Ontoportal align: Set EcoPortal local example and placeholder texts

app/views/annotator/index.html.haml

@@ -9,8 +9,9 @@
       %h2.mt-3 Annotator
       %p
         = t('annotator.index.intro', site: $SITE).html_safe
-        = link_to(help_path(anchor: "Annotator_Tab"), id: "annotator-help", target: "_blank") do
-          %i.fa.fa-question-circle.fa-lg{"aria-hidden": "true"}
+        = link_to(Rails.configuration.settings.links[:help_annotator], target: '_blank') do
+          %i.fas.fa-question-circle.fa-lg
+
 
   %div.row
     %div.col

app/views/mappings/_concept_mappings_selector.html.haml

@@ -3,7 +3,7 @@
     %h2.mb-0
       %button.btn.btn-link.btn-block.text-left.collapsed{"data-target" => "#collapseTwo", "data-toggle" => "collapse", :type => "button"}
         Find mappings of a class/concept
-        = link_to(Rails.configuration.settings.links[:mappings], id: "mappings-help", "aria-label": "View mappings help") do
+        = link_to(Rails.configuration.settings.links[:help_mappings], target: '_blank') do
           %i.fas.fa-question-circle.fa-lg{"aria-hidden": "true"}
   #collapseTwo.collapse{"data-parent" => "#accordionExample"}
     .card-body

app/views/mappings/_ontology_mappings.html.haml

@@ -3,7 +3,7 @@
     %h2.mb-0
       %button.btn.btn-link.btn-block.text-left{"data-target" => "#collapseOne", "data-toggle" => "collapse", :type => "button"}
         = t('mappings.intro').html_safe
-        = link_to(Rails.configuration.settings.links[:mappings], id: "mappings-help", "aria-label": "View mappings help") do
+        = link_to(Rails.configuration.settings.links[:help_mappings], target: '_blank') do
           %i.fas.fa-question-circle.fa-lg{"aria-hidden": "true"}
   #collapseOne.collapse{"data-parent" => "#accordionExample"}
     .card-body

app/views/ontologies/browse.html.erb

@@ -11,8 +11,7 @@
   <h1 style="font-size: 3em;">Browse</h1>
   <p>
     <%= t('ontologies.intro').html_safe %>
-    <%= link_to(Rails.configuration.settings.links[:help_ontology_browse], id: 'ontology-browse-help',
-                'aria-label': 'View ontology browse help') do %>
+    <%= link_to(Rails.configuration.settings.links[:help_ontology_browse], target: '_blank') do %>
       <i class='fas fa-question-circle fa-lg' aria-hidden='true'></i>
     <% end %>
   </p>

app/views/recommender/index.html.haml

@@ -3,9 +3,8 @@
 %h2.mt-5 Ontology Recommender
 %p
   = t('recommender.intro').html_safe
-  = link_to(Rails.configuration.settings.links[:help_recommender], id: "recommender-help",
-            "aria-label": "View ontology recommender help") do
-    %i.fas.fa-question-circle.fa-lg{"aria-hidden": "true"}
+  = link_to(Rails.configuration.settings.links[:help_annotator], target: '_blank') do
+    %i.fas.fa-question-circle.fa-lg
 
 %form
   = hidden_field_tag :recommender_sample_text, t('recommender.sample_text')
@@ -16,16 +15,16 @@
     %input#radioItText.form-check-input{name: "input_type", type: "radio", value: "1", checked: "checked"}
     %label.form-check-label{for: "radioItText"} Text
   %div.form-check.form-check-inline
-    %input#radioItKeywords.form-check-input{name: "input_type", type: "radio", value: "2"} 
+    %input#radioItKeywords.form-check-input{name: "input_type", type: "radio", value: "2"}
     %label.form-check-label{for: "radioItKeywords"} Keywords (separated by commas)
 
