Contrib from PNDB

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

@@ -0,0 +1,29 @@
+# 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:
+  pull_request:
+    branches: [main, development]
+
+name: R-CMD-check
+
+jobs:
+  R-CMD-check:
+    runs-on: ubuntu-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+      R_KEEP_PKG_SOURCE: yes
+    steps:
+      - uses: actions/checkout@v3
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::XML, any::rcmdcheck
+          needs: check
+
+      - uses: r-lib/actions/check-r-package@v2
+        with:
+          error-on: '"error"'

.github/workflows/test-coverage.yaml

@@ -0,0 +1,48 @@
+# 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:
+  pull_request:
+    branches: [main, development]
+
+name: test-coverage
+
+jobs:
+  test-coverage:
+    runs-on: ubuntu-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+
+    steps:
+      - uses: actions/checkout@v3
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::XML, any::covr
+          needs: coverage
+
+      - name: Test coverage
+        run: |
+          covr::codecov(
+            quiet = FALSE,
+            clean = FALSE,
+            install_path = file.path(Sys.getenv("RUNNER_TEMP"), "package")
+          )
+        shell: Rscript {0}
+
+      - name: Show testthat output
+        if: always()
+        run: |
+          ## --------------------------------------------------------------------
+          find ${{ runner.temp }}/package -name 'testthat.Rout*' -exec cat '{}' \; || true
+        shell: bash
+
+      - name: Upload test results
+        if: failure()
+        uses: actions/upload-artifact@v3
+        with:
+          name: coverage-test-failures
+          path: ${{ runner.temp }}/package

AUTHORS.md

@@ -13,3 +13,5 @@
 This project is new. A few people helped with conceptual design and implementation. We expect many to expand and refine it. A special thanks to these extraordinary individuals:
 
 * [Stevan Earl](https://sustainability.asu.edu/person/stevan-earl/), for contributing methods to make EML for spatial raster data.
+* [Elie Arnaud](https://www.linkedin.com/in/elie-arnaud-440132151/), [PNDB](https://www.pndb.fr/) French Biodiversity e-infrastructure.
+* [Mélanie Madelin](https://www.patrinat.fr/fr/annuaire/melanie-madelin-7130), [PNDB](https://www.pndb.fr/) French Biodiversity e-infrastructure.

CONTRIBUTING.md

@@ -2,7 +2,7 @@
 
 ## git structure
 
-The active branch is `development`. `development` is merged into `master` for releases. Please submit your pull requests to `development`.
+The active branch is `development`. `development` is merged into `main` for releases. Please submit your pull requests to `development`.
 
 ## Repository structure
 

DESCRIPTION

@@ -16,12 +16,14 @@ Imports:
     knitr,
     methods,
     mime,
+    ncdf4,
     reader,
     readr,
     rmarkdown,
     stringr,
     stringi,
     taxonomyCleanr (>= 1.6.2),
+    terra,
     tidyr,
     tools,
     uuid,
@@ -30,7 +32,7 @@ Suggests: testthat
 License: MIT
 Encoding: UTF-8
 LazyData: true
-RoxygenNote: 7.2.0
+RoxygenNote: 7.2.1
 Remotes:
     EDIorg/taxonomyCleanr
 URL: https://github.com/EDIorg/EMLassemblyline,

NAMESPACE

@@ -1,6 +1,7 @@
 # Generated by roxygen2: do not edit by hand
 
 export(annotate_eml)
+export(copy_test_package)
 export(eml2eal)
 export(eml2eal_losses)
 export(issues)
@@ -11,8 +12,13 @@ export(template_arguments)
 export(template_categorical_variables)
 export(template_core_metadata)
 export(template_directories)
+export(template_entities)
 export(template_geographic_coverage)
+export(template_netcdf_attributes)
+export(template_other_entity_attributes)
 export(template_provenance)
+export(template_raster_attributes)
 export(template_table_attributes)
 export(template_taxonomic_coverage)
+export(template_vector_attributes)
 export(view_unit_dictionary)

NEWS.md

@@ -1,3 +1,26 @@
+EMLassemblyline 3.X.X (202X-XX-XX)
+==================================
+
+### NEW FEATURES
+
+  * New function added, `template_other_entity_attributes()`, to create 
+  attributes templates for other entity data objects. Is part of (#45).
+
+### DOCUMENTATION
+
+  * pkgdown is now run on pushes to main and development branches and published 
+  to the gh-pages branch.
+
+
+### TESTS
+
+  * Test-coverage is now run on all pull requests to main and development 
+  branches. Test coverage is hosted on Codecov.
+  * R-CMD-check is now run on pull requests to main and development branches. 
+  Note, this replaces use of Travis CI.
+  * Test suite runs faster now that unnecessary HTTP requests have been 
+  removed.
+
 EMLassemblyline 3.5.5 (2022-10-31)
 ==================================