CRAN Package Check Results for Maintainer ‘Daphne van Ginneken <daphne.v.ginneken at gmail.com>’

Last updated on 2025-12-28 01:49:06 CET.

Package	ERROR	NOTE	OK
AntibodyForests	1		12
Platypus	9	2	2

Package AntibodyForests

Current CRAN status: ERROR: 1, OK: 12

Version: 1.1.0
Check: package dependencies
Result: ERROR Package required but not available: ‘pwalign’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavor: r-oldrel-macos-x86_64

Package Platypus

Current CRAN status: ERROR: 9, NOTE: 2, OK: 2

Additional issues

donttest

Version: 3.6.0
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘VDJ_build.R’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, 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

Version: 3.6.0
Check: examples
Result: ERROR Running examples in ‘Platypus-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: GEX_coexpression_coefficient > ### Title: Coexpression of selected genes > ### Aliases: GEX_coexpression_coefficient > > ### ** Examples > > GEX_coexpression_coefficient(GEX = Platypus::small_vgm[[2]] + , genes = c("CD19", "CD83"), subsample.n = "none", plot.dotmap = FALSE) Error: ! The `slot` argument of `FetchData()` was deprecated in SeuratObject 5.0.0 and is now defunct. ℹ Please use the `layer` argument instead. Backtrace: ▆ 1. └─Platypus::GEX_coexpression_coefficient(...) 2. ├─SeuratObject::FetchData(GEX, vars = genes, slot = "counts") 3. └─SeuratObject:::FetchData.Seurat(GEX, vars = genes, slot = "counts") 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-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 3.6.0
Check: examples
Result: ERROR Running examples in ‘Platypus-Ex.R’ failed The error most likely occurred in: > ### Name: GEX_coexpression_coefficient > ### Title: Coexpression of selected genes > ### Aliases: GEX_coexpression_coefficient > > ### ** Examples > > GEX_coexpression_coefficient(GEX = Platypus::small_vgm[[2]] + , genes = c("CD19", "CD83"), subsample.n = "none", plot.dotmap = FALSE) Error: ! The `slot` argument of `FetchData()` was deprecated in SeuratObject 5.0.0 and is now defunct. ℹ Please use the `layer` argument instead. Backtrace: ▆ 1. └─Platypus::GEX_coexpression_coefficient(...) 2. ├─SeuratObject::FetchData(GEX, vars = genes, slot = "counts") 3. └─SeuratObject:::FetchData.Seurat(GEX, vars = genes, slot = "counts") 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, r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64