CRAN Package Check Results for Maintainer Peter Carbonetto <peter.carbonetto at gmail.com>

CRAN Package Check Results for Maintainer ‘Peter Carbonetto <peter.carbonetto at gmail.com>’

Last updated on 2026-02-13 11:50:35 CET.

Package	ERROR	NOTE	OK
EbayesThresh			14
ebnm			14
fastTopics	3	3	8
mashr		4	10
mixsqp			14
mr.mashr		3	11
susieR			14
varbvs			14

Package ebnm

Current CRAN status: OK: 14

Package fastTopics

Current CRAN status: ERROR: 3, NOTE: 3, OK: 8

Version: 0.7-37
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘relationship.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘relationship.Rmd’ --- re-building ‘single_cell_rnaseq_basic.Rmd’ using rmarkdown trying URL 'https://stephenslab.github.io/fastTopics/pbmc_facs.RData' Content type 'application/octet-stream' length 8739244 bytes (8.3 MB) ================================================== downloaded 8.3 MB --- finished re-building ‘single_cell_rnaseq_basic.Rmd’ --- re-building ‘topics_vs_clusters.Rmd’ using rmarkdown Quitting from topics_vs_clusters.Rmd:28-34 [load-pkgs] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `library()`: ! there is no package called 'Ternary' --- Backtrace: ▆ 1. └─base::library(Ternary) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'topics_vs_clusters.Rmd' failed with diagnostics: there is no package called 'Ternary' --- failed re-building ‘topics_vs_clusters.Rmd’ SUMMARY: processing the following file failed: ‘topics_vs_clusters.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.7-37
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘relationship.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘relationship.Rmd’ --- re-building ‘single_cell_rnaseq_basic.Rmd’ using rmarkdown trying URL 'https://stephenslab.github.io/fastTopics/pbmc_facs.RData' Content type 'application/octet-stream' length 8739244 bytes (8.3 MB) ================================================== downloaded 8.3 MB --- finished re-building ‘single_cell_rnaseq_basic.Rmd’ --- re-building ‘topics_vs_clusters.Rmd’ using rmarkdown Quitting from topics_vs_clusters.Rmd:28-34 [load-pkgs] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `library()`: ! there is no package called 'Ternary' --- Backtrace: ▆ 1. └─base::library(Ternary) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'topics_vs_clusters.Rmd' failed with diagnostics: there is no package called 'Ternary' --- failed re-building ‘topics_vs_clusters.Rmd’ SUMMARY: processing the following file failed: ‘topics_vs_clusters.Rmd’ Error: Vignette re-building failed. Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 0.7-37
Check: installed package size
Result: NOTE installed size is 14.4Mb sub-directories of 1Mb or more: data 7.2Mb doc 2.0Mb libs 4.7Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 0.7-37
Check: for GNU extensions in Makefiles
Result: NOTE GNU make is a SystemRequirements. Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package mashr

Current CRAN status: NOTE: 4, OK: 10

Version: 0.2.79
Check: dependencies in R code
Result: NOTE Namespace in Imports field not imported from: ‘softImpute’ All declared Imports should be used. Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 0.2.79
Check: installed package size
Result: NOTE installed size is 8.3Mb sub-directories of 1Mb or more: libs 7.4Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package mixsqp

Current CRAN status: OK: 14

Package mr.mashr

Current CRAN status: NOTE: 3, OK: 11

Version: 0.3.44
Check: installed package size
Result: NOTE installed size is 7.0Mb sub-directories of 1Mb or more: doc 1.1Mb libs 5.6Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Version: 0.3.44
Check: for GNU extensions in Makefiles
Result: NOTE GNU make is a SystemRequirements. Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package susieR

Current CRAN status: OK: 14

Package varbvs

Current CRAN status: OK: 14