Last updated on 2020-08-27 10:49:29 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 4.4.4 | 21.94 | 195.68 | 217.62 | OK | |
| r-devel-linux-x86_64-debian-gcc | 4.4.4 | 16.78 | 145.28 | 162.06 | OK | |
| r-devel-linux-x86_64-fedora-clang | 4.4.4 | 285.07 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 4.4.4 | 218.12 | ERROR | |||
| r-devel-windows-ix86+x86_64 | 4.4.3 | 52.00 | 291.00 | 343.00 | NOTE | |
| r-patched-linux-x86_64 | 4.4.4 | 16.98 | 194.26 | 211.24 | OK | |
| r-patched-solaris-x86 | 4.4.4 | 294.20 | ERROR | |||
| r-release-linux-x86_64 | 4.4.3 | 20.29 | 214.96 | 235.25 | OK | |
| r-release-macos-x86_64 | 4.4.3 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 4.4.4 | 48.00 | 267.00 | 315.00 | NOTE | |
| r-oldrel-macos-x86_64 | 4.4.4 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 4.4.4 | 34.00 | 193.00 | 227.00 | NOTE |
Version: 4.4.4
Check: package dependencies
Result: NOTE
Suggests orphaned package: ‘SNPassoc’
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 4.4.4
Check: installed package size
Result: NOTE
installed size is 5.6Mb
sub-directories of 1Mb or more:
doc 2.3Mb
help 1.2Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-patched-solaris-x86, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 4.4.4
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘SNPassoc’
Flavors: r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86
Version: 4.4.4
Check: examples
Result: ERROR
Running examples in ‘compareGroups-Ex.R’ failed
The error most likely occurred in:
> ### Name: compareSNPs
> ### Title: Summarise genetic data by groups.
> ### Aliases: compareSNPs print.compareSNPs
> ### Keywords: misc
>
> ### ** Examples
>
>
> require(compareGroups)
> require(SNPassoc)
Loading required package: SNPassoc
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called ‘SNPassoc’
>
> # load example data (taken from SNPassoc)
> data(SNPs)
Warning in data(SNPs) : data set ‘SNPs’ not found
>
> # visualize first rows
> head(SNPs)
Error in head(SNPs) : object 'SNPs' not found
Execution halted
Flavors: r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86
Version: 4.4.4
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘compareGroups_vignette.Rmd’ using rmarkdown
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in compare.i(X[, i], y = y, selec.i = selec[i], method.i = method[i], :
variable 'age7gr' converted to factor since few different values contained
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in norm.plot(x = x.var, file = file.i, var.label.x = var.labels[i], :
p-value for normality in Age could not be calculated
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in compareGroups.fit(X = X, y = y, include.label = include.label, :
variables tovent specified in 'method' not found
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Warning in base::deparse(e, width) :
invalid 'cutoff' value for 'deparse', using default
Loading required package: SNPassoc
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called 'SNPassoc'
Warning in data(SNPs) : data set 'SNPs' not found
Quitting from lines 566-571 (compareGroups_vignette.Rmd)
Error: processing vignette 'compareGroups_vignette.Rmd' failed with diagnostics:
object 'SNPs' not found
--- failed re-building ‘compareGroups_vignette.Rmd’
SUMMARY: processing the following file failed:
‘compareGroups_vignette.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 4.4.3
Check: installed package size
Result: NOTE
installed size is 5.0Mb
sub-directories of 1Mb or more:
doc 2.3Mb
Flavors: r-devel-windows-ix86+x86_64, r-release-macos-x86_64
Version: 4.4.4
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘compareGroups_vignette.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-2'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-3'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-5'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-6'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-7'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-8'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-9'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-10'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-11'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-12'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-13'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-14'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-15'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in compare.i(X[, i], y = y, selec.i = selec[i], method.i = method[i], :
variable 'age7gr' converted to factor since few different values contained
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-16'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-18'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-19'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-21'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-22'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-23'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-24'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-25'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-26'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-28'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-30'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-31'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in norm.plot(x = x.var, file = file.i, var.label.x = var.labels[i], :
p-value for normality in Age could not be calculated
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-32'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-33'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-34'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Warning in compareGroups.fit(X = X, y = y, include.label = include.label, :
variables tovent specified in 'method' not found
Warning in cor.test.default(x, as.integer(y), method = "spearman") :
Cannot compute exact p-value with ties
Warning in block_exec(params) :
Failed to tidy R code in chunk 'unnamed-chunk-35'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'
Loading required package: SNPassoc
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
there is no package called 'SNPassoc'
Warning in data(SNPs) : data set 'SNPs' not found
Quitting from lines 566-571 (compareGroups_vignette.Rmd)
Error: processing vignette 'compareGroups_vignette.Rmd' failed with diagnostics:
object 'SNPs' not found
--- failed re-building ‘compareGroups_vignette.Rmd’
SUMMARY: processing the following file failed:
‘compareGroups_vignette.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86
Version: 4.4.4
Check: dependencies in R code
Result: NOTE
No protocol specified
No protocol specified
Flavor: r-oldrel-macos-x86_64