   -# Specify output format
   %h5.pt-3 Output
   %div.form-check.form-check-inline
-    %input#radioOtSingle.form-check-input{name: "output_type", type: "radio", value: "1", checked: "checked"} 
+    %input#radioOtSingle.form-check-input{name: "output_type", type: "radio", value: "1", checked: "checked"}
     %label.form-check-label{for: "radioOtSingle"} Ontologies
   %div.form-check.form-check-inline
-    %input#radioOtSets.form-check-input{name: "output_type", type: "radio", value: "2"} 
+    %input#radioOtSets.form-check-input{name: "output_type", type: "radio", value: "2"}
     %label.form-check-label{for: "radioOtSets"} Ontology sets
 
   -# Input text or keywords

app/views/search/index.html.haml

@@ -9,7 +9,7 @@
       = text_field_tag("search_keywords", nil, class: "form-control", aria: {describedby: "classSearchHelpBlock"})
       %small#classSearchHelpBlock.form-text.text-muted
         = t(".search_keywords_placeholder")
-        = link_to("help", Rails.configuration.settings.links[:help_search], id: "search-help",
+        = link_to("help", Rails.configuration.settings.links[:help_search], target: '_blank',
                   aria: {label: "View search documentation"}, class: "float-right")
     %div.form-group
       = link_to("Show advanced options", "javascript:void(0)", id: "advanced_options", data: {text_swap: "Hide advanced options"}, class: "form-text")

config/locales/en.yml

@@ -91,30 +91,37 @@ en:
 
   home:
     index:
-      find_ontology_placeholder: Start typing ontology name, then choose from list
-      query_placeholder: Enter a class, e.g. Melanoma
-      tagline: the world's most comprehensive repository of biomedical ontologies
+      find_ontology_placeholder: Start typing resource name, then choose from list
+      query_placeholder: Enter a class, e.g. Shape
+      tagline: the LifeWatch ERIC repository of semantic resources for ecology and related domains
       title: Welcome to the %{organization} 
       welcome: Welcome to %{site},
     help:
-      welcome: Welcome to the National Center for Biomedical Ontology’s %{site}. %{site} is a web-based application for accessing and sharing biomedical ontologies.
+      welcome: Welcome to the LifeWatch ERIC’s %{site}. %{site} is a repository of semantic resources for ecology and related domains.
       getting_started: >
-        %{site} allows users to browse, upload, download, search, comment on, and create mappings for ontologies.
+        %{site} supports the community in the creation, management, mapping and alignment of its semantic resources and subsequently also of its data.
       browse: >
-        Users can browse and explore individual ontologies by navigating either a tree structure or an animated graphical view. Users can also view mappings and 
-        ontology metadata, and download ontologies. Additionally, users who are signed in may submit a new ontology to the library.
-      rest_examples_html: View documentation and examples of the <a href="http://data.bioontology.org/documentation" target="_blank">%{site} REST API</a>.
+        Users can browse and explore individual semantic resources by navigating either a tree structure or 
+        an animated graphical view. Users can also view mappings and semantic resource metadata, and download 
+        semantic resources. Additionally, users who are signed in may also submit a new semantic resource to the 
+        library. All submissions to the library are reviewed.
+      documentation_html: >
+        General documentation is available on <a href="https://github.com/lifewatch-eric/documentation/wiki" target="_blank">GitHub</a>
+      rest_examples_html: View documentation and examples of the <a href="https://data.ecoportal.lifewatch.eu/documentation" target="_blank">%{site} REST API</a>.
       announce_list_html: >
         To receive notices of new releases or site outages, please subscribe to the 
         <a href="https://mailman.stanford.edu/mailman/listinfo/bioontology-support" target="_blank">bioontology-support list</a>.
-
+      contact_html: >
+        If you have any comment or need for support, please email <b>[email protected]</b>. 
+        If you are interested and would like to join our information mailing list, please subscribe to our user mailing 
+        list.
   annotator:
     index:
-      intro: Get annotations for biomedical text with classes from the ontologies
+      intro: Get annotations for ecological text with classes from the semantic resources
       annotatorplus_html: <em>Check out <a href="%{annotatorplus_href}">AnnotatorPlus</a> beta; a new version of the Annotator with added support for negation, and more!</em>
       fast_context:
         tooltip: "Enable FastContext to detect : if a concept has been negated (affirmed, negated), who experienced the found concept (patient, other), when the annotated concept occurred (recent, historical, hypothetical), and/or if the annotated concept is uncertain (certain, uncertain)."
-      sample_text: Melanoma is a malignant tumor of melanocytes which are found predominantly in skin but also in the bowel and the eye.
+      sample_text: Invasive alien species are plants, animals, pathogens and other organisms that are non-native to an ecosystem, and which may cause economic or environmental harm or adversely affect human health.
 
