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USF-IMARS · Mar 28, 2024 · a48cfa6 · a48cfa6
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diff --git a/.nojekyll b/.nojekyll
@@ -1 +1 @@
-4aa391ec
+da54dee9
diff --git a/data_details.html b/data_details.html
@@ -177,7 +177,7 @@ <h1 class="title">Data Details</h1>
 
 </header>
 
-<div class="cell">
+<div class="cell" data-hash="data_details_cache/html/import libraries &amp; functions_0822cdd12860469704f0b6aab559b5f5">
 <details>
 <summary>(code) import libraries &amp; functions</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -196,7 +196,7 @@ <h1 class="title">Data Details</h1>
 </details>
 </div>
 <p>There are three relevant types of data file provided:</p>
-<div class="cell">
+<div class="cell" data-hash="data_details_cache/html/preview the raw data_d9d2f099fb136c711096733f2ffbaf50">
 <details>
 <summary>(code) preview the raw data</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>inspectData <span class="ot">&lt;-</span> <span class="cf">function</span>(fpath){</span>
@@ -335,7 +335,7 @@ <h1 class="title">Data Details</h1>
 <section id="exploratory-analyses" class="level1">
 <h1>Exploratory analyses</h1>
 <p>A skim view of the data as it loads in:</p>
-<div class="cell">
+<div class="cell" data-hash="data_details_cache/html/skim data_84989481816d545965a8a5c507b72a4f">
 <details>
 <summary>(code) skim the data</summary>
 <div class="sourceCode cell-code" id="cb14"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb14-1"><a href="#cb14-1" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> readr<span class="sc">::</span><span class="fu">read_csv</span>(<span class="st">"data/Unified_WQ_Database_1995-2022.csv"</span>)</span>
@@ -625,7 +625,7 @@ <h1>Exploratory analyses</h1>
 </div>
 </div>
 <p>The <code>Value</code> 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:</p>
-<div class="cell">
+<div class="cell" data-hash="data_details_cache/html/view bad rows_7efb8e6314935338eda00925f88bc033">
 <details>
 <summary>(code) view bad rows</summary>
 <div class="sourceCode cell-code" id="cb15"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb15-1"><a href="#cb15-1" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()  <span class="co"># the getData in getData.R reads and converts the Value col </span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
@@ -665,7 +665,7 @@ <h1>Exploratory analyses</h1>
 </div>
 </div>
 <p>The unique problem values in the “Values” column:</p>
-<div class="cell">
+<div class="cell" data-hash="data_details_cache/html/view bad `Value` values_e737c451559bb739bb5a73ae6e150edd">
 <details>
 <summary>(code) view bad <code>Value</code> values</summary>
 <div class="sourceCode cell-code" id="cb20"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb20-1"><a href="#cb20-1" aria-hidden="true" tabindex="-1"></a><span class="fu">print</span>(<span class="fu">unique</span>(na_introduced_rows<span class="sc">$</span>Value_orig))</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>

diff --git a/parameter_report_template.html b/parameter_report_template.html
@@ -173,7 +173,7 @@ <h1 class="title">Silica</h1>
 
 <section id="silica-report" class="level1">
 <h1>Silica Report</h1>
-<div class="cell">
+<div class="cell" data-hash="parameter_report_template_cache/html/setup_f70ebbd665972f4550953d3e785f7a19">
 <details>
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -191,7 +191,7 @@ <h1>Silica Report</h1>
 <span id="cb1-13"><a href="#cb1-13" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </details>
 </div>
-<div class="cell">
+<div class="cell" data-hash="parameter_report_template_cache/html/unnamed-chunk-2_5b3eeb31f71649cbe63f4afc3789792c">
 <details>
 <summary>load data &amp; skim</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>parameter_name <span class="ot">&lt;-</span> params<span class="sc">$</span>parameter_name</span>
@@ -243,7 +243,7 @@ <h1>Silica Report</h1>
 7   1988         1988        2016        2020   ▇▃▁▁▃</code></pre>
 </div>
 </div>
-<div class="cell">
+<div class="cell" data-hash="parameter_report_template_cache/html/unnamed-chunk-3_b053bedf0556a150df3070132396dcd7">
 <details>
 <summary>create <code>params$parameter_name</code> histogram</summary>
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a>ggplot2<span class="sc">::</span><span class="fu">ggplot</span>(subset_data, <span class="fu">aes</span>(<span class="at">x=</span>Value)) <span class="sc">+</span></span>

diff --git a/parameter_reports/Ammonium (N).html b/parameter_reports/Ammonium (N).html
@@ -173,7 +173,7 @@ <h1 class="title">Ammonium (N)</h1>
 
