Hi Kevin, Do you run the checks of a new version of windex on this site:
win-builder.r-project.org/ ? It runs the checks both on Debian and Windowns with several choices of R versions, and you can access the detailed log files. Best, Emmanuel ----- Le 28 Fév 23, à 17:38, Arbuckle kevin.arbuc...@swansea.ac.uk a écrit : > Hi all, > > I realise this might not be strictly a phylogeny-related issue, but it might > be > as it relates to geiger and in any case the CRAN Core Team have left me at an > impasse trying to get an update to windex through to CRAN (just repeating the > error message then ignoring messages asking for clarification or advice on > fixing it). Hopefully it's relevant enough to this list to be OK. > > When trying to submit an update to the package, all Debian checks are coming > back fine, but there is one note in the Windows checks that is stopping the > process. The note reads:- > > "windex: no visible global function definition for 'rescale' > Undefined global functions or variables: > rescale" > > However, geiger (the package which contains rescale) is listed as a dependency > in the DESCRIPTION and is imported in the NAMESPACE, so rescale should > definitely be there. Combined with the lack of issue flagged by Debian checks > (which presumably would also check basic things like 'do the functions exist') > and the fact that this issue hasn't occurred in previous version submitted to > CRAN (nothing has changed with respect to the use of the rescale function), I > am at a loss. > > In case it helps, the contents of the DESCRIPTION and NAMESPACE files are as > follows:- > > DESCRIPTION file: > Package: windex > Type: Package > Title: Analysing Convergent Evolution using the Wheatsheaf Index > Version: 2.0.4 > Date: 2023-02-23 > Author: Kevin Arbuckle and Amanda Minter > Maintainer: Kevin Arbuckle > kevin.arbuc...@swansea.ac.uk<mailto:kevin.arbuc...@swansea.ac.uk> > Description: Analysing convergent evolution using the Wheatsheaf index, > described in Arbuckle et al. (2014) <doi: 10.1111/2041-210X.12195>, and some > other unrelated but perhaps useful functions. > License: GPL-2 > Depends: phytools, geiger (>= 2.0), ape (>= 4.0), phangorn, scatterplot3d, > utils, methods, R (>= 3.0.0) > Packaged: 2023-02-23 12:36:50 UTC; karbuckle > > NAMESPACE file: > exportPattern("^[^\\.]") > import(ape,utils,scatterplot3d) > importFrom("graphics", "abline", "hist", "legend", "points", "arrows", > "plot","text","polygon") > importFrom("stats", "dist", "quantile", "sd", "var", "AIC", "BIC", "logLik", > "na.omit", "pchisq", "shapiro.test","model.frame","density") > importFrom("methods", "is") > importFrom("phytools", "findMRCA", "nodeHeights") > importFrom("geiger", "rescale", "ratematrix", "sim.char") > importFrom("phangorn", "CI", "as.phyDat", "Children", "Descendants") > > > Any advice on how to resolve this would be welcome. Note that originally I had > imported geiger (and phangorn) as import rather than importFrom in the > NAMESPACE, but the current version was an attempt to resolve the issue and > didn't work in that the same note is coming back every time. > > Best wishes, > Kev > > Dr Kevin Arbuckle > Athro Cyswllt (Darllenydd) mewn Biowyddorau (Bioleg Esblygiadol) / Associate > Professor (Reader) in Biosciences (Evolutionary Biology) > Adran Biowyddorau / Department of Biosciences > Cyfadran Gwyddoniaeth a Pheirianneg / Faculty of Science and Engineering > Prifysgol Abertawe / Swansea University > Abertawe / Swansea > SA2 8PP > UK > > Rhowch wybod i ni os hoffech dderbyn eich gohebiaeth yn Gymraeg. Rydym yn > croesawu gohebiaeth yn Gymraeg neu yn Saesneg. Ni fydd gohebu yn Gymraeg yn > arwain at oedi. > > > [[alternative HTML version deleted]] > > _______________________________________________ > R-sig-phylo mailing list - R-sig-phylo@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-phylo > Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/ _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
