NEWS.md

In arendsee/onekp: Retrieve Data from the 1000 Plants Initiative (1KP)

onekp 0.2.1

First rOpenSci version

• Transfer ownership to rOpenSci

• Update README

• Add .github files

• Add reviewers to DESCRIPTION

onekp 0.2.0

The goal of this version is to address all issues raised by the rOpenSci editor (Scott Chamberlain) and my two reviewers: Jessica Minnier and Zachary Foster.

Updates based on editor comments

• Added URL tag to DESCRIPTION

• Added BugReports tag to DESCRIPTION

• Wrapped all lines longer than 80 characters

• Removed unused imports readr and tidyr

• Split test functions into smaller test files

• Add skip_on_cran and skip_on_travis to retrieve_onekp test

• Save metadata as package data: data(onekp)

• Add minimum version to taxizedb

Updates based on Zachary Foster's review

• Add space between equal signs in argument lists

• Change package name from oneKP to onekp

• Let user set the download directory (defaulting to a tempdir).

• Re-export the magrittr %>% operator

• Update README

• Add CONDUCT.md

• Add R devel test to travis

• More package-level documentation

• Do not export print.OneKP function

• Add documentation details to retrieve_onekp

• Update intro vignette

• Do not run examples that access the internet (call retrieve_onekp)

Updates based on Jessica Minnier's review

There was some overlap between the two reviews, here I just list updates made that are unique to this review.

• Clarify filter_by_code and filter_by_species examples

• Cleanup the download documentation

• Add absolute parameter to download_* functions. If TRUE, this returns the absolute path to the retrieved data.

• Add handling for downloading nothing: if everything is filtered out, just return an empty character vector.

• Add test coverage for corner cases

• filtering by clade with a clade that is not in the NCBI common tree raises an error.

• filtering with valid input, but where no rows are selected, returns a OneKP object with 0 rows (no error).

• download an empty object returns an empty vector of filenames (no error)

onekp 0.1.0

• Initial release

arendsee/onekp documentation built on April 9, 2023, 7:55 a.m.