Last updated on 2025-12-13 10:50:49 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.0.1 | 12.78 | 459.76 | 472.54 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 0.0.1 | 0.27 | 2.76 | 3.03 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.0.1 | 22.00 | 451.05 | 473.05 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.0.1 | 20.00 | 747.76 | 767.76 | ERROR | |
| r-devel-windows-x86_64 | 0.0.1 | 16.00 | 435.00 | 451.00 | NOTE | |
| r-patched-linux-x86_64 | 0.0.1 | 12.14 | 445.59 | 457.73 | NOTE | |
| r-release-linux-x86_64 | 0.0.1 | 10.02 | 446.18 | 456.20 | NOTE | |
| r-release-macos-arm64 | 0.0.1 | NOTE | ||||
| r-release-macos-x86_64 | 0.0.1 | 7.00 | 396.00 | 403.00 | NOTE | |
| r-release-windows-x86_64 | 0.0.1 | 14.00 | 400.00 | 414.00 | NOTE | |
| r-oldrel-macos-arm64 | 0.0.1 | NOTE | ||||
| r-oldrel-macos-x86_64 | 0.0.1 | 7.00 | 305.00 | 312.00 | NOTE | |
| r-oldrel-windows-x86_64 | 0.0.1 | 19.00 | 749.00 | 768.00 | NOTE |
Version: 0.0.1
Check: Rd files
Result: NOTE
checkRd: (-1) HclustDepart.Rd:23: Lost braces; missing escapes or markup?
23 | \item{\code{res2}}: {a data frame contains two columns: names (cell names) and clusters (cluster label)}
| ^
checkRd: (-1) HclustDepart.Rd:24-26: Lost braces
24 | \item{\code{sigclust_p}}: {a matrix with cells to cluster as rows, split index as columns,
| ^
checkRd: (-1) HclustDepart.Rd:27-29: Lost braces
27 | \item{\code{sigclust_z}}: {a matrix with cells to cluster as rows, split index as columns,
| ^
checkRd: (-1) LouvainDepart.Rd:38: Lost braces; missing escapes or markup?
38 | \item{\code{sdata}}: {a Seurat object}
| ^
checkRd: (-1) LouvainDepart.Rd:39-40: Lost braces
39 | \item{\code{tsne_data}}: {a matrix containing t-SNE dimension reduction results,
| ^
checkRd: (-1) LouvainDepart.Rd:41-42: Lost braces
41 | \item{\code{umap_data}}: {a matrix containing UMAP dimension reduction results,
| ^
checkRd: (-1) LouvainDepart.Rd:43: Lost braces; missing escapes or markup?
43 | \item{\code{res_clust}}: {a data frame contains two columns: names (cell names) and clusters (cluster label)}
| ^
checkRd: (-1) sigp.Rd:19: Lost braces; missing escapes or markup?
19 | \item{\code{p}}: {p-value for the first split}
| ^
checkRd: (-1) sigp.Rd:20: Lost braces; missing escapes or markup?
20 | \item{\code{z}}: {z-score for the first split}
| ^
checkRd: (-1) sigp.Rd:21: Lost braces
21 | \item{\code{shc_result}}: {a \code{shc} S3-object as defined in sigclust2 package}
| ^
checkRd: (-1) sigp.Rd:22: Lost braces; missing escapes or markup?
22 | \item{\code{clust2}}: {a vector with group index for each cell}
| ^
checkRd: (-1) sigp.Rd:23: Lost braces; missing escapes or markup?
23 | \item{\code{clust_dat}}: {a matrix of data representation used as input for hierarchical clustering}
| ^
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 0.0.1
Check: package dependencies
Result: ERROR
Package required but not available: ‘Seurat’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.0.1
Check: examples
Result: ERROR
Running examples in ‘scpoisson-Ex.R’ failed
The error most likely occurred in:
> ### Name: LouvainDepart
> ### Title: Louvain clustering using departure as data representation
> ### Aliases: LouvainDepart
>
> ### ** Examples
>
>
> set.seed(1234)
> test_set <- matrix(rpois(500, 2), nrow = 20)
> rownames(test_set) <- paste0("gene", 1:nrow(test_set))
> colnames(test_set) <- paste0("cell", 1:ncol(test_set))
> LouvainDepart(test_set)
Error:
! The `slot` argument of `SetAssayData()` was deprecated in SeuratObject
5.0.0 and is now defunct.
ℹ Please use the `layer` argument instead.
Backtrace:
▆
1. ├─scpoisson::LouvainDepart(test_set)
2. └─scpoisson:::LouvainDepart.matrix(test_set)
3. ├─SeuratObject::SetAssayData(...)
4. └─SeuratObject:::SetAssayData.Assay(...)
5. └─SeuratObject::.Deprecate(...)
6. └─lifecycle::deprecate_stop(...)
7. └─lifecycle:::deprecate_stop0(msg)
8. └─rlang::cnd_signal(...)
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.0.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘scpoissonmodel.Rmd’ using rmarkdown
Quitting from scpoissonmodel.Rmd:78-85 [example3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'scpoissonmodel.Rmd' failed with diagnostics:
The `slot` argument of `SetAssayData()` was deprecated in SeuratObject
5.0.0 and is now defunct.
ℹ Please use the `layer` argument instead.
--- failed re-building ‘scpoissonmodel.Rmd’
SUMMARY: processing the following file failed:
‘scpoissonmodel.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc