Merge pull request #2 from som-shahlab/dependabot/npm_and_yarn/babel/…

…traverse-7.23.9

Bump @babel/traverse from 7.15.4 to 7.23.9

.editorconfig

@@ -8,4 +8,4 @@ indent_size = 2
 end_of_line = lf
 charset = utf-8
 trim_trailing_whitespace = true
-insert_final_newline = true
+insert_final_newline = true

.eslintignore

@@ -1,4 +1,4 @@
 assets/js/index.js
 assets/js/katex.js
 assets/js/vendor
-node_modules
+node_modules

.eslintrc.json

@@ -28,4 +28,4 @@
       }
     ]
   }
-}
+}

.gitignore

@@ -3,4 +3,4 @@ public
 resources
 # Local Netlify folder
 .netlify
-TODO
+TODO

.markdownlint.json

@@ -7,4 +7,4 @@
   "no-trailing-punctuation": false,
   "no-duplicate-heading": false,
   "no-bare-urls": false
-}
+}

.markdownlintignore

@@ -1,3 +1,3 @@
 node_modules
 CHANGELOG.md
-README.md
+README.md

.stylelintignore

@@ -1,3 +1,3 @@
 assets/scss/components/_syntax.scss
 assets/scss/vendor
-node_modules
+node_modules

.stylelintrc.json

@@ -31,4 +31,4 @@
       }
     ]
   }
-}
+}

archetypes/docs.md

@@ -6,7 +6,7 @@ date: {{ .Date }}
 lastmod: {{ .Date }}
 draft: true
 images: []
-menu: 
+menu:
   docs:
     parent: ""
 weight: 999

babel.config.js

@@ -14,4 +14,4 @@ module.exports = {
       }
     ]
   ]
-};
+};

config/_default/menus.toml

@@ -48,4 +48,4 @@
 # [[footer]]
 # name = "Privacy"
 # url = "/privacy-policy/"
-# weight = 10
+# weight = 10

config/_default/params.toml

@@ -73,4 +73,4 @@ editPage = false
   breadCrumb = false
   highLight = true
   kaTex = false
-  collapsibleSidebar = false
+  collapsibleSidebar = false

layouts/404.html

@@ -7,4 +7,4 @@ <h1 class="text-center">Page not found :(</h1>
     </article>
   </div>
 </div>
-{{ end }}
+{{ end }}

layouts/_default/baseof.html

@@ -27,4 +27,4 @@
     {{ end }}
     {{ partial "footer/script-footer.html" . }}
   </body>
-</html>
+</html>

layouts/_default/index.js

@@ -7,4 +7,4 @@ var docs = [
     href: "{{ .URL | relURL }}"
   },
 {{ end -}}
-];
+];

layouts/_default/index.json

@@ -2,4 +2,4 @@
 {{- range .Site.RegularPages -}}
   {{- $.Scratch.Add "index" (dict "title" .Title "description" .Params.description "contents" .Plain "RelPermalink" .RelPermalink) -}}
 {{- end -}}
-{{- $.Scratch.Get "index" | jsonify -}}
+{{- $.Scratch.Get "index" | jsonify -}}

layouts/_default/list.html

@@ -10,4 +10,4 @@ <h2><a href="{{ .RelPermalink }}">{{ .Title }}</a></h2>
   {{ template "_internal/pagination.html" . }}
   </div>
 </div>
-{{ end }}
+{{ end }}

layouts/_default/section.sitemap.xml

@@ -43,4 +43,4 @@
       {{ end -}}
     {{ end -}}
   {{ end -}}
-</urlset>
+</urlset>

layouts/blog/list.html

@@ -18,4 +18,4 @@ <h2 class="h3"><a class="stretched-link text-body" href="{{ .RelPermalink }}">{{
     </article>
   </div>
 </div>
-{{ end }}
+{{ end }}

layouts/blog/single.html

@@ -11,4 +11,4 @@ <h1>{{ .Title }}</h1>
     </article>
   </div>
 </div>
-{{ end }}
+{{ end }}

