From e3c18157d158c9b3372eb4389364feadd1ba5c58 Mon Sep 17 00:00:00 2001
From: Brooke Gibbons <brooke.gibbons@uwa.edu.au>
Date: Mon, 24 Jun 2024 15:05:29 +0800
Subject: [PATCH] I broke my link between github and my dekstop

---
 DESCRIPTION |  134 +-
 app.R       |   89 +-
 renv.lock   | 5590 +++++++++++++++++++++++++--------------------------
 3 files changed, 2909 insertions(+), 2904 deletions(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index c4c4d72..b180faf 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,67 +1,67 @@
-Package: mpaviewer
-Title: MPA Viewer
-Version: 0.0.0.9000
-Authors@R: person('Brooke', 'Gibbons', email = 'brooke.gibbons@uwa.edu.au', role = c('cre', 'aut'))
-Description: An interactive overview of selected biodiversity assets in Marine Protected Areas of Western Australia.
-License: MIT + file LICENSE
-URL: https://github.com/dbca-wa/mpaviewer
-BugReports: https://github.com/dbca-wa/mpaviewer/issues
-Depends: 
-    R (>= 4.1)
-Imports: 
-    cachem,
-    ckanr (>= 0.7.0),
-    config (>= 0.3.1),
-    cowplot (>= 1.1.1),
-    data.table,
-    devtools (>= 2.4.5),
-    dplyr (>= 1.1.2),
-    forcats (>= 1.0.0),
-    fs (>= 1.6.2),
-    ggbreak,
-    ggh4x,
-    ggplot2 (>= 3.4.2),
-    GlobalArchive (>= 0.1),
-    glue (>= 1.6.2),
-    golem (>= 0.3.1),
-    googledrive,
-    googlesheets4,
-    grid,
-    here (>= 1.0.1),
-    htmltools (>= 0.5.5),
-    httr (>= 1.4.5),
-    leafgl (>= 0.1.1),
-    leaflegend,
-    leaflet (>= 2.1.2),
-    lutz,
-    magrittr (>= 2.0.3),
-    plyr (>= 1.8.8),
-    purrr (>= 1.0.1),
-    readr (>= 2.1.4),
-    rlang,
-    scales,
-    sf,
-    shiny (>= 1.7.1),
-    shinycssloaders (>= 1.0.0),
-    shinydashboard (>= 0.7.2),
-    shinydashboardPlus (>= 2.0.3),
-    shinyWidgets (>= 0.7.6),
-    stringr (>= 1.5.0),
-    thinkr,
-    tidyr (>= 1.3.0),
-    utils
-Suggests: 
-    knitr (>= 1.42),
-    rmarkdown (>= 2.21),
-    spelling (>= 2.2.1),
-    testthat (>= 3.0.0)
-VignetteBuilder: 
-    knitr
-Remotes:
-    github::GlobalArchiveManual/CheckEM
-Config/testthat/edition: 3
-Encoding: UTF-8
-Language: en-US
-LazyData: true
-Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.3.1
+Package: mpaviewer
+Title: MPA Viewer
+Version: 0.0.0.9000
+Authors@R: person('Brooke', 'Gibbons', email = 'brooke.gibbons@uwa.edu.au', role = c('cre', 'aut'))
+Description: An interactive overview of selected biodiversity assets in Marine Protected Areas of Western Australia.
