cran-comments.md

In MoBiodiv/mobr: Measurement of Biodiversity

mobr 3.0.0

This is a revised package submission. The change to version 3.0.0 from 2.0.2 reflects that this is a major changes that are not backward compatible with the 2.0.2 version of the package.

Test environments

• windows X (local), R 4.3.3
• ubuntu 22.04.3 (personal server), R 4.3.1
• win-builder (devel & release)

R CMD check results

Windows X

• No warnings or errors

ubuntu (personal server)

• No warnings or errors

on win-builder (devel & release)

* No warnings or errors

mobr 2.0.2

This is an updated package submission.

I have fixed the package so that it does not use sort() on a data.frame() as detected as an error here: https://cran.r-project.org/web/checks/check_results_mobr.html

mobr 2.0.0

This is a new package submission.

Test environments

• windows X (local), R 4.0.2
• ubuntu 14.04.6 (personal server), R 3.6.2
• ubuntu 16.04.6 (on travis-ci), R 4.0.0
• win-builder (devel & release)

R CMD check results

Windows X

• No warnings or errors

ubuntu (personal server)

• No warnings or errors

ubuntu server (travis-ci)

• No warnings or errors

on win-builder (devel & release)

• No warnings or errors

CRAN package review response

Thanks,

• Please omit the redundant "in R" from the title.

done

• If there are references describing the methods in your package, please add these in the description field of your DESCRIPTION file in the form authors (year) authors (year) authors (year, ISBN:...) or if those are not available: with no space after 'doi:', 'arXiv:', 'https:' and angle brackets for auto-linking. (If you want to add a title as well please put it in quotes: "Title")

done

• Please write TRUE and FALSE instead of T and F. (Please don't use 'T' or 'F' as vector names.)

done

• You have examples for unexported functions. groups_panel2() in: ind_rare_perm.Rd plotStacked() in: sphere_dist.Rd Please either omit these examples or export the functions.

The examples were removed.

• \dontrun{} should only be used if the example really cannot be executed (e.g. because of missing additional software, missing API keys, ...) by the user. That's why wrapping examples in \dontrun{} adds the comment ("# Not run:") as a warning for the user. Does not seem necessary. Please unwrap the examples if they are executable in < 5 sec, or replace \dontrun{} with \donttest{}.

\dontrun{} has been changed to \donttest{} in all cases in which either the example takes more than 5 seconds to run or the example requires an external R package that is not a direct package dependancy.

• You write information messages to the console that cannot be easily suppressed. It is more R like to generate objects that can be used to extract the information a user is interested in, and then print() that object. Instead of print()/cat() rather use message()/warning() or if(verbose)cat(..) (or maybe stop()) if you really have to write text to the console. (except for print, summary, interactive functions)

I have replaced print() with message() where necessary.

• Please make sure that you do not change the user's options, par or working directory. If you really have to do so within functions, please ensure with an immediate call of on.exit() that the settings are reset when the function is exited. e.g.: ... oldpar <- par(no.readonly = TRUE) # code line i on.exit(par(oldpar)) # code line i + 1 ... par(mfrow=c(2,2)) # somewhere after ... e.g.: If you're not familiar with the function, please check ?on.exit. This function makes it possible to restore options before exiting a function even if the function breaks. Therefore it needs to be called immediately after the option change within a function.

done

• Please always make sure to reset to user's options(), working directory or par() after you changed it in examples and vignettes and demos. e.g.: oldpar <- par(mfrow = c(1,2)) ... par(oldpar)

done

Thank you for the constructive and helpful package review.

MoBiodiv/mobr documentation built on Oct. 26, 2024, 10:51 a.m.