diff --git a/.github/workflows/check.yaml b/.github/workflows/check.yaml index 2744a96f..a868e7d0 100644 --- a/.github/workflows/check.yaml +++ b/.github/workflows/check.yaml @@ -59,6 +59,9 @@ jobs: - {os: ubuntu-16.04, r: 'devel', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - {os: ubuntu-16.04, r: 'release', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - {os: ubuntu-16.04, r: 'oldrel', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} + - {os: ubuntu-20.04, r: 'devel', allowfail: true, rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} + - {os: ubuntu-20.04, r: 'release', allowfail: true, rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} + - {os: ubuntu-20.04, r: 'oldrel', allowfail: true, rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} - {os: ubuntu-16.04, r: '4.0', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - {os: ubuntu-16.04, r: '3.6', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - {os: ubuntu-16.04, r: '3.5', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} @@ -66,8 +69,8 @@ jobs: - {os: ubuntu-16.04, r: '3.3', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - {os: ubuntu-16.04, r: '3.2', allowfail: true, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - {os: ubuntu-16.04, r: '3.1', allowfail: true, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - - {os: ubuntu-16.04, r: '3.0', allowfail: true, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} - + - {os: ubuntu-16.04, r: '3.0', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/xenial/latest"} + - {os: ubuntu-20.04, r: '3.0', allowfail: true, rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} env: R_REMOTES_NO_ERRORS_FROM_WARNINGS: true RSPM: ${{ matrix.config.rspm }} @@ -136,8 +139,10 @@ jobs: env: _R_CHECK_CRAN_INCOMING_: false _R_CHECK_FORCE_SUGGESTS_: false + _R_CHECK_LENGTH_1_CONDITION_: verbose + _R_CHECK_LENGTH_1_LOGIC2_: verbose run: | - R CMD check data-raw/AMR_*.tar.gz --no-manual --no-build-vignettes --no-vignettes + R CMD check data-raw/AMR_*.tar.gz --no-manual - name: Show testthat output if: always() diff --git a/DESCRIPTION b/DESCRIPTION index 1d4c4d07..04de6eda 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: AMR -Version: 1.4.0.9054 -Date: 2020-12-29 +Version: 1.4.0.9055 +Date: 2020-12-31 Title: Antimicrobial Resistance Analysis Authors@R: c( person(role = c("aut", "cre"), diff --git a/NEWS.md b/NEWS.md index b571fb49..f6f50ecd 100755 --- a/NEWS.md +++ b/NEWS.md @@ -1,5 +1,5 @@ -# AMR 1.4.0.9054 -## Last updated: 29 December 2020 +# AMR 1.4.0.9055 +## Last updated: 31 December 2020 ### New * Functions `get_episode()` and `is_new_episode()` to determine (patient) episodes which are not necessarily based on microorganisms. The `get_episode()` function returns the index number of the episode per group, while the `is_new_episode()` function returns values `TRUE`/`FALSE` to indicate whether an item in a vector is the start of a new episode. They also support `dplyr`s grouping (i.e. using `group_by()`): diff --git a/data-raw/AMR_1.4.0.9054.tar.gz b/data-raw/AMR_1.4.0.9055.tar.gz similarity index 87% rename from data-raw/AMR_1.4.0.9054.tar.gz rename to data-raw/AMR_1.4.0.9055.tar.gz index a1ad708a..85ea6f61 100644 Binary files a/data-raw/AMR_1.4.0.9054.tar.gz and b/data-raw/AMR_1.4.0.9055.tar.gz differ diff --git a/docs/404.html b/docs/404.html index 4e1fceb7..4e157f9e 100644 --- a/docs/404.html +++ b/docs/404.html @@ -81,7 +81,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055 diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html index 7b5f2a91..c4564d6d 100644 --- a/docs/LICENSE-text.html +++ b/docs/LICENSE-text.html @@ -81,7 +81,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055 diff --git a/docs/articles/index.html b/docs/articles/index.html index b6c831b3..4e159a44 100644 --- a/docs/articles/index.html +++ b/docs/articles/index.html @@ -81,7 +81,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055 diff --git a/docs/authors.html b/docs/authors.html index 1cca63bf..60584448 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -81,7 +81,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055 diff --git a/docs/index.html b/docs/index.html index e37bffaf..e67a3cc4 100644 --- a/docs/index.html +++ b/docs/index.html @@ -43,7 +43,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055 diff --git a/docs/news/index.html b/docs/news/index.html index 602dd939..172d21c9 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -81,7 +81,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055 @@ -236,13 +236,13 @@ Source: NEWS.md -
-

-AMR 1.4.0.9054 Unreleased +
+

+AMR 1.4.0.9055 Unreleased

-
+

-Last updated: 29 December 2020 +Last updated: 31 December 2020

diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index 357465e6..5f348f04 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -12,7 +12,7 @@ articles: datasets: datasets.html resistance_predict: resistance_predict.html welcome_to_AMR: welcome_to_AMR.html -last_built: 2020-12-29T21:04Z +last_built: 2020-12-31T12:43Z urls: reference: https://msberends.github.io/AMR//reference article: https://msberends.github.io/AMR//articles diff --git a/docs/reference/index.html b/docs/reference/index.html index 8f649865..3171c83f 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -81,7 +81,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055

diff --git a/docs/survey.html b/docs/survey.html index 774e34e8..e54ae32b 100644 --- a/docs/survey.html +++ b/docs/survey.html @@ -81,7 +81,7 @@ AMR (for R) - 1.4.0.9054 + 1.4.0.9055