layouts/contributors/list.html

@@ -20,4 +20,4 @@ <h2 class="h3"><a class="stretched-link text-body" href="{{ .RelPermalink }}">{{
     </article>
   </div>
 </div>
-{{ end }}
+{{ end }}

layouts/docs/list.html

@@ -19,4 +19,4 @@ <h1 class="text-center">{{ .Title }}</h1>
     </article>
   </div>
 </div>
-{{ end }}
+{{ end }}

layouts/docs/single.html

@@ -37,4 +37,4 @@ <h1>{{ .Title }}</h1>
 			{{ end -}}
 		</main>
 	</div>
-{{ end }}
+{{ end }}

layouts/index.headers

@@ -6,4 +6,4 @@
   X-Frame-Options: SAMEORIGIN
   Referrer-Policy: strict-origin
   Feature-Policy: geolocation 'self'
-  Cache-Control: public, max-age=31536000
+  Cache-Control: public, max-age=31536000

layouts/index.html

@@ -28,7 +28,7 @@ <h1 class="mt-0">{{ .Title }}</h1>
         </div>
 
         <section class="section section-sm">
-      
+
             <div class="row justify-content-center text-center">
               <div class="col-lg-5">
                 <h2 class="h4"><a href="https://medalign-4b245550a5e9.herokuapp.com/">Contribute instructions</a></h2>
@@ -47,9 +47,9 @@ <h2 class="h4"><a href="docs/dataset/access">Dataset access</a></h2>
             </div>
           </div>
         </section>
-    
+
         <!-- Third  Row -->
-        <div style="text-align: justify; text-justify: inter-word;"> 
+        <div style="text-align: justify; text-justify: inter-word;">
             </p style="text-align: justify; text-justify: inter-word;"> The ability of large language models (LLMs) to follow natural language instructions with human-level fluency suggests many opportunities in healthcare to reduce administrative burden and improve quality of care. However, evaluating LLMs on realistic text generation tasks for healthcare remains challenging. Existing question answering datasets for electronic health record (EHR) data fail to capture the complexity of information needs and documentation burdens experienced by clinicians. To address these challenges, we introduce MedAlign, a benchmark dataset of 983 natural language instructions for EHR data. MedAlign is curated by 15 clinicians (7 specialities), includes clinician-written reference responses for 303 instructions, and provides 276 longitudinal EHRs for grounding instruction-response pairs. We used MedAlign to evaluate 6 general domain LLMs, having clinicians rank the accuracy and quality of each LLM response. We found high error rates, ranging from 35% (GPT-4) to 68% (MPT-7B-Instruct), and an 8.3% drop in accuracy moving from 32k to 2k context lengths for GPT-4. Finally, we report correlations between clinician rankings and automated natural language generation metrics as a way to rank LLMs without human review. We make MedAlign available under a research data use agreement to enable LLM evaluations on tasks aligned with clinician needs and preferences.<p>
         </div>
 
@@ -61,17 +61,17 @@ <h2 class="h4"><a href="docs/dataset/access">Dataset access</a></h2>
   </div>
 
 </div>
-    
+
 </div>
-   
+
 
 </section>
 {{ end }}
 
 {{ define "sidebar-prefooter" }}
 <!-- <section class="section section-sm">
 
-  
+
   <div class="container">
     <div class="row justify-content-center text-center">
       <div class="col-lg-5">
@@ -81,7 +81,7 @@ <h2 class="h4"><a href="docs/dataset/access">Download instructions</a></h2>
           DUA in coming months. See <a href="docs/dataset/access">here</a> for more details.
         </p>
         <a class="btn btn-primary btn-lg px-4 mb-2" href="https://medalign-4b245550a5e9.herokuapp.com/"
-          role="button">Get access</a> 
+          role="button">Get access</a>
       </div>
       <div class="col-lg-5">
         <h2 class="h4"><a href="https://medalign-4b245550a5e9.herokuapp.com/">Contribute instructions</a></h2>
@@ -129,4 +129,4 @@ <h3>Citation</h3>
     </div>
   </div>
 </section> -->
-{{ end }}
+{{ end }}

