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Update default import to Zenodo release v1.2.2 #62

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merged 3 commits into from
Oct 27, 2024
Merged

Update default import to Zenodo release v1.2.2 #62

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1f018a7
Lower nrows requirement in test
jwokaty Oct 27, 2024
99e1bf7
Update default import to release v1.2.2
jwokaty Oct 27, 2024
fe2980f
Bump version, update NEWS
jwokaty Oct 27, 2024
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4 changes: 2 additions & 2 deletions DESCRIPTION
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Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
Package: bugsigdbr
Version: 1.11.3
Version: 1.11.4
Title: R-side access to published microbial signatures from BugSigDB
Authors@R: c(
person(given = "Ludwig",
Expand Down Expand Up @@ -38,4 +38,4 @@ License: GPL-3
VignetteBuilder: knitr
biocViews: DataImport, GeneSetEnrichment, Metagenomics, Microbiome
Encoding: UTF-8
RoxygenNote: 7.3.1
RoxygenNote: 7.3.2
4 changes: 4 additions & 0 deletions NEWS.md
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@@ -1,5 +1,9 @@
# bugsigdbr

## Changes in version 1.11.4

* Update stable release version for data on Zenodo

## Changes in version 1.8.2

* Uniform first-letter capitalization for Body site and Condition terms
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6 changes: 5 additions & 1 deletion R/bugsigdb.R
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Expand Up @@ -42,6 +42,10 @@
#' Latest version (incl. not reviewed content):
#' \url{https://github.com/waldronlab/BugSigDBExports}
#'
#' Release v1.2.2: \url{https://zenodo.org/records/13997429}
#'
#' Release v1.2.1: \url{https://zenodo.org/records/10627578}
#'
#' Release v1.2.0: \url{https://zenodo.org/records/10407666}
#'
#' Release v1.1.0: \url{https://zenodo.org/records/6468009}
Expand All @@ -59,7 +63,7 @@
#' df <- importBugSigDB()
#'
#' @export
importBugSigDB <- function(version = "10.5281/zenodo.10627578", cache = TRUE)
importBugSigDB <- function(version = "10.5281/zenodo.13997429", cache = TRUE)
{
version <- tolower(version)

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6 changes: 5 additions & 1 deletion man/importBugSigDB.Rd
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2 changes: 1 addition & 1 deletion tests/testthat/test-importBugSigDB.R
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Expand Up @@ -26,7 +26,7 @@ test_that("importBugSigDB from Zenodo", {
test_that("importBugSigDB from the edge (devel)", {
bsdb <- bugsigdbr::importBugSigDB(version = "devel", cache = FALSE)
url <- "https://tinyurl.com/3nvzm3fx"
checkImport(bsdb, url, nrows = 5500)
checkImport(bsdb, url, nrows = 5450)
})

test_that("importBugSigDB from github hash", {
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