+License: MIT + file LICENSE
+URL: https://github.com/dbca-wa/mpaviewer
+BugReports: https://github.com/dbca-wa/mpaviewer/issues
+Depends: 
+    R (>= 4.1)
+Imports: 
+    cachem,
+    ckanr (>= 0.7.0),
+    config (>= 0.3.1),
+    cowplot (>= 1.1.1),
+    data.table,
+    devtools (>= 2.4.5),
+    dplyr (>= 1.1.2),
+    forcats (>= 1.0.0),
+    fs (>= 1.6.2),
+    ggbreak,
+    ggh4x,
+    ggplot2 (>= 3.4.2),
+    GlobalArchive (>= 0.1),
+    glue (>= 1.6.2),
+    golem (>= 0.3.1),
+    googledrive,
+    googlesheets4,
+    grid,
+    here (>= 1.0.1),
+    htmltools (>= 0.5.5),
+    httr (>= 1.4.5),
+    leafgl (>= 0.1.1),
+    leaflegend,
+    leaflet (>= 2.1.2),
+    lutz,
+    magrittr (>= 2.0.3),
+    plyr (>= 1.8.8),
+    purrr (>= 1.0.1),
+    readr (>= 2.1.4),
+    rlang,
+    scales,
+    sf,
+    shiny (>= 1.7.1),
+    shinycssloaders (>= 1.0.0),
+    shinydashboard (>= 0.7.2),
+    shinydashboardPlus (>= 2.0.3),
+    shinyWidgets (>= 0.7.6),
+    stringr (>= 1.5.0),
+    thinkr,
+    tidyr (>= 1.3.0),
+    utils
+Suggests: 
+    knitr (>= 1.42),
+    rmarkdown (>= 2.21),
+    spelling (>= 2.2.1),
+    testthat (>= 3.0.0)
+VignetteBuilder: 
+    knitr
+Remotes:
+    github::GlobalArchiveManual/CheckEM
+Config/testthat/edition: 3
+Encoding: UTF-8
+Language: en-US
+LazyData: true
+Roxygen: list(markdown = TRUE)
+RoxygenNote: 7.3.1
diff --git a/app.R b/app.R
index cc4ede0..da96886 100644
--- a/app.R
+++ b/app.R
@@ -1,42 +1,47 @@
-## Launch the ShinyApp (Do not remove this comment)
-# To deploy, run: rsconnect::deployApp()
-# Or use the blue button on top of this file
-
-# # Google Sheets Auth ----
-# options(gargle_oauth_cache = ".secrets")
-# # check the value of the option, if you like
-# gargle::gargle_oauth_cache()
-# googlesheets4::gs4_auth()
-# 2
-
-# Step 1. Load all functions from package
-pkgload::load_all(export_all = FALSE, helpers = FALSE, attach_testthat = FALSE)
-
-# Step 2. Download all data from GoogleDrive (only if it has been updated)
-# mpaviewer::googledrive_download_data() # takes 11 minutes
-
-# Step 3. Generate new data
-# Sys.time() # takes 7 mins
-# mpaviewer::generate_data()
-# Sys.time()
-
-# Step 4. Generate new plots
-# Sys.time() # Takes a few hours to run
-# mpaviewer::generate_plots() # TODO figure out how to get this to work
-# Sys.time()
-
-# Step 5. Run demo app
-options("golem.app.prod" = TRUE)
-
-# RUN app
-mpaviewer::run_app()
-
-# Step 6. Deploy to shiny server for testing
-# rsconnect::deployApp()
-
-# # For profiling app
-# profvis::profvis({
-#   print(
-#     mpaviewer::run_app()
-#   )
-# })
+## Launch the ShinyApp (Do not remove this comment)
+# To deploy, run: rsconnect::deployApp()
+# Or use the blue button on top of this file
+
+# # Google Sheets Auth ----
+# options(gargle_oauth_cache = ".secrets")
+# # check the value of the option, if you like
+# gargle::gargle_oauth_cache()
+# googlesheets4::gs4_auth()
+# 2
+
+## If CheckEM package has changed
+# remove.packages("CheckEM")
+# renv::install("GlobalArchiveManual/CheckEM")
+# devtools::install_github("GlobalArchiveManual/CheckEM")
+
+# Step 1. Load all functions from package
+pkgload::load_all(export_all = FALSE, helpers = FALSE, attach_testthat = FALSE)
+
+# Step 2. Download all data from GoogleDrive (only if it has been updated)
+# mpaviewer::googledrive_download_data() # takes 11 minutes
+
+# Step 3. Generate new data
+# Sys.time() # takes 7 mins
+# mpaviewer::generate_data()
+# Sys.time()
+
+# Step 4. Generate new plots
+# Sys.time() # Takes a few hours to run
+# mpaviewer::generate_plots() # TODO figure out how to get this to work
+# Sys.time()
+
+# Step 5. Run demo app
+options("golem.app.prod" = TRUE)
+
+# RUN app
+mpaviewer::run_app()
+
+# Step 6. Deploy to shiny server for testing
+# rsconnect::deployApp()
+
+# # For profiling app
+# profvis::profvis({
+#   print(
+#     mpaviewer::run_app()
+#   )
+# })
diff --git a/renv.lock b/renv.lock
index 054335d..c4a5497 100644
--- a/renv.lock
+++ b/renv.lock
@@ -1,2795 +1,2795 @@
-{
-  "R": {
-    "Version": "4.3.2",
-    "Repositories": [
-      {
-        "Name": "CRAN",
-        "URL": "https://packagemanager.posit.co/cran/latest"
-      }
-    ]
-  },
-  "Packages": {
-    "BH": {
-      "Package": "BH",
-      "Version": "1.84.0-0",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Hash": "a8235afbcd6316e6e91433ea47661013"
-    },
-    "DBI": {
-      "Package": "DBI",
-      "Version": "1.2.3",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
-        "R",
-        "methods"
-      ],
-      "Hash": "065ae649b05f1ff66bb0c793107508f5"
-    },
-    "GlobalArchive": {
-      "Package": "GlobalArchive",
-      "Version": "0.1",
-      "Source": "GitHub",
-      "RemoteType": "github",
-      "RemoteHost": "api.github.com",
-      "RemoteRepo": "GlobalArchive",
-      "RemoteUsername": "UWAMEGFisheries",
-      "RemoteRef": "HEAD",
-      "RemoteSha": "f3c4315600a0396c7f72382b81d9073d346d431d",
-      "Requirements": [
-        "dplyr",
-        "tidyr"
