update cran setup

.github/workflows/cran_setup.yml

@@ -50,53 +50,21 @@ jobs:
 
       - name: Install package
         run: R CMD INSTALL .
-
-      - name: Generate html files
-        run: |
-          Rscript -e "rmarkdown::render('vignettes/rSPDE.Rmd')"
-          Rscript -e "rmarkdown::render('vignettes/rspde_cov.Rmd')"
-          Rscript -e "rmarkdown::render('vignettes/rspde_inla.Rmd')"
-          Rscript -e "rmarkdown::render('vignettes/rspde_base.Rmd')"
-          Rscript -e "rmarkdown::render('vignettes/rspde_inlabru.Rmd')"
-          Rscript -e "rmarkdown::render('vignettes/build_source.rmd')"
-          git add vignettes
-          git add vignettes/rSPDE.html
-          git add vignettes/rspde_base.html
-          git add vignettes/rspde_cov.html
-          git add vignettes/rspde_inla.html
-          git add vignettes/rspde_inlabru.html
-          git add vignettes/build_source.html
-      
-      - name: Finish the setup
+
+      - name: Delete vignettes and pkgdown, then copy cran vign
         run: |
           git config --local user.email "[email protected]"
-          git config --local user.name "GitHub Actions"
-          sed -i .bak 's/knitr/R.rsp/' DESCRIPTION
-          touch vignettes/rSPDE.html.asis
-          echo "%\VignetteIndexEntry{An introduction to the rSPDE package}" >> vignettes/rSPDE.html.asis
-          echo "%\VignetteEngine{R.rsp::asis}" >> vignettes/rSPDE.html.asis
-          echo "%\VignetteEncoding{UTF-8}" >> vignettes/rSPDE.html.asis
-          touch vignettes/build_source.html.asis
-          echo "%\VignetteIndexEntry{Building the rSPDE package from source on Mac and Linux}" >> vignettes/build_source.html.asis
-          echo "%\VignetteEngine{R.rsp::asis}" >> vignettes/build_source.html.asis
-          echo "%\VignetteEncoding{UTF-8}" >> vignettes/build_source.html.asis
-          touch vignettes/rspde_inla.html.asis
-          echo "%\VignetteIndexEntry{R-INLA implementation of the rational SPDE approach}" >> vignettes/rspde_inla.html.asis
-          echo "%\VignetteEngine{R.rsp::asis}" >> vignettes/rspde_inla.html.asis
-          echo "%\VignetteEncoding{UTF-8}" >> vignettes/rspde_inla.html.asis
-          touch vignettes/rspde_inlabru.html.asis
-          echo "%\VignetteIndexEntry{inlabru implementation of the rational SPDE approach}" >> vignettes/rspde_inlabru.html.asis
-          echo "%\VignetteEngine{R.rsp::asis}" >> vignettes/rspde_inlabru.html.asis
-          echo "%\VignetteEncoding{UTF-8}" >> vignettes/rspde_inlabru.html.asis
-          touch vignettes/rspde_cov.html.asis
-          echo "%\VignetteIndexEntry{Rational approximation with the rSPDE package}" >> vignettes/rspde_cov.html.asis
-          echo "%\VignetteEngine{R.rsp::asis}" >> vignettes/rspde_cov.html.asis
-          echo "%\VignetteEncoding{UTF-8}" >> vignettes/rspde_cov.html.asis
-          touch vignettes/rspde_base.html.asis
-          echo "%\VignetteIndexEntry{Operator-based rational approximation}" >> vignettes/rspde_base.html.asis
-          echo "%\VignetteEngine{R.rsp::asis}" >> vignettes/rspde_base.html.asis
-          echo "%\VignetteEncoding{UTF-8}" >> vignettes/rspde_base.html.asis
-          echo "^vignettes/.*\.Rmd$" >> .Rbuildignore
+          git config --local user.name "GitHub Actions"          
+          git rm -rf vignettes
+          git rm -rf pkgdown/
+          git rm -rf examples
+          rm -rf vignettes
+          mkdir vignettes
+          cd cran_vignettes
+          cp * ../vignettes
+          cd ..
+          git rm -rf cran_vignettes
+          git add vignettes
           sed -i .bak 's/#devel\.tag/#stable\.tag/' R/inla_rspde.R
           sed -i .bak '/donttest{ #devel version$/a\
           #'\'' tryCatch({
@@ -115,16 +83,14 @@ jobs:
           #'\'' }, error = function(e){print("Could not run the example")})
           ' R/inlabru_rspde.R
           sed -i .bak 's/#stable\.tag/#stable\.tryCatch/' R/inlabru_rspde.R
-          Rscript -e "devtools::document()"
+          Rscript -e "devtools::document()"            
           git rm -rf pkgdown/
           git add man
           git add .Rbuildignore
-          git add vignettes
           git add DESCRIPTION
           git add R/inla_rspde.R
           git add R/inlabru_rspde.R
           git rm tests/testthat/test.inla_rspde.R
-          git rm vignettes/*.Rmd
           git commit -m "Doing the setup"
           git push
-        shell: bash
+        shell: bash