update pkg root paths (topepo#1227)

* update pkg root paths

* try `local::.` modifier

* update local_system_requirements()

* more paths

* move/remove some config files

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

@@ -51,7 +51,7 @@ jobs:
       - name: Install pak and query dependencies
         run: |
           install.packages("pak", repos = "https://r-lib.github.io/p/pak/dev/")
-          saveRDS(pak::pkg_deps("local::.", dependencies = TRUE), ".github/r-depends.rds")
+          saveRDS(pak::pkg_deps("local::./pkg/caret", dependencies = TRUE), ".github/r-depends.rds")
         shell: Rscript {0}
 
       - name: Restore R package cache
@@ -66,13 +66,13 @@ jobs:
       - name: Install system dependencies
         if: runner.os == 'Linux'
         run: |
-          pak::local_system_requirements(execute = TRUE)
+          pak::local_system_requirements(root = "pkg/caret", execute = TRUE)
           pak::pkg_system_requirements("rcmdcheck", execute = TRUE)
         shell: Rscript {0}
 
       - name: Install dependencies
         run: |
-          pak::local_install_dev_deps(upgrade = TRUE)
+          pak::local_install_dev_deps(root = "pkg/caret", upgrade = TRUE)
           pak::pkg_install("rcmdcheck")
         shell: Rscript {0}
 
@@ -88,7 +88,7 @@ jobs:
           _R_CHECK_CRAN_INCOMING_: false
         run: |
           options(crayon.enabled = TRUE)
-          rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check")
+          rcmdcheck::rcmdcheck(path = "pkg/caret", args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check")
         shell: Rscript {0}
 
       - name: Show testthat output

.github/workflows/test-coverage.yaml

@@ -26,7 +26,7 @@ jobs:
       - name: Install pak and query dependencies
         run: |
           install.packages("pak", repos = "https://r-lib.github.io/p/pak/dev/")
-          saveRDS(pak::pkg_deps("local::.", dependencies = TRUE), ".github/r-depends.rds")
+          saveRDS(pak::pkg_deps("local::./pkg/caret", dependencies = TRUE), ".github/r-depends.rds")
         shell: Rscript {0}
 
       - name: Restore R package cache
@@ -41,16 +41,16 @@ jobs:
       - name: Install system dependencies
         if: runner.os == 'Linux'
         run: |
-          pak::local_system_requirements(execute = TRUE)
+          pak::local_system_requirements(root = "pkg/caret", execute = TRUE)
           pak::pkg_system_requirements("covr", execute = TRUE)
         shell: Rscript {0}
 
       - name: Install dependencies
         run: |
-          pak::local_install_dev_deps(upgrade = TRUE)
+          pak::local_install_dev_deps(root = "pkg/caret", upgrade = TRUE)
           pak::pkg_install("covr")
         shell: Rscript {0}
 
       - name: Test coverage
-        run: covr::codecov()
+        run: covr::codecov(path = "pkg/caret")
         shell: Rscript {0}