From a48cfa6c63f7593bc33658308b567510608d7dea Mon Sep 17 00:00:00 2001 From: Tylar Date: Thu, 28 Mar 2024 09:45:39 -0400 Subject: [PATCH] Built site for gh-pages --- .nojekyll | 2 +- data_details.html | 10 +++--- parameter_report_template.html | 6 ++-- parameter_reports/Ammonium (N).html | 6 ++-- parameter_reports/Chlorophyll a.html | 6 ++-- parameter_reports/Nitrate (N).html | 6 ++-- parameter_reports/Nitrate-Nitrite (N).html | 6 ++-- parameter_reports/Nitrite (N).html | 6 ++-- .../Nitrogen- Total Kjeldahl.html | 6 ++-- parameter_reports/Nitrogen- Total.html | 6 ++-- parameter_reports/Orthophosphate (P).html | 6 ++-- parameter_reports/Phosphorus- Total.html | 6 ++-- parameter_reports/Silica.html | 6 ++-- parameter_reports/Turbidity.html | 6 ++-- parameters.html | 26 +++++++------- provider_sites_report.html | 4 +-- sitemap.xml | 36 +++++++++---------- sites_qa.html | 6 ++-- 18 files changed, 78 insertions(+), 78 deletions(-) diff --git a/.nojekyll b/.nojekyll index d8a4b34..7d91937 100644 --- a/.nojekyll +++ b/.nojekyll @@ -1 +1 @@ -4aa391ec \ No newline at end of file +da54dee9 \ No newline at end of file diff --git a/data_details.html b/data_details.html index d9a825d..51fcbd9 100644 --- a/data_details.html +++ b/data_details.html @@ -177,7 +177,7 @@

Data Details

-
+
(code) import libraries & functions 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -196,7 +196,7 @@ 
Data Details

There are three relevant types of data file provided:

-
+
(code) preview the raw data 
inspectData <- function(fpath){
@@ -335,7 +335,7 @@ 
Data Details

 

 
Exploratory analyses

 
A skim view of the data as it loads in:

-

+

 

 (code) skim the data
 
data <- readr::read_csv("data/Unified_WQ_Database_1995-2022.csv")
@@ -625,7 +625,7 @@ 
Exploratory analyses

 

 

 
The Value is reading in as “Character” when it should be “Numeric”. We can convert it and view the rows that are being lost because they read as non-numeric:

-

+

 

 (code) view bad rows
 
data <- getData()  # the getData in getData.R reads and converts the Value col 

@@ -665,7 +665,7 @@ 
Exploratory analyses

 

 

 
The unique problem values in the “Values” column:

-

+

 

 (code) view bad Value values
 
print(unique(na_introduced_rows$Value_orig))

diff --git a/parameter_report_template.html b/parameter_report_template.html
index 507e413..4b8af39 100644
--- a/parameter_report_template.html
+++ b/parameter_report_template.html
@@ -173,7 +173,7 @@ 
Silica

 
 

 
Silica Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Silica Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Silica Report

 7   1988         1988        2016        2020   ▇▃▁▁▃

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Ammonium (N).html b/parameter_reports/Ammonium (N).html
index f1859dd..26275be 100644
--- a/parameter_reports/Ammonium (N).html	
+++ b/parameter_reports/Ammonium (N).html	
@@ -173,7 +173,7 @@ 
Ammonium (N)

 
 

 
Ammonium (N) Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Ammonium (N) Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Ammonium (N) Report

 7  1988         2001      2005      2022   ▇▃▆▁▅

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Chlorophyll a.html b/parameter_reports/Chlorophyll a.html
index e42c059..4b3f3fe 100644
--- a/parameter_reports/Chlorophyll a.html	
+++ b/parameter_reports/Chlorophyll a.html	
@@ -173,7 +173,7 @@ 
Chlorophyll a

 
 

 
Chlorophyll a Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Chlorophyll a Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Chlorophyll a Report

 7  1998     2005      2021  ▇▇▅▁▃

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Nitrate (N).html b/parameter_reports/Nitrate (N).html
index b737e02..c90fc97 100644
--- a/parameter_reports/Nitrate (N).html	
+++ b/parameter_reports/Nitrate (N).html	
@@ -173,7 +173,7 @@ 
Nitrate (N)

 
 

 
Nitrate (N) Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Nitrate (N) Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Nitrate (N) Report

