CRAN Package Check Results for Maintainer ‘Ilias Moutsopoulos <im383 at cam.ac.uk>’

Last updated on 2024-05-02 08:02:24 CEST.

Package	ERROR	NOTE	OK
bulkAnalyseR	2	6	5
noisyr			13

Package bulkAnalyseR

Current CRAN status: ERROR: 2, NOTE: 6, OK: 5

Additional issues

noSuggests

Version: 1.1.0
Check: package dependencies
Result: NOTE Imports includes 32 non-default packages. Importing from so many packages makes the package vulnerable to any of them becoming unavailable. Move as many as possible to Suggests and use conditionally. Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.1.0
Check: installed package size
Result: NOTE installed size is 6.2Mb sub-directories of 1Mb or more: doc 2.3Mb extdata 3.4Mb Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 1.1.0
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘org.Mm.eg.db’ Flavors: r-release-macos-arm64, r-oldrel-macos-x86_64

Version: 1.1.0
Check: examples
Result: ERROR Running examples in ‘bulkAnalyseR-Ex.R’ failed The error most likely occurred in: > ### Name: DEanalysis > ### Title: Perform differential expression (DE) analysis on an expression > ### matrix > ### Aliases: DEanalysis DEanalysis_edger DEanalysis_deseq2 > > ### ** Examples > > expression.matrix.preproc <- as.matrix(read.csv( + system.file("extdata", "expression_matrix_preprocessed.csv", package = "bulkAnalyseR"), + row.names = 1 + ))[1:100, 1:4] > > anno <- AnnotationDbi::select( + getExportedValue('org.Mm.eg.db', 'org.Mm.eg.db'), + keys = rownames(expression.matrix.preproc), + keytype = 'ENSEMBL', + columns = 'SYMBOL' + ) %>% + dplyr::distinct(ENSEMBL, .keep_all = TRUE) %>% + dplyr::mutate(NAME = ifelse(is.na(SYMBOL), ENSEMBL, SYMBOL)) Error in (function (cond) : error in evaluating the argument 'x' in selecting a method for function 'select': there is no package called ‘org.Mm.eg.db’ Calls: %>% ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted Flavor: r-release-macos-arm64

Version: 1.1.0
Check: package dependencies
Result: ERROR Package required but not available: ‘GENIE3’ Package suggested but not available for checking: ‘org.Mm.eg.db’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavor: r-oldrel-macos-arm64

Package noisyr

Current CRAN status: OK: 13