layouts/index.redirects

@@ -3,4 +3,4 @@
 {{- range .Aliases }}
 {{ . }} {{ $p.RelPermalink -}}
 {{- end }}
-{{- end -}}
+{{- end -}}

layouts/partials/footer/alert.html

@@ -1,3 +1,3 @@
 <div class="alert alert-primary fixed-bottom text-center" role="alert">
   {{ .Site.Params.alertText | safeHTML }}
-</div>
+</div>

layouts/partials/footer/footer.html

@@ -15,4 +15,4 @@
       </div>
     </div>
   </div>
-</footer>
+</footer>

layouts/partials/footer/script-footer.html

@@ -96,4 +96,4 @@
   {{ if .Site.Params.options.flexSearch -}}
     <script src="{{ $index.RelPermalink }}" integrity="{{ $index.Data.Integrity }}" crossorigin="anonymous" defer></script>
   {{ end -}}
-{{ end -}}
+{{ end -}}

layouts/partials/head/head.html

@@ -16,4 +16,4 @@
   {{ block "head/seo" . }}{{ partial "head/seo.html" . }}{{ end }}
   {{ block "head/favicons" . }}{{ partial "head/favicons.html" . }}{{ end }}
   {{ block "head/script-header" . }}{{ partial "head/script-header.html" . }}{{ end }}
-</head>
+</head>

layouts/partials/head/resource-hints.html

@@ -3,4 +3,4 @@
 {{ if .Site.Params.options.kaTex -}}
   <link rel="preload" as="font" href="{{ "fonts/KaTeX_Main-Regular.woff2" | absURL }}" type="font/woff2" crossorigin>
   <link rel="preload" as="font" href="{{ "fonts/KaTeX_Math-Italic.woff2" | absURL }}" type="font/woff2" crossorigin>
-{{ end -}}
+{{ end -}}

layouts/partials/head/structured-data.html

@@ -207,4 +207,4 @@
 
   ]
 }
-</script>
+</script>

layouts/partials/head/stylesheet.html

@@ -8,4 +8,4 @@
   {{ $secureCSS := $css | resources.Fingerprint "sha512" -}}
   <link rel="stylesheet" href="{{ $secureCSS.Permalink | relURL }}" integrity="{{ $secureCSS.Data.Integrity }}" crossorigin="anonymous">
 {{ end -}}
-<noscript><style>img.lazyload { display: none; }</style></noscript>
+<noscript><style>img.lazyload { display: none; }</style></noscript>

layouts/partials/head/twitter_cards.html

@@ -21,4 +21,4 @@
     {{ end -}}
   {{ end -}}
 {{ end -}}
-<meta name="twitter:image:alt" content="{{ .Title }}">
+<meta name="twitter:image:alt" content="{{ .Title }}">

layouts/partials/header/header.html

@@ -40,4 +40,4 @@
       {{ end -}}
     </div>
   </div>
-</header>
+</header>

layouts/partials/main/blog-meta.html

@@ -1 +1 @@
-<p><small>Posted {{ .PublishDate.Format "January 2, 2006" }} by {{ if .Params.contributors -}}{{ range $index, $contributor := .Params.contributors }}{{ if gt $index 0 }} and {{ end }}<a class="stretched-link position-relative" href="{{ "/contributors/" | relURL }}{{ . | urlize }}/">{{ . }}</a>{{ end -}}{{ end -}}&nbsp;&hyphen;&nbsp;<strong>{{ .ReadingTime -}}&nbsp;min read</strong></small><p>
+<p><small>Posted {{ .PublishDate.Format "January 2, 2006" }} by {{ if .Params.contributors -}}{{ range $index, $contributor := .Params.contributors }}{{ if gt $index 0 }} and {{ end }}<a class="stretched-link position-relative" href="{{ "/contributors/" | relURL }}{{ . | urlize }}/">{{ . }}</a>{{ end -}}{{ end -}}&nbsp;&hyphen;&nbsp;<strong>{{ .ReadingTime -}}&nbsp;min read</strong></small><p>

