Merge pull request #18 from CeresBarros/16-update-module-author-infom…

…etadata 16 update module author info/metadata
CeresBarros · Aug 30, 2023 · d94b9df · d94b9df
2 parents 9f59072 + c2b3a34
commit d94b9df
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Showing 7 changed files with 18 additions and 13 deletions.
diff --git a/.github/workflows/render-bookdown.yml b/.github/workflows/render-bookdown.yml
@@ -53,8 +53,8 @@ jobs:
 
       - uses: actions/upload-artifact@v2
         with:
-          name: _book
-          path: _book/
+          name: docs
+          path: docs/
 
 
   checkout-and-deploy:
@@ -69,14 +69,14 @@ jobs:
          uses: actions/download-artifact@v2
          with:
            # Artifact name
-           name: _book # optional
+           name: docs # optional
            # Destination path
-           path: _book # optional
+           path: docs/ # optional
 
        - name: Deploy to GitHub Pages
          uses: Cecilapp/GitHub-Pages-deploy@v3
          env:
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
          with:
-          build_dir: _book
+          build_dir: docs/
           branch: gh-pages
diff --git a/Part2_SDMs.Rmd b/Part2_SDMs.Rmd
@@ -9,7 +9,7 @@ Authors: Ceres Barros, Alex M. Chubaty
 
 ``` {r setup, include = FALSE}
 projDir <- getwd()   ## save this for later
-rmdDir <- "~/SpaDES4Dummies_Part2"
+rmdDir <- "~/SpaDES4Dummies_Part2"   ## same as mainPath below.
 dir.create(rmdDir)
 knitr::opts_knit$set(
   root.dir = rmdDir
@@ -130,8 +130,8 @@ mods <- list.files(file.path(projDir, "modules"), full.names = TRUE)
 sapply(mods, function(mod, to) {
   to <- file.path(to, basename(mod))
   dir.create(to, showWarnings = FALSE)
-  ff <- list.files(mod, recursive = TRUE, full.names = TRUE)
-  file.copy(ff, to, recursive = TRUE, overwrite = TRUE)
+  ff <- list.files(mod, full.names = TRUE) ## don't recurse into dirs to preserve structure
+  file.copy(ff, to, recursive = TRUE, overwrite = TRUE)  ## now recurse to copy files in dirs
 }, to = getPaths()$modulePath)
 rm(mods)
 ```

diff --git a/modules/projectSpeciesDist/projectSpeciesDist.R b/modules/projectSpeciesDist/projectSpeciesDist.R
@@ -8,7 +8,8 @@ defineModule(sim, list(
   name = "projectSpeciesDist",
   description = "",
   keywords = "",
-  authors = structure(list(list(given = c("Ceres"), family = "Barros", role = c("aut", "cre"), email = "[email protected]", comment = NULL)), class = "person"),
+  authors = structure(list(list(given = c("Ceres"), family = "Barros", 
+                                role = c("aut", "cre"), email = "[email protected]", comment = NULL)), class = "person"),
   childModules = character(0),
   version = list(projectSpeciesDist = "1.0.0"),
   timeframe = as.POSIXlt(c(NA, NA)),

diff --git a/modules/speciesAbundance/speciesAbundance.R b/modules/speciesAbundance/speciesAbundance.R
@@ -4,7 +4,8 @@ defineModule(sim, list(
   name = "speciesAbundance",
   description = "",
   keywords = "",
-  authors = person("Me", email = "[email protected]", role = c("aut", "cre")),
+  authors = structure(list(list(given = c("Ceres"), family = "Barros", 
+                                role = c("aut", "cre"), email = "[email protected]", comment = NULL)), class = "person"),
   childModules = character(0),
   version = list(speciesAbundance = "1.0.0"),
   timeframe = as.POSIXlt(c(NA, NA)),

diff --git a/modules/speciesAbundanceData/speciesAbundanceData.R b/modules/speciesAbundanceData/speciesAbundanceData.R
@@ -9,7 +9,8 @@ defineModule(sim, list(
   description = paste("Data module to prepare tree species cover data for species distribution modelling.", 
                       "Defaults to using Canadian National Forest Inventory data."),
   keywords = c("minimal SpaDES example", "species distribution model"),
-  authors = structure(list(list(given = c("Ceres"), family = "Barros", role = c("aut", "cre"), email = "[email protected]", comment = NULL)), class = "person"),
+  authors = structure(list(list(given = c("Ceres"), family = "Barros", role = c("aut", "cre"), 
+                                email = "[email protected]", comment = NULL)), class = "person"),
   childModules = character(0),
   version = list(speciesAbundanceData = "1.0.0"),
   timeframe = as.POSIXlt(c(NA, NA)),

diff --git a/modules/speciesTempLM/speciesTempLM.R b/modules/speciesTempLM/speciesTempLM.R
@@ -5,7 +5,8 @@ defineModule(sim, list(
   name = "speciesTempLM",
   description = "Statistical analysis of species ~ temperature relationships using LM",
   keywords = c("linear model"),
-  authors = person("Me", email = "[email protected]", role = c("aut", "cre")),
+  authors = structure(list(list(given = c("Ceres"), family = "Barros", 
+                                role = c("aut", "cre"), email = "[email protected]", comment = NULL)), class = "person"),
   childModules = character(0),
   version = list(speciesTempLM = "1.0.0"),
   timeframe = as.POSIXlt(c(NA, NA)),

diff --git a/modules/temperature/temperature.R b/modules/temperature/temperature.R
@@ -5,7 +5,8 @@ defineModule(sim, list(
   name = "temperature",
   description = "Temperature simulator",
   keywords = c("temperature", "gaussian", "spatial"),
-  authors = person("Me", email = "[email protected]", role = c("aut", "cre")),
+  authors = structure(list(list(given = c("Ceres"), family = "Barros", 
+                                role = c("aut", "cre"), email = "[email protected]", comment = NULL)), class = "person"),
   childModules = character(0),
   version = list(temperature = "1.0.0"),
   timeframe = as.POSIXlt(c(NA, NA)),