diff --git a/.github/workflows/rworkflows.yml b/.github/workflows/rworkflows.yml new file mode 100644 index 0000000..94d43eb --- /dev/null +++ b/.github/workflows/rworkflows.yml @@ -0,0 +1,57 @@ +name: rworkflows +'on': + push: + branches: + - master + - main + - devel + - RELEASE_** + pull_request: + branches: + - master + - main + - devel + - RELEASE_** +jobs: + rworkflows: + permissions: write-all + runs-on: ${{ matrix.config.os }} + name: ${{ matrix.config.os }} (${{ matrix.config.r }}) + container: ${{ matrix.config.cont }} + strategy: + fail-fast: ${{ false }} + matrix: + config: + - os: ubuntu-latest + bioc: devel + r: auto + cont: ghcr.io/bioconductor/bioconductor_docker:devel + rspm: ~ + - os: macOS-latest + bioc: release + r: auto + cont: ~ + rspm: ~ + - os: windows-latest + bioc: release + r: auto + cont: ~ + rspm: ~ + steps: + - uses: neurogenomics/rworkflows@master + with: + run_bioccheck: ${{ false }} + run_rcmdcheck: ${{ true }} + as_cran: ${{ true }} + run_vignettes: ${{ true }} + has_testthat: ${{ true }} + run_covr: ${{ true }} + run_pkgdown: ${{ true }} + has_runit: ${{ false }} + has_latex: ${{ false }} + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} + run_docker: ${{ false }} + DOCKER_TOKEN: ${{ secrets.DOCKER_TOKEN }} + runner_os: ${{ runner.os }} + cache_version: cache-v1 + docker_registry: ghcr.io diff --git a/DESCRIPTION b/DESCRIPTION index 3514372..47678f2 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -3,10 +3,10 @@ Package: autoLIMR Title: 'Incorporation and Evaluation of Data Uncertainty in Ecological Networks' Version: 3.0.1 Authors@R: person("Gemma", "Gerber", - email = "gemmagerber@live.com", + email = "gerber@iiasa.ac.at", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-8722-3113")) -Maintainer: Gemma Gerber +Maintainer: Gemma Gerber Description: An automated workflow to streamline incorporation and evaluation of data uncertainty in ecological models with linear inverse modelling and Markov Chain Monte Carlo (LIM-MCMC) methods @@ -38,5 +38,5 @@ VignetteBuilder: Config/testthat/edition: 3 Encoding: UTF-8 LazyData: true -RoxygenNote: 7.2.3 Language: en-US +RoxygenNote: 7.3.2 diff --git a/inst/CITATION b/inst/CITATION index e050296..db82df5 100644 --- a/inst/CITATION +++ b/inst/CITATION @@ -1,11 +1,14 @@ citHeader("To cite autoLIMR in publications use:") bibentry( - bibtype = "Unpublished", - note = "in review", + bibtype = "Article", title = "'autoLIMR': Automated Workflow for Incorporation and Evaluation of Data Uncertainty in Ecological Networks", - author = person("Gemma Gerber"), + author = as.person("Gemma Gerber [aut], Ben Brooker [aut], Ursula M. Scharler[aut]"), year = "2023", - url = "https://github.com/gemmagerber/autoLIMR", - textVersion = "Gerber, G. 2023. 'autoLIMR': Automated Workflow for Incorporation and Evaluation of Data Uncertainty in Ecological Networks. R package v 2.2.2. URL: https://github.com/gemmagerber/autoLIMR" + journal = "Ecological Informatics", + volume = "78", + pages = "102375", + issn = "1574-9541", + doi = "10.1016/j.ecoinf.2023.102375", + textVersion = "Gerber, G., Brooker, B., Scharler, U.M., 2023. Automated workflow for incorporation and evaluation of data uncertainty in ecological networks with autoLIMR. Ecol. Inform. 78, 102375. https://doi.org/10.1016/j.ecoinf.2023.102375" )