Cran compatibility changes

* Add CRAN specific changes * Package documentation * Fix based on cran check * Add cran comments
OHDSI · Sep 9, 2023 · baa8ceb · baa8ceb
1 parent cd46800
commit baa8ceb
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Showing 20 changed files with 71 additions and 30 deletions.
diff --git a/.Rbuildignore b/.Rbuildignore
@@ -11,4 +11,5 @@ readme.md
 ^compare_versions
 ^deploy.sh
 ^docs
-^man-roxygen
+^man-roxygen
+^cran-comments\.md$
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: CohortExplorer
 Type: Package
-Title: An R package with a Shiny viewer to explore profiles of patients in a cohort
-Version: 0.0.14
-Date: 2022-05-27
+Title: An R Package with a Shiny Viewer to Explore Profiles of Patients in a Cohort
+Version: 0.0.15
+Date: 2023-09-06
 Authors@R: c(
     person("Gowtham", "Rao", email = "[email protected]", role = c("aut", "cre")),
     person("Observational Health Data Science and Informatics", role = c("cph"))
@@ -22,10 +22,10 @@ Imports:
   stats
 Suggests:
   rmarkdown,
+  SqlRender,
   testthat,
   knitr,
-  withr,
-  SqlRender
+  withr
 License: Apache License
 RoxygenNote: 7.2.3
 VignetteBuilder: knitr

diff --git a/NEWS.md b/NEWS.md
@@ -1,4 +1,9 @@
-CohortExplorer 0.0.13
+CohortExplorer 0.0.15
+======================
+Destination CRAN
+
+
+CohortExplorer 0.0.14
 ======================
 
 Reduces the need to move data into R

diff --git a/cran-comments.md b/cran-comments.md
@@ -0,0 +1,17 @@
+This is new release.
+
+---
+
+## Test environments
+* Ubuntu 20.04, R 4.3.1
+* Microsoft Windows Server 2016, R 4.2.3
+* MacOS, 4.3.1
+* Windows 10, R 4.3.1
+
+## R CMD check results
+
+There were no ERRORs or WARNINGs. 
+
+## Downstream dependencies
+
+All dependencies are in CRAN.
diff --git a/docs/404.html b/docs/404.html
diff --git a/docs/articles/HowToUseCohortExplorer.html b/docs/articles/HowToUseCohortExplorer.html
diff --git a/docs/articles/index.html b/docs/articles/index.html
diff --git a/docs/authors.html b/docs/authors.html
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/news/index.html b/docs/news/index.html
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -1,7 +1,7 @@
-pandoc: 2.19.2
+pandoc: 3.1.1
 pkgdown: 2.0.7
 pkgdown_sha: ~
 articles:
   HowToUseCohortExplorer: HowToUseCohortExplorer.html
-last_built: 2023-05-27T11:27Z
+last_built: 2023-09-06T10:21Z
 
diff --git a/docs/pull_request_template.html b/docs/pull_request_template.html
diff --git a/docs/reference/CohortExplorer-package.html b/docs/reference/CohortExplorer-package.html
diff --git a/docs/reference/createCohortExplorerApp.html b/docs/reference/createCohortExplorerApp.html
diff --git a/docs/reference/exportCohortExplorerAppFiles.html b/docs/reference/exportCohortExplorerAppFiles.html
diff --git a/docs/reference/index.html b/docs/reference/index.html
diff --git a/extras/CohortExplorer.pdf b/extras/CohortExplorer.pdf
diff --git a/extras/PackageMaintenance.R b/extras/PackageMaintenance.R
@@ -19,9 +19,14 @@ styler::style_pkg()
 OhdsiRTools::checkUsagePackage("CohortExplorer")
 OhdsiRTools::updateCopyrightYearFolder()
 
+# Devtools check -----------------------------------------------------------
+devtools::spell_check()
+devtools::check()
+
 # Create manual -----------------------------------------------------------
 unlink("extras/CohortExplorer.pdf")
 shell("R CMD Rd2pdf ./ --output=extras/CohortExplorer.pdf")
+dir.create(path = file.path("inst", "doc"), showWarnings = FALSE, recursive = TRUE)
 
 # Create Vignettes---------------------------------------------------------
 rmarkdown::render("vignettes/HowToUseCohortExplorer.Rmd",
@@ -32,5 +37,14 @@ rmarkdown::render("vignettes/HowToUseCohortExplorer.Rmd",
 
 
 # Build site---------------------------------------------------------
+devtools::document()
 pkgdown::build_site()
 OhdsiRTools::fixHadesLogo()
+
+
+
+# Release package to CRAN ------------------------------------------------------
+devtools::check_win_devel()
+devtools::check_rhub()
+devtools::release()
+devtools::check(cran=TRUE)
diff --git a/inst/doc/HowToUseCohortExplorer.pdf b/inst/doc/HowToUseCohortExplorer.pdf
diff --git a/man/CohortExplorer-package.Rd b/man/CohortExplorer-package.Rd