 7   1988         1988         1998         2020   ▇▃▁▁▁

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Nitrate-Nitrite (N).html b/parameter_reports/Nitrate-Nitrite (N).html
index 4814e6b..aa45b88 100644
--- a/parameter_reports/Nitrate-Nitrite (N).html	
+++ b/parameter_reports/Nitrate-Nitrite (N).html	
@@ -173,7 +173,7 @@ 
Nitrate-Nitrite (N)

 
 

 
Nitrate-Nitrite (N) Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Nitrate-Nitrite (N) Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Nitrate-Nitrite (N) Report

 7   1988        2001       2005       2022  ▇▅▆▁▅

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Nitrite (N).html b/parameter_reports/Nitrite (N).html
index 1d27f1b..057314c 100644
--- a/parameter_reports/Nitrite (N).html	
+++ b/parameter_reports/Nitrite (N).html	
@@ -173,7 +173,7 @@ 
Nitrite (N)

 
 

 
Nitrite (N) Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Nitrite (N) Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Nitrite (N) Report

 7   1988          1988          2015       2020    ▇▃▁▁▃

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Nitrogen- Total Kjeldahl.html b/parameter_reports/Nitrogen- Total Kjeldahl.html
index 69bd58e..4e952bd 100644
--- a/parameter_reports/Nitrogen- Total Kjeldahl.html	
+++ b/parameter_reports/Nitrogen- Total Kjeldahl.html	
@@ -173,7 +173,7 @@ 
Nitrogen- Total Kjeldahl

 
 

 
Nitrogen- Total Kjeldahl Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Nitrogen- Total Kjeldahl Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Nitrogen- Total Kjeldahl Report

 7   1988      2001       2010       2022  ▇▂▃▁▅

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Nitrogen- Total.html b/parameter_reports/Nitrogen- Total.html
index ce58522..d303d87 100644
--- a/parameter_reports/Nitrogen- Total.html	
+++ b/parameter_reports/Nitrogen- Total.html	
@@ -173,7 +173,7 @@ 
Nitrogen- Total

 
 

 
Nitrogen- Total Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Nitrogen- Total Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Nitrogen- Total Report

 7   1988       1988       2022    ▇▁▁▁▁

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Orthophosphate (P).html b/parameter_reports/Orthophosphate (P).html
index 32c971c..383767a 100644
--- a/parameter_reports/Orthophosphate (P).html	
+++ b/parameter_reports/Orthophosphate (P).html	
@@ -173,7 +173,7 @@ 
Orthophosphate (P)

 
 

 
Orthophosphate (P) Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Orthophosphate (P) Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Orthophosphate (P) Report

 7   2001       2005       2016       2022   ▆▇▁▇▁

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Phosphorus- Total.html b/parameter_reports/Phosphorus- Total.html
index 198b54a..86bf3bc 100644
--- a/parameter_reports/Phosphorus- Total.html	
+++ b/parameter_reports/Phosphorus- Total.html	
@@ -173,7 +173,7 @@ 
Phosphorus- Total

 
 

 
Phosphorus- Total Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Phosphorus- Total Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Phosphorus- Total Report

 7   1988        2005         2016       2022    ▇▁▆▁▅

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Silica.html b/parameter_reports/Silica.html
index 37c0a50..01b6937 100644
--- a/parameter_reports/Silica.html
+++ b/parameter_reports/Silica.html
@@ -173,7 +173,7 @@ 
Silica

 
 

 
Silica Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Silica Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Silica Report

 7   1988         1988        2016        2020   ▇▃▁▁▃

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameter_reports/Turbidity.html b/parameter_reports/Turbidity.html
index b24d25e..e283768 100644
--- a/parameter_reports/Turbidity.html
+++ b/parameter_reports/Turbidity.html
@@ -173,7 +173,7 @@ 
Turbidity

 
 

 
Turbidity Report

-

+

 

 Code
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -191,7 +191,7 @@ 
Turbidity Report

 data <- getData()

 

 

-

+

 

 load data & skim
 
parameter_name <- params$parameter_name
@@ -243,7 +243,7 @@ 
Turbidity Report

 7   2005      2008      2022  ▇▁▆▁▅

 

 

-

+

 

 create params$parameter_name histogram
 
ggplot2::ggplot(subset_data, aes(x=Value)) +
diff --git a/parameters.html b/parameters.html
index 6af32f4..a96159e 100644
--- a/parameters.html
+++ b/parameters.html
@@ -210,7 +210,7 @@ 
Parameter Reports

 
 
 
-

+

 

 (code) import libraries & functions
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -229,7 +229,7 @@ 
Parameter Reports

 

 
Parameters

 
Available parameters:

-

+

 

 (code) view unique parameters
 
# print unique values in `Parameter` column
@@ -263,7 +263,7 @@ 
Parameters

 
 

 

-

+

 
 

 

@@ -283,7 +283,7 @@ 

 

 
 

-

+

 
 

 

@@ -303,7 +303,7 @@ 

 

 
 

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+

 
 

 

@@ -323,7 +323,7 @@ 

 

 
 

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+

 
 

 

@@ -343,7 +343,7 @@ 

 

 
 

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+

 
 

 

@@ -363,7 +363,7 @@ 

 

 
 

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+

 
 

 

@@ -383,7 +383,7 @@ 

 

 
 

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+

 
 

 

@@ -403,7 +403,7 @@ 

 

 
 

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+

 
 

 

@@ -423,7 +423,7 @@ 

 

 
 

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+

 
 

 

@@ -443,7 +443,7 @@ 

 

 
 

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+

 
 

 

@@ -463,7 +463,7 @@ 

 

 
 

-

+

 
 

 

diff --git a/provider_sites_report.html b/provider_sites_report.html
index c172c80..5e00dda 100644
--- a/provider_sites_report.html
+++ b/provider_sites_report.html
@@ -166,7 +166,7 @@ 
Sites Report

 
 
 
A summary of which sites meet quality assessment checks to be included in the final map.

-

+

 

 (code) import libraries, functions, & data
 
if (!requireNamespace("librarian", quietly = TRUE)) {
@@ -181,7 +181,7 @@ 
Sites Report

 data <- getData()

 

 

-

+

 

 show unique providers
 
unique_sources <- unique(data$Source)
diff --git a/sitemap.xml b/sitemap.xml
index 9b39a90..5eeae99 100644
--- a/sitemap.xml
+++ b/sitemap.xml
@@ -2,74 +2,74 @@
 
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_report_template.html
-    2024-03-28T13:36:44.012Z
+    2024-03-28T13:45:38.844Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameters.html
-    2024-03-28T13:36:39.462Z
+    2024-03-28T13:45:37.215Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/data_details.html
-    2024-03-28T13:36:36.543Z
+    2024-03-28T13:45:35.970Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Turbidity.html
-    2024-03-28T13:36:25.270Z
+    2024-03-28T13:45:34.123Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Ammonium (N).html
-    2024-03-28T13:36:18.596Z
+    2024-03-28T13:45:32.477Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Silica.html
-    2024-03-28T13:36:12.092Z
+    2024-03-28T13:45:30.815Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Nitrogen- Total.html
-    2024-03-28T13:36:06.061Z
+    2024-03-28T13:45:29.197Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Nitrite (N).html
-    2024-03-28T13:36:00.055Z
+    2024-03-28T13:45:27.561Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/index.html
-    2024-03-28T13:35:54.111Z
+    2024-03-28T13:45:25.927Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/provider_sites_report.html
-    2024-03-28T13:35:53.914Z
+    2024-03-28T13:45:25.707Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Nitrate (N).html
-    2024-03-28T13:35:57.048Z
+    2024-03-28T13:45:26.741Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Nitrogen- Total Kjeldahl.html
-    2024-03-28T13:36:03.147Z
+    2024-03-28T13:45:28.382Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Orthophosphate (P).html
-    2024-03-28T13:36:09.020Z
+    2024-03-28T13:45:29.998Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Phosphorus- Total.html
-    2024-03-28T13:36:15.324Z
+    2024-03-28T13:45:31.653Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Nitrate-Nitrite (N).html
-    2024-03-28T13:36:21.965Z
+    2024-03-28T13:45:33.298Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/parameter_reports/Chlorophyll a.html
-    2024-03-28T13:36:28.869Z
+    2024-03-28T13:45:34.929Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/about.html
-    2024-03-28T13:36:36.754Z
+    2024-03-28T13:45:36.163Z
   
   
     https://USF-IMARS.github.io/dep-wq-data-report/sites_qa.html
-    2024-03-28T13:36:40.430Z
+    2024-03-28T13:45:38.004Z
   
 
diff --git a/sites_qa.html b/sites_qa.html
index 70d7928..0e99653 100644
--- a/sites_qa.html
+++ b/sites_qa.html
@@ -172,19 +172,19 @@ 
Sites QA

 
 
 
Coming soon

-

+

 

 remove sites with < 3 years
 
# TODO

 

 

-

+

 

 remove sites with < 10 data points
 
# TODO

 

 

-

+

 

 remove sites with no data since 2020
 
# TODO