21199
Output IDAT size = 21199 bytes (5016 bytes decrease)
Output file size = 21277 bytes (5052 bytes = 19.19% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-21-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 10326 bytes
Input file size = 10416 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9231
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 = 9218
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 = 9218
Output IDAT size = 9218 bytes (1108 bytes decrease)
Output file size = 9296 bytes (1120 bytes = 10.75% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-22-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13006 bytes
Input file size = 13096 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11124
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 = 11124
Output IDAT size = 11124 bytes (1882 bytes decrease)
Output file size = 11202 bytes (1894 bytes = 14.46% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-23-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13913 bytes
Input file size = 14003 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11843
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 = 11843
Output IDAT size = 11843 bytes (2070 bytes decrease)
Output file size = 11921 bytes (2082 bytes = 14.87% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/introduction_files/figure-html/unnamed-chunk-24-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15289 bytes
Input file size = 15379 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11880
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 = 11880
Output IDAT size = 11880 bytes (3409 bytes decrease)
Output file size = 11958 bytes (3421 bytes = 22.24% decrease)
Quitting from lines 349-353 [unnamed-chunk-26] (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘introduction.Rmd’
--- re-building ‘regression.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/pubh.Rcheck/vign_test/pubh/vignettes/regression_files/figure-html/unnamed-chunk-3-1.png
480x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15368 bytes
Input file size = 15458 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12425
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 = 12425
Output IDAT size = 12425 bytes (2943 bytes decrease)
Output file size = 12503 bytes (2955 bytes = 19.12% decrease)
Quitting from lines 118-122 [unnamed-chunk-9] (regression.Rmd)
Error: processing vignette 'regression.Rmd' failed with diagnostics:
The package "broom.helpers" (>= 1.15.0) is required.
--- failed re-building ‘regression.Rmd’
SUMMARY: processing the following files failed:
‘introduction.Rmd’ ‘regression.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64