CRAN Package Check Results for Maintainer ‘Bryan A. Hanson <hanson at depauw.edu>’

Last updated on 2025-04-10 08:59:00 CEST.

Package	ERROR	NOTE	OK
ChemoSpec		4	10
ChemoSpec2D		3	11
ChemoSpecUtils	1		13
exCon			15
FuncMap			14
HiveR			14
LearnPCA			14
LindenmayeR			14
readJDX			15
roxut			15
SpecHelpers			14

Package ChemoSpec

Current CRAN status: NOTE: 4, OK: 10

Version: 6.1.10
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: aovPCAloadings.Rd: GraphicsOptions plot2Loadings.Rd: GraphicsOptions plotLoadings.Rd: GraphicsOptions plotSpectra.Rd: GraphicsOptions reviewAllSpectra.Rd: GraphicsOptions sPlotSpectra.Rd: GraphicsOptions surveySpectra.Rd: GraphicsOptions Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Package ChemoSpec2D

Current CRAN status: NOTE: 3, OK: 11

Version: 0.5.0
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: hats_alignSpectra2D.Rd: rowDist Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64

Package ChemoSpecUtils

Current CRAN status: ERROR: 1, OK: 13

Version: 1.0.4
Check: dependencies in R code
Result: WARN Missing or unexported object: ‘ChemoSpec2D::.unstack’ Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 1.0.4
Check: examples
Result: ERROR Running examples in ‘ChemoSpecUtils-Ex.R’ failed The error most likely occurred in: > ### Name: sampleDist > ### Title: Compute the Distances Between Samples in a Spectra or Spectra2D > ### Object > ### Aliases: sampleDist > ### Keywords: hplot > > ### ** Examples > > # You need to install package "lattice" for this example > if (requireNamespace("lattice", quietly = TRUE)) { + if (checkForPackageWithVersion("ChemoSpec", 6.0)) { + library("ChemoSpec") + library("lattice") + data(SrE.IR) + + SrE.dmatrix <- sampleDist(SrE.IR, # cosine distance bounded on [0...2] + method = "cosine", + main = "SrE.IR Cosine Distance Between Samples" + ) + SrE.dmatrix <- sampleDist(SrE.IR, # abspearson distance bounded on [0...1] + method = "abspearson", + main = "SrE.IR Absolute Pearson Distance Between Samples" + ) + SrE.dmatrix <- sampleDist(SrE.IR, # euclidean distance unbounded + method = "euclidean", + main = "SrE.IR Euclidean Distance Between Samples" + ) + } + + if (checkForPackageWithVersion("ChemoSpec2D", 0.5)) { + library("ChemoSpec2D") + library("lattice") + data(MUD1) + + MUD1.dmatrix <- sampleDist(MUD1, + method = "cosine", + main = "MUD1 Cosine Distance Between Samples" + ) + } + } As of version 6, ChemoSpec offers new graphics output options For details, please see ?GraphicsOptions The ChemoSpec graphics option is set to 'ggplot2' To change it, do options(ChemoSpecGraphics = 'option'), where 'option' is one of 'base' or 'ggplot2' or'plotly'. As of version 6 of ChemoSpec, ChemoSpec2D offers new graphics output options Functions plotScores and plotScree will work with the new options For details, please see ?GraphicsOptions The ChemoSpec graphics option is set to 'ggplot2' To change it, do options(ChemoSpecGraphics = 'option'), where 'option' is one of 'base' or 'ggplot2' or'plotly'. Error: '.unstack' is not an exported object from 'namespace:ChemoSpec2D' Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc

Package exCon

Current CRAN status: OK: 15

Package FuncMap

Current CRAN status: OK: 14

Package HiveR

Current CRAN status: OK: 14

Package LearnPCA

Current CRAN status: OK: 14

Package LindenmayeR

Current CRAN status: OK: 14

Package readJDX

Current CRAN status: OK: 15

Package roxut

Current CRAN status: OK: 15

Package SpecHelpers

Current CRAN status: OK: 14