   nbco_annotatosplus:
     index:
@@ -125,15 +132,16 @@ en:
         </br><br/>
         If using the API, please provide a valid NCBO BioPortal apikey and hit the service at <a href="http://services.bioportal.lirmm.fr/ncbo_annotatorplus">http://services.bioportal.lirmm.fr/ncbo_annotatorplus</a></br>
         Text submitted to the NCBO Annotator+ must be in English.
-      sample_text: Melanoma is a malignant tumor of melanocytes which are found predominantly in skin but also in the bowel and the eye.
+      sample_text: Invasive alien species are plants, animals, pathogens and other organisms that are non-native to an ecosystem, and which may cause economic or environmental harm or adversely affect human health.
 
   recommender:
-    intro: Get recommendations for the most relevant ontologies based on an excerpt from a biomedical text or a list of keywords
-
+    intro: Get recommendations for the most relevant semantic resources based on an excerpt from a ecological text or a list of keywords
+    sample_text: Ecological attributes (=ecological characteristics) are features of a taxon such as its range size, life history, geographical distribution, climatic tolerances, habitat types, environmental indicator values, edaphic preferences, and so on, that describe the overall ecology of the taxon.
+    sample_keywords: Ecological attributes (=ecological characteristics) are features of a taxon such as its range size, life history, geographical distribution, climatic tolerances, habitat types, environmental indicator values, edaphic preferences, and so on, that describe the overall ecology of the taxon.
   search:
     index:
-      intro: Search for a class in multiple ontologies
-      search_keywords_placeholder: Enter a class, e.g. Melanoma
+      intro: Search for a class in multiple semantic resources
+      search_keywords_placeholder: Enter a class, e.g. Shape
       categories_placeholder: Start typing to select categories or leave blank to use all
       property_definition: Named association between two entities. Examples are "definition" (a relation between a class and some text) and "part-of" (a relation between two classes).
       obsolete_definition: >
@@ -145,7 +153,7 @@ en:
       intro: Browse a selection of projects that use %{site} resources
 
   ontologies:
-    intro: Browse the library of ontologies
+    intro: Browse the library of semantic resources
 
   concepts:
     request_term:
@@ -167,5 +175,5 @@ en:
           <p>Justification (optional)<br>Provide any additional information about the requested term here.</p>
         </blockquote>
   mappings:
-    intro: Browse mappings between classes in different ontologies
+    intro: Browse mappings between classes in different semantic resources
 

config/settings.yml

@@ -1,5 +1,11 @@
 shared:
   links:
+    help_annotator: 'https://github.com/lifewatch-eric/documentation/wiki/EcoTools#annotator'
+    help_mappings: 'https://github.com/lifewatch-eric/documentation/wiki/EcoTools#mappings'
+    help_ontology_browse: 'https://github.com/lifewatch-eric/documentation/wiki/EcoTools#browse'
+    help_recommender: 'https://github.com/lifewatch-eric/documentation/wiki/EcoTools#recommender'
+    help_search: 'https://github.com/lifewatch-eric/documentation/wiki/EcoTools#search'
+    metrics: 'https://www.bioontology.org/wiki/Ontology_Metrics'
     about: '/about'
     cite: '/citeus'
     facebook: 'https://www.facebook.com/LifeWatch-ERIC-245225669516847'