 <section id="ammonium-n-report" class="level1">
 <h1>Ammonium (N) Report</h1>
-<div class="cell">
+<div class="cell" data-hash="Ammonium--N-_cache/html/setup_d30b9f2f6ccb3341bde75183d42984cb">
 <details>
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -191,7 +191,7 @@ <h1>Ammonium (N) Report</h1>
 <span id="cb1-13"><a href="#cb1-13" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </details>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Ammonium--N-_cache/html/unnamed-chunk-2_2e758d8ac890d0d737b6cdb157ed5d90">
 <details>
 <summary>load data &amp; skim</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>parameter_name <span class="ot">&lt;-</span> params<span class="sc">$</span>parameter_name</span>
@@ -243,7 +243,7 @@ <h1>Ammonium (N) Report</h1>
 7  1988         2001      2005      2022   ▇▃▆▁▅</code></pre>
 </div>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Ammonium--N-_cache/html/unnamed-chunk-3_b0aab9296260119092eebff1cce2a35b">
 <details>
 <summary>create <code>params$parameter_name</code> histogram</summary>
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a>ggplot2<span class="sc">::</span><span class="fu">ggplot</span>(subset_data, <span class="fu">aes</span>(<span class="at">x=</span>Value)) <span class="sc">+</span></span>

diff --git a/parameter_reports/Chlorophyll a.html b/parameter_reports/Chlorophyll a.html
@@ -173,7 +173,7 @@ <h1 class="title">Chlorophyll a</h1>
 
 <section id="chlorophyll-a-report" class="level1">
 <h1>Chlorophyll a Report</h1>
-<div class="cell">
+<div class="cell" data-hash="Chlorophyll-a_cache/html/setup_de0971e1f5a459736a69fbd503a297d1">
 <details>
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -191,7 +191,7 @@ <h1>Chlorophyll a Report</h1>
 <span id="cb1-13"><a href="#cb1-13" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </details>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Chlorophyll-a_cache/html/unnamed-chunk-2_af1ac4484f70f2817abf8e7f992976a3">
 <details>
 <summary>load data &amp; skim</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>parameter_name <span class="ot">&lt;-</span> params<span class="sc">$</span>parameter_name</span>
@@ -243,7 +243,7 @@ <h1>Chlorophyll a Report</h1>
 7  1998     2005      2021  ▇▇▅▁▃</code></pre>
 </div>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Chlorophyll-a_cache/html/unnamed-chunk-3_6511677e637bb74d953e7e7e18436399">
 <details>
 <summary>create <code>params$parameter_name</code> histogram</summary>
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a>ggplot2<span class="sc">::</span><span class="fu">ggplot</span>(subset_data, <span class="fu">aes</span>(<span class="at">x=</span>Value)) <span class="sc">+</span></span>

diff --git a/parameter_reports/Nitrate (N).html b/parameter_reports/Nitrate (N).html
@@ -173,7 +173,7 @@ <h1 class="title">Nitrate (N)</h1>
 
 <section id="nitrate-n-report" class="level1">
 <h1>Nitrate (N) Report</h1>
-<div class="cell">
+<div class="cell" data-hash="Nitrate--N-_cache/html/setup_ef5599bdbbc698aef396ac3ec8889164">
 <details>
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -191,7 +191,7 @@ <h1>Nitrate (N) Report</h1>
 <span id="cb1-13"><a href="#cb1-13" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </details>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrate--N-_cache/html/unnamed-chunk-2_7333bc39c0e1aa112bf5f398b55b56db">
 <details>
 <summary>load data &amp; skim</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>parameter_name <span class="ot">&lt;-</span> params<span class="sc">$</span>parameter_name</span>
@@ -243,7 +243,7 @@ <h1>Nitrate (N) Report</h1>
 7   1988         1988         1998         2020   ▇▃▁▁▁</code></pre>
 </div>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrate--N-_cache/html/unnamed-chunk-3_0c8434dafd5b4b965ed15b8e1370b507">
 <details>
 <summary>create <code>params$parameter_name</code> histogram</summary>
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a>ggplot2<span class="sc">::</span><span class="fu">ggplot</span>(subset_data, <span class="fu">aes</span>(<span class="at">x=</span>Value)) <span class="sc">+</span></span>

diff --git a/parameter_reports/Nitrate-Nitrite (N).html b/parameter_reports/Nitrate-Nitrite (N).html
@@ -173,7 +173,7 @@ <h1 class="title">Nitrate-Nitrite (N)</h1>
 
