CRAN Package Check Results for Maintainer ‘Paul Boutros <PBoutros at mednet.ucla.edu>’

Last updated on 2025-12-25 19:50:56 CET.

Package	ERROR	NOTE	OK
ApplyPolygenicScore			13
bedr			13
BoutrosLab.plotting.general			13
CancerEvolutionVisualization			13
ISOpureR		13
iSubGen		2	11
OmicsQC			13
OutSeekR	1		12
SeqKat		3	10
VennDiagram		2	11

Package ApplyPolygenicScore

Current CRAN status: OK: 13

Package bedr

Current CRAN status: OK: 13

Package BoutrosLab.plotting.general

Current CRAN status: OK: 13

Package CancerEvolutionVisualization

Current CRAN status: OK: 13

Package ISOpureR

Current CRAN status: NOTE: 13

Version: 1.1.3
Check: Rd files
Result: NOTE checkRd: (-1) ISOpureS1.model_optimize.kappa.kappa_deriv_loglikelihood.Rd:9: Escaped LaTeX specials: \$ checkRd: (-1) ISOpureS1.model_optimize.kappa.kappa_deriv_loglikelihood.Rd:14: Escaped LaTeX specials: \$ checkRd: (-1) ISOpureS1.model_optimize.kappa.kappa_loglikelihood.Rd:11: Escaped LaTeX specials: \$ checkRd: (-1) ISOpureS2.model_optimize.kappa.kappa_deriv_loglikelihood.Rd:11: Escaped LaTeX specials: \$ checkRd: (-1) ISOpureS2.model_optimize.kappa.kappa_loglikelihood.Rd:11: Escaped LaTeX specials: \$ 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, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package iSubGen

Current CRAN status: NOTE: 2, OK: 11

Version: 1.0.1
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Paul C Boutros <pboutros@mednet.ucla.edu>’ No Authors@R field in DESCRIPTION. Please add one, modifying Authors@R: c(person(given = "Natalie", family = "Fox", role = "aut"), person(given = c("Paul", "C"), family = "Boutros", role = "cre", email = "pboutros@mednet.ucla.edu")) as necessary. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Package OmicsQC

Current CRAN status: OK: 13

Package OutSeekR

Current CRAN status: ERROR: 1, OK: 12

Version: 1.0.0
Check: examples
Result: ERROR Running examples in ‘OutSeekR-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: calculate.p.values > ### Title: Calculate p-values > ### Aliases: calculate.p.values > > ### ** Examples > > data(example.data.for.calculate.p.values); > i <- 1; # row index of transcript to test > calculate.p.values( + x = example.data.for.calculate.p.values$data[i,], + x.distribution = example.data.for.calculate.p.values$x.distribution[i], + x.zrange.mean = example.data.for.calculate.p.values$x.zrange.mean[i], + x.zrange.median = example.data.for.calculate.p.values$x.zrange.median[i], + x.zrange.trimmean = example.data.for.calculate.p.values$x.zrange.trimmean[i], + x.fraction.kmeans = example.data.for.calculate.p.values$x.fraction.kmeans[i], + x.cosine.similarity = example.data.for.calculate.p.values$x.cosine.similarity[i], + null.zrange.mean = example.data.for.calculate.p.values$null.zrange.mean, + null.zrange.median = example.data.for.calculate.p.values$null.zrange.median, + null.zrange.trimmean = example.data.for.calculate.p.values$null.zrange.trimmean, + null.fraction.kmeans = example.data.for.calculate.p.values$null.fraction.kmeans, + null.cosine.similarity = example.data.for.calculate.p.values$null.cosine.similarity, + kmeans.nstart = example.data.for.calculate.p.values$kmeans.nstart + ); Error in xtfrm.data.frame(list(S01 = 4.66463722885575, S02 = 1.47026470253429, : cannot xtfrm data frames Calls: calculate.p.values -> xtfrm -> xtfrm.data.frame Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Package SeqKat

Current CRAN status: NOTE: 3, OK: 10

Version: 0.0.8
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Paul C. Boutros <pboutros@mednet.ucla.edu>’ No Authors@R field in DESCRIPTION. Please add one, modifying Authors@R: c(person(given = "Fouad", family = "Yousif", role = "aut"), person(given = "Xihui", family = "Lin", role = "aut"), person(given = "Fan", family = "Fan", role = "aut"), person(given = "Christopher", family = "Lalansingh", role = "aut"), person(given = "John", family = "Macdonald", role = "aut"), person(given = c("Paul", "C."), family = "Boutros", role = "cre", email = "pboutros@mednet.ucla.edu")) as necessary. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 0.0.8
Check: package dependencies
Result: NOTE Package suggested but not available for checking: 'doMC' Flavor: r-oldrel-windows-x86_64

Package VennDiagram

Current CRAN status: NOTE: 2, OK: 11

Version: 1.7.3
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Paul Boutros <pboutros@mednet.ucla.edu>’ No Authors@R field in DESCRIPTION. Please add one, modifying Authors@R: c(person(given = "Hanbo", family = "Chen", role = "aut"), person(given = "Paul", family = "Boutros", role = "cre", email = "pboutros@mednet.ucla.edu")) as necessary. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc