CRAN_check_01

[paternogbc]

Status: 3 WARNINGs, 2 NOTEs

• checking R code for possible problems ... NOTE sensi_plot: no visible global function definition for ‘aes’ sensi_plot: no visible binding for global variable ‘n.percents’ sensi_plot: no visible binding for global variable ‘beta.class’ sensi_plot: no visible global function definition for ‘geom_point’ sensi_plot: no visible global function definition for ‘scale_x_continuous’ sensi_plot: no visible global function definition for ‘ylab’ sensi_plot: no visible global function definition for ‘xlab’ sensi_plot: no visible global function definition for ‘scale_colour_manual’ sensi_plot: no visible global function definition for ‘geom_hline’ sensi_plot: no visible global function definition for ‘theme’ sensi_plot: no visible global function definition for ‘element_text’ sensi_plot: no visible global function definition for ‘unit’ sensi_plot: no visible global function definition for ‘element_rect’ sensi_plot: no visible binding for global variable ‘power.beta’ sensi_plot: no visible binding for global variable ‘percent_sp_removed’ sensi_plot: no visible global function definition for ‘scale_y_continuous’ sensi_plot: no visible global function definition for ‘geom_line’ sensi_plot: no visible global function definition for ‘n’ sensi_plot: no visible global function definition for ‘ggplot’ sensi_plot: no visible binding for global variable ‘proportion’ sensi_plot: no visible global function definition for ‘geom_bar’ sensi_plot: no visible global function definition for ‘scale_fill_manual’ sensi_plot: no visible binding for global variable ‘DFbeta’ sensi_plot: no visible binding for global variable ‘mDFbetas’ sensi_plot: no visible global function definition for ‘geom_errorbar’ sensi_plot: no visible binding for global variable ‘..density..’ sensi_plot: no visible global function definition for ‘geom_histogram’ sensi_plot: no visible global function definition for ‘geom_density’ sensi_plot: no visible global function definition for ‘geom_vline’ sensi_plot: no visible binding for global variable ‘intercept’ sensi_plot: no visible binding for global variable ‘sDFbeta’ sensi_plot: no visible global function definition for ‘scale_colour_gradient’ sensi_plot: no visible global function definition for ‘element_blank’ sensi_plot: no visible global function definition for ‘ggtitle’ variPgls: no visible global function definition for ‘is.rooted’ variPgls: no visible binding for global variable ‘force.root’
• checking Rd line widths ... NOTE Rd file 'samp_phyloglm.Rd': \examples lines wider than 100 characters: shorebird.data$Egg.Mass.binary<-ifelse(shorebird.data$Egg.Mass>30,1,0) #Turn egg mass into a binary variable samp_phyloglm1<-samp_phyloglm(formula = Egg.Mass.binary~M.Mass,data = shorebird.data,phy=shorebird.tree,btol = 50)

Rd file 'variPgls.Rd': \examples lines wider than 100 characters: variPgls(resp=Ly,pred=Lx$xmean,vari.pred=Lx$xse,tree=multitree,ntree=2,nvari=2,method="normal",taxa.nam=sp)

These lines will be truncated in the PDF manual.

• checking Rd cross-references ... WARNING Missing link or links in documentation object 'samp_phyloglm.Rd': ‘pgls’

See section 'Cross-references' in the 'Writing R Extensions' manual.

• checking Rd \usage sections ... WARNING Undocumented arguments in documentation object 'influ_phyloglm' ‘formula’ ‘data’ ‘phy’ ‘btol’

Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual.

• checking PDF version of manual ... WARNING LaTeX errors when creating PDF version. This typically indicates Rd problems.

[paternogbc]

All Errors were fixed! Only warnings and NOTES needs to be adressed.

Also, aditional tests in Windows and Mac should be performed.

[paternogbc]

all notes and warnings are ok!

[gijsbertwerner]

Great, wonderful!!

Talk to you both tomorrow!

---

Gijsbert Werner MSc Department of Ecological Science Faculty of Earth and Life Sciences Vrije Universiteit Amsterdam De Boelelaan 1085 1081 HV Amsterdam The Netherlands +31-(0)20-5987085

----- Original Message ----- From: "Gustavo Paterno" notifications@github.com To: "paternogbc/sensiPhy" sensiPhy@noreply.github.com Sent: Monday, August 3, 2015 5:57:10 PM Subject: Re: [sensiPhy] CRAN_check_01 (#21)

all notes and warnings are ok!

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