Last updated on 2025-01-09 01:49:40 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.3.0 | ERROR | ||||
| r-devel-linux-x86_64-debian-gcc | 0.3.0 | 15.92 | 104.55 | 120.47 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.3.0 | 252.65 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.3.0 | 281.78 | OK | |||
| r-devel-windows-x86_64 | 0.3.0 | 28.00 | 160.00 | 188.00 | OK | |
| r-patched-linux-x86_64 | 0.3.0 | 23.24 | 137.47 | 160.71 | OK | |
| r-release-linux-x86_64 | 0.3.0 | 20.48 | 137.45 | 157.93 | OK | |
| r-release-macos-arm64 | 0.3.0 | 82.00 | OK | |||
| r-release-macos-x86_64 | 0.3.0 | 148.00 | OK | |||
| r-release-windows-x86_64 | 0.3.0 | 27.00 | 160.00 | 187.00 | OK | |
| r-oldrel-macos-arm64 | 0.3.0 | 86.00 | OK | |||
| r-oldrel-macos-x86_64 | 0.3.0 | 142.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.3.0 | 31.00 | 206.00 | 237.00 | OK |
Version: 0.3.0
Check: examples
Result: ERROR
Running examples in ‘ClustAssess-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get_clustering_difference
> ### Title: Graph Clustering Method Stability
> ### Aliases: get_clustering_difference
>
> ### ** Examples
>
> set.seed(2021)
> # create an artificial expression matrix
> expr_matrix = matrix(runif(100*10), nrow = 100)
> rownames(expr_matrix) = as.character(1:100)
>
> adj_matrix = Seurat::FindNeighbors(expr_matrix,
+ k.param = 10,
+ nn.method = "rann",
+ verbose = FALSE,
+ compute.SNN = FALSE)$nn
Error in loadNamespace(x) : there is no package called ‘Seurat’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.3.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘ClustAssess.Rmd’ using rmarkdown
Quitting from lines 22-27 [setup] (ClustAssess.Rmd)
Error: processing vignette 'ClustAssess.Rmd' failed with diagnostics:
there is no package called 'Seurat'
--- failed re-building ‘ClustAssess.Rmd’
--- re-building ‘comparing-soft-and-hierarchical.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ClustAssess.Rcheck/vign_test/ClustAssess/vignettes/comparing-soft-and-hierarchical_files/figure-html/setup-1.png
672x432 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 32299 bytes
Input file size = 32413 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25143
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 = 25143
Output IDAT size = 25143 bytes (7156 bytes decrease)
Output file size = 25221 bytes (7192 bytes = 22.19% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ClustAssess.Rcheck/vign_test/ClustAssess/vignettes/comparing-soft-and-hierarchical_files/figure-html/clustering-1.png
672x432 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 30699 bytes
Input file size = 30813 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 24377
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 = 24377
Output IDAT size = 24377 bytes (6322 bytes decrease)
Output file size = 24455 bytes (6358 bytes = 20.63% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ClustAssess.Rcheck/vign_test/ClustAssess/vignettes/comparing-soft-and-hierarchical_files/figure-html/clustering-2.png
672x432 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 31835 bytes
Input file size = 31949 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25281
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 = 25281
Output IDAT size = 25281 bytes (6554 bytes decrease)
Output file size = 25359 bytes (6590 bytes = 20.63% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ClustAssess.Rcheck/vign_test/ClustAssess/vignettes/comparing-soft-and-hierarchical_files/figure-html/clustering-3.png
672x432 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 21677 bytes
Input file size = 21779 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17597
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 = 17597
Output IDAT size = 17597 bytes (4080 bytes decrease)
Output file size = 17675 bytes (4104 bytes = 18.84% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ClustAssess.Rcheck/vign_test/ClustAssess/vignettes/comparing-soft-and-hierarchical_files/figure-html/ecs-1.png
672x432 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 34915 bytes
Input file size = 35041 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27814
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 = 27814
Output IDAT size = 27814 bytes (7101 bytes decrease)
Output file size = 27892 bytes (7149 bytes = 20.40% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ClustAssess.Rcheck/vign_test/ClustAssess/vignettes/comparing-soft-and-hierarchical_files/figure-html/ecs-2.png
672x432 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 34979 bytes
Input file size = 35105 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 28675
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 = 28675
Output IDAT size = 28675 bytes (6304 bytes decrease)
Output file size = 28753 bytes (6352 bytes = 18.09% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ClustAssess.Rcheck/vign_test/ClustAssess/vignettes/comparing-soft-and-hierarchical_files/figure-html/ecs-3.png
672x432 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 34140 bytes
Input file size = 34266 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27855
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 = 27855
Output IDAT size = 27855 bytes (6285 bytes decrease)
Output file size = 27933 bytes (6333 bytes = 18.48% decrease)
--- finished re-building ‘comparing-soft-and-hierarchical.Rmd’
SUMMARY: processing the following file failed:
‘ClustAssess.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang