Issue #147: Remove cmdstanr from remote (#356)

* Remove cmdstanr from Remotes

* Move into Additional_repositories

* Use stable release version rather than latest

* Use R universe version of cmdstanr and add to GH actions

* Move cmdstanr from Imports to Suggests

* Remove import statement in package

Former-commit-id: 82a8496410e085d1473884d2053aeeaf6098f881 [formerly 0ea27be8098a9c67d003a259a5667e55c9ce2af3]
Former-commit-id: 19a0530e82757681e05176ba39546e99b3b85ec1
Former-commit-id: 88f0953

.github/workflows/R-CMD-as-cran-check.yaml

@@ -30,6 +30,7 @@ jobs:
       - uses: r-lib/actions/setup-r@v2
         with:
           use-public-rspm: true
+          extra-repositories: 'https://stan-dev.r-universe.dev'
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:

.github/workflows/R-CMD-check.yaml

@@ -49,6 +49,7 @@ jobs:
           http-user-agent: ${{ matrix.config.http-user-agent }}
           use-public-rspm: true
           rtools-version: ${{ matrix.config.rtools }}
+          extra-repositories: 'https://stan-dev.r-universe.dev'
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:

.github/workflows/check-cmdstan.yaml

@@ -46,6 +46,9 @@ jobs:
           sudo apt-get install -y libpng-dev || true
 
       - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+          extra-repositories: 'https://stan-dev.r-universe.dev'
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with: 

.github/workflows/codemeta.yaml

@@ -19,7 +19,8 @@ jobs:
       - uses: r-lib/actions/setup-r@v2
         with:
           use-public-rspm: true
-
+          extra-repositories: 'https://stan-dev.r-universe.dev'
+
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
           extra-packages: any::codemetar

.github/workflows/lint-changed-files.yaml

@@ -18,6 +18,9 @@ jobs:
       - uses: actions/checkout@v4
 
       - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+          extra-repositories: 'https://stan-dev.r-universe.dev'
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:

.github/workflows/pkgdown.yaml

@@ -31,7 +31,8 @@ jobs:
       - uses: r-lib/actions/setup-r@v2
         with:
           use-public-rspm: true
-
+          extra-repositories: 'https://stan-dev.r-universe.dev'
+
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:
           extra-packages: any::pkgdown, local::.

.github/workflows/pr-commands.yaml

@@ -23,6 +23,7 @@ jobs:
       - uses: r-lib/actions/setup-r@v2
         with:
           use-public-rspm: true
+          extra-repositories: 'https://stan-dev.r-universe.dev'
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:

.github/workflows/render-readme.yaml

@@ -21,7 +21,10 @@ jobs:
 
       - name: Setup R
         uses: r-lib/actions/setup-r@v2
-
+        with:
+          use-public-rspm: true
+          extra-repositories: 'https://stan-dev.r-universe.dev'
+
       - name: Setup pandoc
         uses: r-lib/actions/setup-pandoc@v2
 

.github/workflows/test-coverage.yaml

@@ -25,6 +25,7 @@ jobs:
       - uses: r-lib/actions/setup-r@v2
         with:
           use-public-rspm: true
+          extra-repositories: 'https://stan-dev.r-universe.dev'
 
       - uses: r-lib/actions/setup-r-dependencies@v2
         with:

DESCRIPTION

@@ -26,7 +26,6 @@ Depends:
     R (>= 3.5.0)
 Imports: 
     brms,
-    cmdstanr,
     ggplot2,
     purrr,
     stats,
@@ -50,9 +49,10 @@ Suggests:
     sf,
     tidybayes,
     modelr,
-    patchwork
-Remotes:
-    stan-dev/cmdstanr
+    patchwork,
+    cmdstanr
+Additional_repositories:
+    https://stan-dev.r-universe.dev
 Config/Needs/website:
     r-lib/pkgdown,
     epinowcast/enwtheme

NAMESPACE

@@ -37,7 +37,6 @@ export(simulate_exponential_cases)
 export(simulate_gillespie)
 export(simulate_secondary)
 export(simulate_uniform_cases)
-import(cmdstanr)
 import(ggplot2)
 importFrom(brms,bf)
 importFrom(brms,prior)

R/epidist-package.R

@@ -2,7 +2,6 @@
 "_PACKAGE"
 
 #' @import ggplot2
-#' @import cmdstanr
 
 ## usethis namespace: start
 #' @importFrom dplyr filter select