 <section id="nitrate-nitrite-n-report" class="level1">
 <h1>Nitrate-Nitrite (N) Report</h1>
-<div class="cell">
+<div class="cell" data-hash="Nitrate-Nitrite--N-_cache/html/setup_9809de6bf0b73783fbbb711ce9b091d6">
 <details>
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -191,7 +191,7 @@ <h1>Nitrate-Nitrite (N) Report</h1>
 <span id="cb1-13"><a href="#cb1-13" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </details>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrate-Nitrite--N-_cache/html/unnamed-chunk-2_3b452a0f263223f9c8274307a5a252e4">
 <details>
 <summary>load data &amp; skim</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>parameter_name <span class="ot">&lt;-</span> params<span class="sc">$</span>parameter_name</span>
@@ -243,7 +243,7 @@ <h1>Nitrate-Nitrite (N) Report</h1>
 7   1988        2001       2005       2022  ▇▅▆▁▅</code></pre>
 </div>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrate-Nitrite--N-_cache/html/unnamed-chunk-3_784740753e687a6f40327e0768307c18">
 <details>
 <summary>create <code>params$parameter_name</code> histogram</summary>
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a>ggplot2<span class="sc">::</span><span class="fu">ggplot</span>(subset_data, <span class="fu">aes</span>(<span class="at">x=</span>Value)) <span class="sc">+</span></span>

diff --git a/parameter_reports/Nitrite (N).html b/parameter_reports/Nitrite (N).html
@@ -173,7 +173,7 @@ <h1 class="title">Nitrite (N)</h1>
 
 <section id="nitrite-n-report" class="level1">
 <h1>Nitrite (N) Report</h1>
-<div class="cell">
+<div class="cell" data-hash="Nitrite--N-_cache/html/setup_7e6a5a3387a04151aca09e283ae05e2d">
 <details>
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -191,7 +191,7 @@ <h1>Nitrite (N) Report</h1>
 <span id="cb1-13"><a href="#cb1-13" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </details>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrite--N-_cache/html/unnamed-chunk-2_0ba9227e3cee5160dcc1da6862b895aa">
 <details>
 <summary>load data &amp; skim</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>parameter_name <span class="ot">&lt;-</span> params<span class="sc">$</span>parameter_name</span>
@@ -243,7 +243,7 @@ <h1>Nitrite (N) Report</h1>
 7   1988          1988          2015       2020    ▇▃▁▁▃</code></pre>
 </div>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrite--N-_cache/html/unnamed-chunk-3_a3f87c059c6e160f6561a22d6e39bb65">
 <details>
 <summary>create <code>params$parameter_name</code> histogram</summary>
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a>ggplot2<span class="sc">::</span><span class="fu">ggplot</span>(subset_data, <span class="fu">aes</span>(<span class="at">x=</span>Value)) <span class="sc">+</span></span>

diff --git a/parameter_reports/Nitrogen- Total Kjeldahl.html b/parameter_reports/Nitrogen- Total Kjeldahl.html
@@ -173,7 +173,7 @@ <h1 class="title">Nitrogen- Total Kjeldahl</h1>
 
 <section id="nitrogen--total-kjeldahl-report" class="level1">
 <h1>Nitrogen- Total Kjeldahl Report</h1>
-<div class="cell">
+<div class="cell" data-hash="Nitrogen--Total-Kjeldahl_cache/html/setup_16513ca69684972cc98ddfb75ff68bbb">
 <details>
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="cf">if</span> (<span class="sc">!</span><span class="fu">requireNamespace</span>(<span class="st">"librarian"</span>, <span class="at">quietly =</span> <span class="cn">TRUE</span>)) {</span>
@@ -191,7 +191,7 @@ <h1>Nitrogen- Total Kjeldahl Report</h1>
 <span id="cb1-13"><a href="#cb1-13" aria-hidden="true" tabindex="-1"></a>data <span class="ot">&lt;-</span> <span class="fu">getData</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </details>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrogen--Total-Kjeldahl_cache/html/unnamed-chunk-2_4e9160eb0495572469a2212bf5fc5e6c">
 <details>
 <summary>load data &amp; skim</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>parameter_name <span class="ot">&lt;-</span> params<span class="sc">$</span>parameter_name</span>
@@ -243,7 +243,7 @@ <h1>Nitrogen- Total Kjeldahl Report</h1>
 7   1988      2001       2010       2022  ▇▂▃▁▅</code></pre>
 </div>
 </div>
-<div class="cell">
+<div class="cell" data-hash="Nitrogen--Total-Kjeldahl_cache/html/unnamed-chunk-3_deb68d09992450bcb7daa5c5773d48f1">
 <details>
 <summary>create <code>params$parameter_name</code> histogram</summary>
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a>ggplot2<span class="sc">::</span><span class="fu">ggplot</span>(subset_data, <span class="fu">aes</span>(<span class="at">x=</span>Value)) <span class="sc">+</span></span>