layouts/partials/main/breadcrumb.html

@@ -1,4 +1,4 @@
 {{ with .Parent -}}
   {{ partial "main/breadcrumb.html" . -}}
   <li class="breadcrumb-item"><a href="{{ .RelPermalink }}">{{ if .IsHome }}Home{{ else }}{{ .Title }}{{ end }}</a></li>
-{{ end -}}
+{{ end -}}

layouts/partials/main/docs-navigation.html

@@ -21,4 +21,4 @@
 		</a>
 	{{ end -}}
 	</div>
-{{ end -}}
+{{ end -}}

layouts/partials/main/headline-hash.html

@@ -1 +1 @@
-{{ . | replaceRE "(<h[2-9] id=\"([^\"]+)\".+)(</h[2-9]+>)" `${1}<a href="#${2}" class="anchor" aria-hidden="true">#</a> ${3}` | safeHTML }}
+{{ . | replaceRE "(<h[2-9] id=\"([^\"]+)\".+)(</h[2-9]+>)" `${1}<a href="#${2}" class="anchor" aria-hidden="true">#</a> ${3}` | safeHTML }}

layouts/partials/sidebar/docs-menu.html

@@ -36,4 +36,4 @@ <h3>{{ .Name }}</h3>
     </ul>
     {{ end -}}
   {{ end -}}
-{{ end -}}
+{{ end -}}

layouts/partials/sidebar/docs-toc.html

@@ -3,4 +3,4 @@
     <h3>On this page</h3>
     {{ .TableOfContents }}
   </div>
-{{ end -}}
+{{ end -}}

layouts/shortcodes/email.html

@@ -1 +1 @@
-<script type="text/javascript" nonce="dXNlcj0iaGVsbG8iLGRvbWFpbj0iaGVua3ZlcmxpbmRlLmNvbSIsZG9jdW1lbnQud3JpdGUodXNlcisiQCIrZG9tYWluKTs=">user="{{ with .Get "user" }}{{.}}{{ end }}",domain="{{ with .Get "domain" }}{{.}}{{ end }}",document.write(user+"@"+domain);</script><noscript>{{ with .Get "user" }}{{.}}{{ end }} at {{ with .Get "domain" }}{{.}}{{ end }}</noscript>
+<script type="text/javascript" nonce="dXNlcj0iaGVsbG8iLGRvbWFpbj0iaGVua3ZlcmxpbmRlLmNvbSIsZG9jdW1lbnQud3JpdGUodXNlcisiQCIrZG9tYWluKTs=">user="{{ with .Get "user" }}{{.}}{{ end }}",domain="{{ with .Get "domain" }}{{.}}{{ end }}",document.write(user+"@"+domain);</script><noscript>{{ with .Get "user" }}{{.}}{{ end }} at {{ with .Get "domain" }}{{.}}{{ end }}</noscript>

layouts/shortcodes/img-simple.html

@@ -1,3 +1,3 @@
 {{ $image := .Page.Resources.GetMatch (printf "*%s*" (.Get "src")) -}}
 {{ $lqip := $image.Resize $.Site.Params.lqipWidth -}}
-<img class="img-simple img-fluid lazyload blur-up{{ with .Get "class" }} {{.}}{{ end }}" src="{{ $lqip.RelPermalink }}" data-src="{{ $image.RelPermalink }}" width="{{ $image.Width }}" height="{{ $image.Height }}" {{ with .Get "alt" }}alt="{{.}}"{{ end }}>
+<img class="img-simple img-fluid lazyload blur-up{{ with .Get "class" }} {{.}}{{ end }}" src="{{ $lqip.RelPermalink }}" data-src="{{ $image.RelPermalink }}" width="{{ $image.Width }}" height="{{ $image.Height }}" {{ with .Get "alt" }}alt="{{.}}"{{ end }}>