Make pkgdown

.Rbuildignore

@@ -11,3 +11,6 @@ LICENSE
 .github/
 cran-comments.md
 ^CRAN-SUBMISSION$
+^_pkgdown\.yml$
+^docs$
+^pkgdown$

Clarity.txt

@@ -0,0 +1,7 @@
+<script type="text/javascript">
+    (function(c,l,a,r,i,t,y){
+        c[a]=c[a]||function(){(c[a].q=c[a].q||[]).push(arguments)};
+        t=l.createElement(r);t.async=1;t.src="https://www.clarity.ms/tag/"+i;
+        y=l.getElementsByTagName(r)[0];y.parentNode.insertBefore(t,y);
+    })(window, document, "clarity", "script", "m9r3j2v7dj");
+</script>

DESCRIPTION

@@ -18,7 +18,7 @@ Description: Animal abundance estimation via conventional, multiple covariate
     fitting is performed via maximum likelihood. Also included are diagnostics
     and plotting for fitted detection functions. Abundance estimation is via a
     Horvitz-Thompson-like estimator.
-Version: 3.0.0
+Version: 3.0.0.9000
 URL: https://github.com/DistanceDevelopment/mrds/
 BugReports: https://github.com/DistanceDevelopment/mrds/issues
 Depends:
@@ -31,6 +31,7 @@ Imports:
     nloptr,
     Rsolnp
 Suggests:
+    Distance,
     testthat,
     covr,
     knitr,

R/flnl.grad.R

@@ -1,3 +1,5 @@
+#' Gradients of negative log likelihood function
+#'
 #' This function derives the gradients of the negative log likelihood function, 
 #' with respect to all parameters. It is based on the theory presented in 
 #' Introduction to Distance Sampling (2001) and Distance Sampling: Methods and

_pkgdown.yml

@@ -0,0 +1,43 @@
+url: ~
+template:
+  bootstrap: 5
+  bslib:
+    bg: "#fcfaf2"
+    fg: "#14059e"
+    primary: "#0542a3"
+    base_font: {google: "Roboto"}
+  includes:
+    in_header: |
+      <script type="text/javascript">(function(c,l,a,r,i,t,y){c[a]=c[a]||function(){(c[a].q=c[a].q||[]).push(arguments)}; t=l.createElement(r);t.async=1;t.src="https://www.clarity.ms/tag/"+i; y=l.getElementsByTagName(r)[0];y.parentNode.insertBefore(t,y);})(window, document, "clarity", "script", "m9r3j2v7dj");</script>
+
+reference:
+
+navbar:
+  bg: primary
+  structure:
+    right: [twitter, github]
+  components:
+    twitter:
+      icon: fa-twitter
+      href: https://twitter.com/distancesamp
+      aria-label: Twitter
+  left:
+    - text: Function reference
+      href: reference/index.html
+    - text: Articles
+      menu:
+        - text: Point and full independence
+          href: articles/mrds-golftees.html
+    - text: News
+      href: news/index.html
+
+footer:
+  structure:
+    right: donate
+    left: clarity
+  components:
+    donate: "If you wish to donate to development and maintenance, please <a href='mailto:[email protected]'>email us</a>."
+    clarity:  "We improve our site and software support by using Microsoft Clarity to see <br>
+      how you use our website. By using our site, you agree that we and Microsoft <br>
+      can collect and use this data. Clarity is GDPR compliant."
+