-      ],
-      "Hash": "4d9c000432fb34dba068a2acb776fd11"
-    },
-    "KernSmooth": {
-      "Package": "KernSmooth",
-      "Version": "2.23-22",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
-        "R",
-        "stats"
-      ],
-      "Hash": "2fecebc3047322fa5930f74fae5de70f"
-    },
-    "MASS": {
-      "Package": "MASS",
-      "Version": "7.3-60",
-      "Source": "Repository",
-      "Repository": "CRAN",
-      "Requirements": [
-        "R",
-        "grDevices",
-        "graphics",
-        "methods",
-        "stats",
-        "utils"
-      ],
-      "Hash": "a56a6365b3fa73293ea8d084be0d9bb0"
-    },
-    "Matrix": {
-      "Package": "Matrix",
-      "Version": "1.6-1.1",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
-        "R",
-        "grDevices",
-        "graphics",
-        "grid",
-        "lattice",
-        "methods",
-        "stats",
-        "utils"
-      ],
-      "Hash": "1a00d4828f33a9d690806e98bd17150c"
-    },
-    "R6": {
-      "Package": "R6",
-      "Version": "2.5.1",
-      "Source": "Repository",
-      "Repository": "CRAN",
-      "Requirements": [
-        "R"
-      ],
-      "Hash": "470851b6d5d0ac559e9d01bb352b4021"
-    },
-    "RColorBrewer": {
-      "Package": "RColorBrewer",
-      "Version": "1.1-3",
-      "Source": "Repository",
-      "Repository": "CRAN",
-      "Requirements": [
-        "R"
-      ],
-      "Hash": "45f0398006e83a5b10b72a90663d8d8c"
-    },
-    "Rcpp": {
-      "Package": "Rcpp",
-      "Version": "1.0.12",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
-        "methods",
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-      ],
-      "Hash": "5ea2700d21e038ace58269ecdbeb9ec0"
-    },
-    "anytime": {
-      "Package": "anytime",
-      "Version": "0.3.9",
-      "Source": "Repository",
-      "Repository": "CRAN",
-      "Requirements": [
-        "BH",
-        "R",
-        "Rcpp"
-      ],
-      "Hash": "74a64813f17b492da9c6afda6b128e3d"
-    },
-    "aplot": {
-      "Package": "aplot",
-      "Version": "0.2.2",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
-        "R",
-        "ggfun",
-        "ggplot2",
-        "ggplotify",
-        "magrittr",
-        "methods",
-        "patchwork",
-        "utils"
-      ],
-      "Hash": "869a35e6d38fe9936eb578e09091842b"
-    },
-    "askpass": {
-      "Package": "askpass",
-      "Version": "1.2.0",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
-        "sys"
-      ],
-      "Hash": "cad6cf7f1d5f6e906700b9d3e718c796"
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-        "htmltools",
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-        "lifecycle",
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-        "mime",
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-        "sass"
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-        "R",
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-        "stats"
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-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
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-      "Hash": "1216ac65ac55ec0058a6f75d7ca0fd52"
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-      "Repository": "RSPM",
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-      "Repository": "RSPM",
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-      "Version": "2.0.1",
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-        "sys"
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-      "Hash": "c7844b32098dcbd1c59cbd8dddb4ecc6"
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-    "crosstalk": {
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-      "Version": "1.2.1",
-      "Source": "Repository",
-      "Repository": "RSPM",
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-        "htmltools",
-        "jsonlite",
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-      ],
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-    "crul": {
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-      "Source": "Repository",
-      "Repository": "RSPM",
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-        "curl",
-        "httpcode",
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-        "mime",
-        "urltools"
-      ],
-      "Hash": "5685d2603020d0f879a147ba23d51292"
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-    "curl": {
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-      "Version": "5.2.1",
-      "Source": "Repository",
-      "Repository": "RSPM",
-      "Requirements": [
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-      "Hash": "411ca2c03b1ce5f548345d2fc2685f7a"
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-    "data.table": {
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-      "Version": "1.15.4",
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-      "Repository": "RSPM",
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