diff --git a/.DS_Store b/.DS_Store new file mode 100644 index 0000000..f192f7e Binary files /dev/null and b/.DS_Store differ diff --git a/.github/.DS_Store b/.github/.DS_Store new file mode 100644 index 0000000..c44676c Binary files /dev/null and b/.github/.DS_Store differ diff --git a/.github/workflows/rworkflows.yml b/.github/workflows/rworkflows.yml index 8f0801c..01a8e44 100644 --- a/.github/workflows/rworkflows.yml +++ b/.github/workflows/rworkflows.yml @@ -4,14 +4,17 @@ name: rworkflows 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 }} @@ -31,7 +34,7 @@ jobs: # r: latest # bioc: release steps: - - uses: neurogenomics/rworkflows@master + - uses: neurogenomics/rworkflows@dev with: run_bioccheck: ${{ true }} run_rcmdcheck: ${{ true }} @@ -42,7 +45,7 @@ jobs: run_pkgdown: ${{ true }} has_runit: ${{ false }} has_latex: ${{ false }} - GITHUB_TOKEN: ${{ secrets.PAT_GITHUB }} + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} run_docker: ${{ true }} docker_user: almurphy docker_org: neurogenomicslab diff --git a/vignettes/MungeSumstats.Rmd b/vignettes/MungeSumstats.Rmd index 3a2ad60..089e745 100644 --- a/vignettes/MungeSumstats.Rmd +++ b/vignettes/MungeSumstats.Rmd @@ -659,7 +659,7 @@ To do this, simply run the following: ```{r} eduAttainOkbayPth <- system.file("extdata", "eduAttainOkbay.txt", package = "MungeSumstats") -formatted_path <- tempfile(fileext = "eduAttainOkbay_standardised.tsv.gz") +formatted_path <- tempfile(fileext = "_eduAttainOkbay_standardised.tsv.gz") #### 1. Read in the data and standardise header names ####