[CI] Fix R issues (#33)

* upgraidng R version

* invalidate cache

* try another way

* up

* back to previous installation method (with cache) but with rc pak version

* move to 4.2.3

* up to 4.2.3 again

* try to add matrix to the list

* remove force uncompile

* install only relsurv

* try R 4.4

* move to stbale pak

* up version everywhere

* forbid installation of uncompiled packages.

* move compile and instlal packages around

* rm r comile

.github/workflows/CI.yml

@@ -11,6 +11,9 @@ concurrency:
   # Cancel intermediate builds: only if it is a pull request build.
   group: ${{ github.workflow }}-${{ github.ref }}
   cancel-in-progress: ${{ startsWith(github.ref, 'refs/pull/') }}
+env:
+  R_HOME: "/opt/R/4.4.0/lib/R"
+  LD_LIBRARY_PATH: /opt/R/4.4.0/lib/R/lib
 jobs:
   test:
     name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ matrix.arch }} - ${{ github.event_name }}
@@ -33,26 +36,19 @@ jobs:
       - uses: actions/checkout@v4
       - uses: r-lib/actions/setup-r@v2
         with:
-          r-version: '4.2.1'
+          r-version: '4.4.0'
       - name: Install R packages survival & relsurv
         uses: r-lib/actions/setup-r-dependencies@v2
         with:
           packages: |
-            any::survival
             any::relsurv
       - uses: julia-actions/setup-julia@v2
         with:
           version: ${{ matrix.version }}
           arch: ${{ matrix.arch }}
       - uses: julia-actions/cache@v1
       - uses: julia-actions/julia-buildpkg@v1
-        env:
-          R_HOME: "/opt/R/4.2.1/lib/R"
-          LD_LIBRARY_PATH: /opt/R/4.2.1/lib/R/lib
       - uses: julia-actions/julia-runtest@v1
-        env:
-          R_HOME: "/opt/R/4.2.1/lib/R"
-          LD_LIBRARY_PATH: /opt/R/4.2.1/lib/R/lib
       - uses: julia-actions/julia-processcoverage@v1
       - name: Upload coverage reports to Codecov
         uses: codecov/[email protected]
@@ -70,12 +66,11 @@ jobs:
       - uses: actions/checkout@v4
       - uses: r-lib/actions/setup-r@v2
         with:
-          r-version: '4.2.1'
+          r-version: '4.4.0'
       - name: Install R packages survival & relsurv
         uses: r-lib/actions/setup-r-dependencies@v2
         with:
           packages: |
-            any::survival
             any::relsurv
       - uses: julia-actions/setup-julia@v2
         with:
@@ -88,13 +83,8 @@ jobs:
           Pkg.develop(PackageSpec(path=pwd()))
           Pkg.instantiate()
       - uses: julia-actions/julia-buildpkg@v1
-        env:
-          R_HOME: "/opt/R/4.2.1/lib/R"
-          LD_LIBRARY_PATH: /opt/R/4.2.1/lib/R/lib
       - uses: julia-actions/julia-docdeploy@v1
         env:
-          R_HOME: "/opt/R/4.2.1/lib/R"
-          LD_LIBRARY_PATH: /opt/R/4.2.1/lib/R/lib
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
           DOCUMENTER_KEY: ${{ secrets.DOCUMENTER_KEY }}
       - name: Run doctests