pkgdown actions

.github/workflows/pkgdown.yaml

@@ -4,12 +4,13 @@ on:
   push:
     branches: [main, master]
   pull_request:
-    branches: [main, master]
   release:
     types: [published]
   workflow_dispatch:
 
-name: pkgdown
+name: pkgdown.yaml
+
+permissions: read-all
 
 jobs:
   pkgdown:
@@ -22,7 +23,7 @@ jobs:
     permissions:
       contents: write
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - uses: r-lib/actions/setup-pandoc@v2
 
@@ -32,7 +33,7 @@ jobs:
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
-          extra-packages: any::pkgdown, any::rsconnect, local::.
+          extra-packages: any::pkgdown, local::.
           needs: website
 
       - name: Build site
@@ -41,7 +42,7 @@ jobs:
 
       - name: Deploy to GitHub pages 🚀
         if: github.event_name != 'pull_request'
-        uses: JamesIves/github-pages-deploy-action@v4.4.1
+        uses: JamesIves/github-pages-deploy-action@v4.5.0
         with:
           clean: false
           branch: gh-pages

.gitignore

@@ -30,3 +30,4 @@ inst/rust/template/*
 inst/options/PMoptions.json
 inst/options/PMoptions.json
 inst/doc
+docs

DESCRIPTION

@@ -28,7 +28,7 @@ Authors@R: c(
   person("Robert", "Leary", email = "", role = "ctb")
     )
 Version: 2.1.1
-URL: https://lapkb.github.io/Pmetrics/
+URL: https://lapkb.github.io/Pmetrics/, https://lapkb.github.io/Pmetrics_rust/
 BugReports: https://github.com/LAPKB/Pmetrics/issues
 Depends: 
     R (>= 4.0.0)
@@ -79,7 +79,7 @@ Suggests:
     reticulate,
     rmarkdown,
     testthat
-RoxygenNote: 7.3.2
+RoxygenNote: 7.3.3
 Encoding: UTF-8
 Config/testthat/edition: 3
 VignetteBuilder: knitr

_pkgdown.yml

@@ -1,138 +1,5 @@
-url: https://lapkb.github.io/Pmetrics/
+url: https://lapkb.github.io/Pmetrics_rust/
 template:
   bootstrap: 5
-  bootswatch: flatly
-navbar:
-  structure:
-      left:  [intro, reference, articles, tutorials, news]
-      right: [search, github]
-  components:
-    intro:
-      text: Start Here
-      href: articles/pmetrics.html
-    articles:
-      text: Articles
-      menu:
-        - text: Introduction
-          href: articles/intro.html
-        - text: Overview
-          href: articles/overview.html
-        - text: Workflow
-          href: articles/workflow.html
-        - text: Data Objects
-          href: articles/data.html
-        - text: Model Objects
-          href: articles/models.html
-        - text: Running the fit
-          href: articles/running.html
-        - text: Created Objects
-          href: articles/objects.html
-        - text: Simulation
-          href: articles/simulation.html
-        - text: Plotly plots
-          href: articles/plotly.html
-home:
-  sidebar:
-    structure: [links, license, community, citation, authors, dev]
-    components:
-      custom:
-        title: Discussion
-        text: Discussion board
-        href: https://github.com/LAPKB/Pmetrics/discussions
-reference:
-- title: R6 objects
-  desc: Create Pmetrics R6 objects
-- contents: 
-  - starts_with("PM_")
-  - ab
-  - additive
-  - combination
-  - covariate
-  - errorPoly
-  - fixed
-  - msd
-  - proportional
-  - build_model
-- title: Make functions
-  desc: Functions for making Pmetrics objects
-- contents:
-  - PMtree
-  - starts_with("make")
-- title: Optimal sampling
-  desc: Functions to calculate optimal sample times
-- contents:
-  - Dopt
-  - MM_opt
-- title: Plot
-  desc: Functions for plotting Pmetrics output
-- contents: 
-  - starts_with("plot")
-  - ab_line
-  - add_shapes
-  - add_smooth
-  - export_plotly
-  - sub_plot
-- title: Summary
-  desc: Functions for summarizing Pmetrics output
-- contents: starts_with("summary")
-- title: Print
-  desc: Functions for printing Pmetrics output
-- contents: starts_with("print")
-- title: Run
-  desc: Run functions for modeling or simulating data
-- contents: ends_with("run")
-- title: Parse/load
-  desc: Parse functions for loading modeled or simulated data
-- contents:
-  - ends_with("parse")
-  - PMload
-- title: Auxilliary
-  desc: Auxilliary functions
-- contents:
-  - qgrowth
-  - zBMI
-  - ss.PK
-  - mtsknn.eq
-  - PMcompare
-  - PMgetCRCL
-  - PMstep
-- title: Datasets
-  desc: Pmetrics datasets
-- contents: has_keyword("datasets")
-- title: Data processing
-  desc: Data processing and interconversion
-- contents:
-  - NM2PM
-  - PMwrk2csv
-  - PMmb2csv
-  - PMmatrixRelTime
-  - PMreadMatrix
-  - PMwriteMatrix
-- title: Utility
-  desc: Utility functions
-- contents:
-  - PMFortranConfig
-  - PMbuild
-  - PMcheck
-  - PMcode
-  - PMlogin
-  - PMlogout
-  - PMpatch
-  - PMregister
-  - PMreport
-  - ERRreport
-  - PMsave
-  - PMtest
-  - PMupdate
-  - getPMoptions
-  - setPMoptions
-  - editPMoptions
-  - movePMoptions
-  - update_gfortran
-- title: Reference
-  desc: Reference functions
-- contents:
-  - PMFortranConfig
-  - PMmanual
-  - PMnews
-  - Pmetrics-package
+
+tutorials: false