bnaras · bnaras · Dec 3, 2025 · Dec 3, 2025
diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml
@@ -4,9 +4,8 @@ on:
   push:
     branches: [main, master]
   pull_request:
-    branches: [main, master]
 
-name: R-CMD-check
+name: R-CMD-check.yaml
 
 permissions: read-all
 

diff --git a/.github/workflows/pkgdown.yaml b/.github/workflows/pkgdown.yaml
@@ -0,0 +1,49 @@
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
+on:
+  push:
+    branches: [main, master]
+  pull_request:
+  release:
+    types: [published]
+  workflow_dispatch:
+
+name: pkgdown.yaml
+
+permissions: read-all
+
+jobs:
+  pkgdown:
+    runs-on: ubuntu-latest
+    # Only restrict concurrency for non-PR jobs
+    concurrency:
+      group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+    permissions:
+      contents: write
+    steps:
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::pkgdown, local::.
+          needs: website
+
+      - name: Build site
+        run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
+        shell: Rscript {0}
+
+      - name: Deploy to GitHub pages 🚀
+        if: github.event_name != 'pull_request'
+        uses: JamesIves/github-pages-deploy-action@v4.5.0
+        with:
+          clean: false
+          branch: gh-pages
+          folder: docs
diff --git a/.gitignore b/.gitignore
@@ -1,7 +1,9 @@
+*~
 *.Rproj
 .Rproj.user
 .RData
 .Rhistory
 src/*.o
 src/*.so
-inst/stuff
+inst/stuff
+docs
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -42,4 +42,4 @@ Copyright: inst/COPYRIGHTS
 Encoding: UTF-8
 License: LGPL (>= 2)
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.2.3
+RoxygenNote: 7.3.3
diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,15 @@
+# distcomp 1.3-4
+
+- CRAN fixes (use of non-API `NAMED`)
+
+# distcomp 1.3-3
+
+- CRAN fixes
+
+# distcomp 1.3-2
+
+- CRAN fixes
+
 # distcomp 1.3-1
 
 - Add `rmarkdown` to suggests

diff --git a/R/distcomp.R → R/distcomp-package.R b/R/distcomp.R → R/distcomp-package.R
@@ -41,14 +41,14 @@
 #' examples and the reference.
 #' @seealso The examples in `system.file("doc", "examples.html", package="distcomp")`
 #' @seealso The source for the examples: `system.file("doc_src", "examples.Rmd", package="distcomp")`.
-#' @docType package
 #' @references Software for Distributed Computation on Medical Databases:
 #' A Demonstration Project. Journal of Statistical Software, 77(13), 1-22.
 #' doi:10.18637/jss.v077.i13
 #' @references Appendix E of Modeling Survival Data: Extending the Cox Model by
 #' Terry M. Therneau and Patricia Grambsch. Springer Verlag, 2000.
-#' @name distcomp
-NULL
+#' @name distcomp-package
+#' @aliases distcomp-package distcomp
+"_PACKAGE"
 
 #' Make an appropriate opencpu URL for a specified function and url prefix for the
 #' distcomp package

diff --git a/man/availableComputations.Rd b/man/availableComputations.Rd
diff --git a/man/availableDataSources.Rd b/man/availableDataSources.Rd
diff --git a/man/createHEWorkerInstance.Rd b/man/createHEWorkerInstance.Rd
diff --git a/man/createNCPInstance.Rd b/man/createNCPInstance.Rd
diff --git a/man/createWorkerInstance.Rd b/man/createWorkerInstance.Rd
diff --git a/man/defineNewComputation.Rd b/man/defineNewComputation.Rd
diff --git a/man/destroyInstanceObject.Rd b/man/destroyInstanceObject.Rd
diff --git a/man/distcomp-internal.Rd b/man/distcomp-internal.Rd
diff --git a/man/distcomp.Rd → man/distcomp-package.Rd b/man/distcomp.Rd → man/distcomp-package.Rd
diff --git a/man/distcompSetup.Rd b/man/distcompSetup.Rd
diff --git a/man/executeHEMethod.Rd b/man/executeHEMethod.Rd
diff --git a/man/executeMethod.Rd b/man/executeMethod.Rd
diff --git a/man/generateId.Rd b/man/generateId.Rd
diff --git a/man/getComputationInfo.Rd b/man/getComputationInfo.Rd
diff --git a/man/getConfig.Rd b/man/getConfig.Rd
diff --git a/man/makeDefinition.Rd b/man/makeDefinition.Rd
diff --git a/man/makeHEMaster.Rd b/man/makeHEMaster.Rd
diff --git a/man/makeMaster.Rd b/man/makeMaster.Rd
diff --git a/man/makeNCP.Rd b/man/makeNCP.Rd
diff --git a/man/makeWorker.Rd b/man/makeWorker.Rd
diff --git a/man/resetComputationInfo.Rd b/man/resetComputationInfo.Rd
diff --git a/man/runDistcompApp.Rd b/man/runDistcompApp.Rd
diff --git a/man/saveNewComputation.Rd b/man/saveNewComputation.Rd
diff --git a/man/saveNewNCP.Rd b/man/saveNewNCP.Rd
diff --git a/man/setComputationInfo.Rd b/man/setComputationInfo.Rd
diff --git a/man/setupMaster.Rd b/man/setupMaster.Rd
diff --git a/man/setupWorker.Rd b/man/setupWorker.Rd
diff --git a/man/uploadNewComputation.Rd b/man/uploadNewComputation.Rd
diff --git a/man/uploadNewNCP.Rd b/man/uploadNewNCP.Rd
diff --git a/man/writeCode.Rd b/man/writeCode.Rd
diff --git a/src/chinv2.c b/src/chinv2.c
@@ -1,4 +1,4 @@
-/* $Id: chinv2.c 11357 2009-09-04 15:22:46Z therneau $
+/*
 **
 ** matrix inversion, given the FDF' cholesky decomposition
 **
@@ -15,8 +15,8 @@
 
 void chinv2(double **matrix , int n)
      {
-     register double temp;
-     register int i,j,k;
+     double temp;
+     int i,j,k;
 
      /*
      ** invert the cholesky in the lower triangle