From 54ae2eae126ab8139a14bab35128771ff9c113b1 Mon Sep 17 00:00:00 2001 From: James Black Date: Fri, 29 Dec 2023 09:57:48 +0100 Subject: [PATCH 1/7] fixed cicd --- .github/workflows/phuse-cicd.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/phuse-cicd.yml b/.github/workflows/phuse-cicd.yml index 4a57a25..0433442 100644 --- a/.github/workflows/phuse-cicd.yml +++ b/.github/workflows/phuse-cicd.yml @@ -16,6 +16,6 @@ on: workflow_dispatch: jobs: - links: - name: Links + check: + name: Check uses: phuse-org/devops-toolkit/.github/workflows/R-CMD-check.yml@main From b0e04c9c2df80fd81b3ca75b3acab7ea68c0e960 Mon Sep 17 00:00:00 2001 From: James Black Date: Fri, 29 Dec 2023 10:00:07 +0100 Subject: [PATCH 2/7] Create docs.yml --- .github/workflows/docs.yml | 13 +++++++++++++ 1 file changed, 13 insertions(+) create mode 100644 .github/workflows/docs.yml diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml new file mode 100644 index 0000000..31649ad --- /dev/null +++ b/.github/workflows/docs.yml @@ -0,0 +1,13 @@ +name: Docs 📚 + +on: + push: + branches: + - main + +jobs: + docs: + name: Pkgdown Docs 📚 + uses: phuse-org/devops-toolkit/.github/workflows/pkgdown.yml@main + secrets: + REPO_GITHUB_TOKEN: ${{ secrets.REPO_GITHUB_TOKEN }} From 445b932d6b4261bf20c9f47c1502e78a7a4760e7 Mon Sep 17 00:00:00 2001 From: James Black Date: Fri, 29 Dec 2023 10:00:51 +0100 Subject: [PATCH 3/7] add code coverage --- .github/workflows/phuse-cicd.yml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/.github/workflows/phuse-cicd.yml b/.github/workflows/phuse-cicd.yml index 0433442..436e741 100644 --- a/.github/workflows/phuse-cicd.yml +++ b/.github/workflows/phuse-cicd.yml @@ -19,3 +19,6 @@ jobs: check: name: Check uses: phuse-org/devops-toolkit/.github/workflows/R-CMD-check.yml@main + coverage: + name: Code Coverage + uses: phuse-org/devops-toolkit/.github/workflows/test-coverage.yml@main From 99caf2a969f10da124a3d58ecfdbd060ae2d7ad9 Mon Sep 17 00:00:00 2001 From: James Black Date: Fri, 29 Dec 2023 10:11:30 +0100 Subject: [PATCH 4/7] Add links cicd --- .github/workflows/phuse-cicd.yml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/.github/workflows/phuse-cicd.yml b/.github/workflows/phuse-cicd.yml index 436e741..fe77964 100644 --- a/.github/workflows/phuse-cicd.yml +++ b/.github/workflows/phuse-cicd.yml @@ -22,3 +22,6 @@ jobs: coverage: name: Code Coverage uses: phuse-org/devops-toolkit/.github/workflows/test-coverage.yml@main + links: + name: Links + uses: phuse-org/devops-toolkit/.github/workflows/urlchecker.yml@main From 4e2befe9f7571ab5a0ea53c815d460040e0f0fc1 Mon Sep 17 00:00:00 2001 From: James Black Date: Fri, 29 Dec 2023 10:24:59 +0100 Subject: [PATCH 5/7] Rothman's site is down --- README.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 4d4d6c7..6003e4e 100644 --- a/README.md +++ b/README.md @@ -29,7 +29,7 @@ This package is functions to support the text book > Modern Epidemiology, Second Edition, by Kenneth J. Rothman and Sander Greenland. -Textbook website: [krothman.org](http://krothman.org/) +Textbook website was hosted at krothman.org, but it appears that site is now down. ## Functions @@ -54,4 +54,4 @@ Textbook website: [krothman.org](http://krothman.org/) ## Complete excel tool -This package currently contains functions for calculating rate ratios and differences, risk ratios and differences, Mantel Haenzsel risk ratio. The complete set is available via the excel tool [episheet](http://krothman.org/Episheet.xls). +This package currently contains functions for calculating rate ratios and differences, risk ratios and differences, Mantel Haenzsel risk ratio. The complete set was available via the excel tool episheet, but Rothman's website hosting it appears now to be down. From cc0ce25bb3e770849a3824b25292c7d0b2624c42 Mon Sep 17 00:00:00 2001 From: James Black Date: Fri, 29 Dec 2023 10:30:57 +0100 Subject: [PATCH 6/7] Update README.md --- README.md | 1 - 1 file changed, 1 deletion(-) diff --git a/README.md b/README.md index 6003e4e..82323f8 100644 --- a/README.md +++ b/README.md @@ -45,7 +45,6 @@ Textbook website was hosted at krothman.org, but it appears that site is now dow * Quickcalc * P-Value Functions + `pvalueplot` Plot a p-value function - + [Example of use](https://cran.r-project.org/web/packages/episheet/vignettes/pvalueplot.html) * Standardization * Seasonal Analysis * Meta-Analysis (contributed by T. Andersson & A. Ahlbom) From db217239c08fe8aa6768d8b5049df023378f22ab Mon Sep 17 00:00:00 2001 From: James Black Date: Fri, 29 Dec 2023 10:31:21 +0100 Subject: [PATCH 7/7] Update DESCRIPTION --- DESCRIPTION | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/DESCRIPTION b/DESCRIPTION index 6666c47..279b058 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -11,7 +11,7 @@ Authors@R: c( Maintainer: James Black Description: A collection of R functions supporting the text book Modern Epidemiology, Second Edition, by Kenneth J.Rothman and Sander Greenland. - ISBN 13: 978-0781755641 See for more information. + ISBN 13: 978-0781755641 License: GPL (>= 2) URL: https://github.com/epijim/episheet BugReports: https://github.com/epijim/episheet/issues