CRAN Package Check Results for Maintainer ‘Xiao Zhang <zhangxiao1994 at cuhk.edu.cn>’

Last updated on 2025-12-14 04:50:33 CET.

Package	ERROR	NOTE	OK
CAESAR.Suite	4	2	7

Package CAESAR.Suite

Current CRAN status: ERROR: 4, NOTE: 2, OK: 7

Version: 0.2.3
Check: examples
Result: ERROR Running examples in ‘CAESAR.Suite-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: CAESAR.CTDEP > ### Title: Test Cell Type Differentially Enriched Pathways > ### Aliases: CAESAR.CTDEP > > ### ** Examples > > data(toydata) > > seu <- toydata$seu > pathway_list <- toydata$pathway_list > cts <- levels(seu)[1:2] > > enrich.score <- CAESAR.enrich.score(seu, pathway_list) Calculate co-embedding distance... Error: ! The `slot` argument of `GetAssayData()` was deprecated in SeuratObject 5.0.0 and is now defunct. ℹ Please use the `layer` argument instead. Backtrace: ▆ 1. └─CAESAR.Suite::CAESAR.enrich.score(seu, pathway_list) 2. ├─Seurat::GetAssayData(object = seu, slot = "data", assay = assay.dist) 3. └─SeuratObject:::GetAssayData.Seurat(...) 4. └─SeuratObject::.Deprecate(...) 5. └─lifecycle::deprecate_stop(...) 6. └─lifecycle:::deprecate_stop0(msg) 7. └─rlang::cnd_signal(...) Execution halted Flavors: r-devel-linux-x86_64-debian-gcc, r-release-linux-x86_64

Version: 0.2.3
Check: examples
Result: ERROR Running examples in ‘CAESAR.Suite-Ex.R’ failed The error most likely occurred in: > ### Name: CAESAR.CTDEP > ### Title: Test Cell Type Differentially Enriched Pathways > ### Aliases: CAESAR.CTDEP > > ### ** Examples > > data(toydata) > > seu <- toydata$seu > pathway_list <- toydata$pathway_list > cts <- levels(seu)[1:2] > > enrich.score <- CAESAR.enrich.score(seu, pathway_list) Calculate co-embedding distance... Error: ! The `slot` argument of `GetAssayData()` was deprecated in SeuratObject 5.0.0 and is now defunct. ℹ Please use the `layer` argument instead. Backtrace: ▆ 1. └─CAESAR.Suite::CAESAR.enrich.score(seu, pathway_list) 2. ├─Seurat::GetAssayData(object = seu, slot = "data", assay = assay.dist) 3. └─SeuratObject:::GetAssayData.Seurat(...) 4. └─SeuratObject::.Deprecate(...) 5. └─lifecycle::deprecate_stop(...) 6. └─lifecycle:::deprecate_stop0(msg) 7. └─rlang::cnd_signal(...) Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 0.2.3
Check: installed package size
Result: NOTE installed size is 7.4Mb sub-directories of 1Mb or more: data 1.4Mb libs 5.5Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64