Create generalised extract_data function

.Rbuildignore

@@ -11,3 +11,4 @@
 ^ignore$
 ^austraits$
 ^codecov\.yml$
+^inst/cheatsheet$

.github/workflows/test-coverage.yml

@@ -3,7 +3,6 @@ on:
     branches:
       - master
       - develop
-      - upgrade
   pull_request:
     branches:
       - master

DESCRIPTION

@@ -1,12 +1,17 @@
 Package: austraits
 Title: Helpful functions to access, summarise and wrangle austraits data
-Version: 2.2.3
+Version: 3.0.0.9000
 Authors@R:
     c(person(given = "Daniel",
              family = "Falster",
              role = "aut",
              email = "[email protected]",
              comment = c(ORCID = "0000-0002-9814-092X")),
+      person(given = "Elizabeth", 
+            family = "Wenk", 
+            role = "ctb",
+            email = "[email protected]", 
+            comment = c(ORCID = "0000-0001-5640-5910")),
       person(given = "Fonti",
              family = "Kar",
              role = c("aut", "cre"),
@@ -22,7 +27,7 @@ Encoding: UTF-8
 Language: en
 LazyData: true
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.2.3
+RoxygenNote: 7.3.2
 Depends: 
     R (>= 4.0.0),
     RefManageR
@@ -32,19 +37,21 @@ Imports:
     rlang,
     purrr,
     tidyselect,
-    assertthat,
     stringr,
     stats,
     jsonlite,
     utils,
     magrittr,
     janitor,
-    lifecycle
+    lifecycle,
+    tibble,
+    cli
 Suggests: 
     ggplot2,
     ggpointdensity,
     ggbeeswarm (>= 0.7.1),
     gridExtra,
+    readr,
     scales,
     forcats,
     viridis,

NAMESPACE

@@ -3,19 +3,25 @@
 S3method(print,austraits)
 export("%>%")
 export(as_wide_table)
+export(bind_databases)
 export(bind_trait_values)
+export(extract_data)
 export(extract_dataset)
 export(extract_taxa)
 export(extract_trait)
+export(flatten_database)
 export(get_version_latest)
 export(get_versions)
-export(join_all)
-export(join_contexts)
-export(join_locations)
+export(join_context_properties)
+export(join_contributors)
+export(join_location_coordinates)
+export(join_location_properties)
 export(join_methods)
-export(join_sites)
-export(join_taxonomy)
+export(join_taxa)
+export(join_taxonomic_updates)
 export(load_austraits)
+export(lookup_context_property)
+export(lookup_location_property)
 export(lookup_trait)
 export(plot_locations)
 export(plot_site_locations)
@@ -25,17 +31,11 @@ export(summarise_austraits)
 export(summarise_trait_means)
 export(trait_pivot_longer)
 export(trait_pivot_wider)
+export(util_df_to_list)
+export(util_list_to_df2)
 import(RefManageR)
-importFrom(dplyr,arrange)
-importFrom(dplyr,filter)
-importFrom(dplyr,group_by)
-importFrom(dplyr,select)
-importFrom(dplyr,summarise)
 importFrom(lifecycle,deprecated)
 importFrom(magrittr,"%>%")
+importFrom(rlang,.data)
 importFrom(stats,family)
-importFrom(stringr,str_detect)
-importFrom(tidyr,pivot_longer)
-importFrom(tidyr,pivot_wider)
-importFrom(tidyselect,all_of)
 importFrom(utils,methods)

NEWS.md

@@ -1,2 +1,16 @@
-# austraits 2.2.1
+# austraits 3.0.0.9000
 - Updated dependencies, placing graphics related packages in Suggests
+- Added internal function to check the compatibility of databases
+- Added internal function notify users that some database versions will not be supported
+- The following functions will no longer support AusTraits version < 5.0.0:
+    - `extract_*` 
+    - `trait_pivot_wider`
+    - `join_*`
+    - `plot_site/locations`
+    - `plot_trait_beeswarm`
+    - `as_wide_table`
+- `trait_pivot_longer` is deprecated
+- `summarise_trait_means` will trigger warning due to uninformed calculations
+- Added new function `extract_data`
+- Added new function `bind_databases`
+- Added new function `flatten_databases`